Psyllid ID: psy3029

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------
Protein Sequence
MTIWDNHSLTHNTYLPTYYETDLFLLNRTNQSKEQLRRKQKEGKIQTSSLTEVSVNLPKLNYQKNNKNKKKTLIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPTRNREGATTGRITEPDTMNNNNKKKNRVATTGRPVRSRGGPDRLAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAISKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSCLRPS
Secondary Structure (PSIPRED)
ccccccccccccccccccEEccEEEEEcccccHHHHHHHHHcccccccccEEEEEcccccHHHccccccccccHHHHHHHHHccccccccccccccccccccccccEEEEEEEEEcccHHHHHHHcccccccccccccccEEEEEEEEEEccEEEEEEEEEcccccHHcccccHHHHcccEEEEEEEcccHHHHHHHHHHHHHHHHccccccEEEEEEEcccccccccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcEEEEEcccEEEEEEEccccccccccccccEEEEEEEEEEccEEEEEEEEcccccccccccccccccccEEcccccHHHHHHHHHHHHHHHcccccccccccccEEEccccccccHHHHHHHHHccccEEEEEEccccHHHHHHHHHHHHHHHHHHHccccccccccccccccEEEEEccccccHHHHHccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEcccccccccHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccEEcccccccccccccccHHHHHHHHHHcccccEEEcccccccEEEEEHHHEHEcccHHHHcccccccccccccHHccccccccccccccccccccccccHHHHHHHEEEEccccccHHHHHHHHHHcccccccccccccEEEEEEEEccccEEEEEEEEccccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcHHHHHHccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHcHHHHHccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccEEEEEEcccccHHHHHHHHHHcccccccccccEEEEEEEEcccccEEEEEEcccEEEEccccccccccccccccccccccccccccccEEEccccccccccccccEEEcccccEEHHHHHHHEHEEccccEEEEEEccccEcEEEHHHcccEEEEEEEccccccccccccccccEEEEEEEEcccEEEEEEccccHHHHHHHcccccHHHHHcccccccHcccHHHHHHccccccccccHHHHccccccccHHHHHHHHHHHHHcccccHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
mtiwdnhslthntylptyyetdlfllnRTNQSKEQLRRKQKegkiqtssltevsvnlpklnyqknnknkkktlIPYLEMLVSNKIKVGLLSDKFVVGLsinsrvpncfeanwfwlgvgkTSMVVRYIGKMFshhisptigasFFTAkinvgenkvKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGnktdlessrevNREEAFHYSksiggtyyetsalqdqgiEDVFLNVSKGLICLsqeslhtsslrvydsdnitsanprgvveitplssldtpplteaetAKFVVGLSinsrvpncfeanwfwlgvgkTSMVVRYIGKMFshhisptigasFFTAKINVGENKVKLQLRTglkvskipvptrnregattgritepdtmnnnnkkknrvattgrpvrsrggpdrlainpegvycnaRFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMThqvdpenpqcidpntvvdmkifkLDDIVRieaknvdleyavrdtfatdTAISkfngvigerelepwaedmlgpggdddfeldqmcnhnvgtatSSIKMFIFPliqvapytmEESVLAIQSCLRPS
Flexible Loop (DISEMBL)
mtiwdnhslthnTYLPTYYETDLFLLNRTNQSKEQLRRkqkegkiqtssltevsvnlpklnyqknnknkkktlIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVgnktdlessrevnreEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDnitsanprgvveitplssldtpplTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLqlrtglkvskipvptrnregattgritepdtmnnnnkkknrvattgrpvrsrggpdrlaiNPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHqvdpenpqcidpnTVVDMKIFKLDDIVRIeaknvdleyavrdtfatdtaiSKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSCLRPS
Low Complexity Region (SEG)
MTIWDNHSLTHNTYLPTYYETDLFLLNRTNQSKEQLRRKQKEGKIQTSSLTEVSVnlpklnyqknnknkkktlIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPTRNREGATTGRITEPDTMNNNNKKKNRVATTGRPVRSRGGPDRLAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAISKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSCLRPS
Disordered region (IsUnstruct)
**IWDNHSLTHNTYLPTYYETDLFLLN*******************************************KTLIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD**********EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNIT*****GVVEITPL*******LTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVS************************************************LAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAISKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSC****
Disordered Region (DISOPRED)
*TI***HSLTHNTYLPTYYETDLFLL************************TEVSVNLPKLN***********LIPYL*****************************CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK**********************************************************INSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPTRNREGATTGRITEPDTMNNNNKKK*************GGPDRLAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFEL********************VVDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAISKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSCLR**
Disordered Region (DISEMBL)
MTIWDNHSLTHNTYLPTYYETDLFLLNRTNQ**************QTSSLTEVSVNLPKLNYQKNNKNKKKTLIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD*********EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPTRNREGATTGRITEPDTMNNNNKKKNRVATTGRPVRSRGGPDRLAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAISKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSCLRPS
Disordered Region (DISPRO)
*TIWDNHSLTHNTYLPTYYETDLFLLNRTNQSKEQLRRKQKEGKIQTSSLTEVSVNLPKLNYQKNNKNKKKTLIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQE**************************************************INSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPTR*********ITEPDTMNNN***KN*VATTGRPVRSRGGPDRLAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAISKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSCLRP*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTIWDNHSLTHNTYLPTYYETDLFLLNRTNQSKEQLRRKQKEGKIQTSSLTEVSVNLPKLNYQKNNKNKKKTLIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPTRNREGATTGRITEPDTMNNNNKKKNRVATTGRPVRSRGGPDRLAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAISKFNGVIGERELEPWAEDMLGPGGDDDFELDQMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQSCLRPS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	617	2.2.26 [Sep-21-2011]
Q17R06	222	Ras-related protein Rab-2	yes	N/A	0.252	0.702	0.487	2e-40
Q9UL25	225	Ras-related protein Rab-2	yes	N/A	0.252	0.693	0.487	2e-40
P55745	223	Ras-related protein Rab-2	yes	N/A	0.252	0.699	0.487	2e-40
Q6AXT5	223	Ras-related protein Rab-2	yes	N/A	0.252	0.699	0.480	3e-40
P35282	222	Ras-related protein Rab-2	yes	N/A	0.252	0.702	0.480	3e-40
Q8MYF2	256	Ras-related protein RabJ	yes	N/A	0.246	0.593	0.486	6e-39
Q13636	194	Ras-related protein Rab-3	no	N/A	0.246	0.783	0.493	7e-37
Q921E2	194	Ras-related protein Rab-3	no	N/A	0.243	0.773	0.5	8e-37
Q6GQP4	194	Ras-related protein Rab-3	no	N/A	0.243	0.773	0.5	9e-37
Q8WQ53	229	Ras-related protein Rab-2	N/A	N/A	0.247	0.668	0.418	2e-36

>sp|Q17R06|RAB21_BOVIN Ras-related protein Rab-21 OS=Bos taurus GN=RAB21 PE=2 SV=1

 Score =  167 bits (424), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 76/156 (48%), Positives = 111/156 (71%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 27  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 86

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 87  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKVDLEKERHVSIQEAES 146

Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
           Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct: 147 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 182

Regulates integrin internalization and recycling, but does not influence the traffic of endosomally translocated receptors in general. As a result, may regulate cell adhesion and migration. During the mitosis of adherent cells, controls the endosomal trafficking of integrins which is required for the successful completion of cytokinesis.
Bos taurus (taxid: 9913)

>sp|Q9UL25|RAB21_HUMAN Ras-related protein Rab-21 OS=Homo sapiens GN=RAB21 PE=1 SV=3

 Score =  167 bits (424), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 76/156 (48%), Positives = 111/156 (71%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 30  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 89

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 90  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 149

Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
           Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct: 150 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 185

Regulates integrin internalization and recycling, but does not influence the traffic of endosomally translocated receptors in general. As a result, may regulate cell adhesion and migration (By similarity). During the mitosis of adherent cells, controls the endosomal trafficking of integrins which is required for the successful completion of cytokinesis.

Homo sapiens (taxid: 9606)

>sp|P55745|RAB21_CANFA Ras-related protein Rab-21 OS=Canis familiaris GN=RAB21 PE=3 SV=3

 Score =  167 bits (424), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 76/156 (48%), Positives = 111/156 (71%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 28  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 87

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 88  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 147

Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
           Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct: 148 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 183

Regulates integrin internalization and recycling, but does not influence the traffic of endosomally translocated receptors in general. As a result, may regulate cell adhesion and migration. During the mitosis of adherent cells, controls the endosomal trafficking of integrins which is required for the successful completion of cytokinesis.

Canis familiaris (taxid: 9615)

>sp|Q6AXT5|RAB21_RAT Ras-related protein Rab-21 OS=Rattus norvegicus GN=Rab21 PE=2 SV=1

 Score =  167 bits (422), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 75/156 (48%), Positives = 111/156 (71%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 28  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 87

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+D+T   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 88  RDSNGAILVYDVTDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 147

Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
           Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct: 148 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 183

Regulates integrin internalization and recycling, but does not influence the traffic of endosomally translocated receptors in general. As a result, may regulate cell adhesion and migration. During the mitosis of adherent cells, controls the endosomal trafficking of integrins which is required for the successful completion of cytokinesis.

Rattus norvegicus (taxid: 10116)

>sp|P35282|RAB21_MOUSE Ras-related protein Rab-21 OS=Mus musculus GN=Rab21 PE=1 SV=4

 Score =  167 bits (422), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 75/156 (48%), Positives = 111/156 (71%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 28  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 87

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+D+T   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 88  RDSNGAILVYDVTDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 147

Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
           Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct: 148 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 183

Regulates integrin internalization and recycling, but does not influence the traffic of endosomally translocated receptors in general. As a result, may regulate cell adhesion and migration. During the mitosis of adherent cells, controls the endosomal trafficking of integrins which is required for the successful completion of cytokinesis.

Mus musculus (taxid: 10090)

>sp|Q8MYF2|RABJ_DICDI Ras-related protein RabJ OS=Dictyostelium discoideum GN=rabJ PE=3 SV=1

 Score =  162 bits (411), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 74/152 (48%), Positives = 106/152 (69%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT++ +RY+  +F   ++ TIGASF T  IN+  NK+K  +WD+AGQ+RFRS+A +YY
Sbjct: 20  VGKTALSLRYVDGIFPKRLTSTIGASFLTRTINIEGNKIKYLIWDSAGQDRFRSLATLYY 79

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A  A+LVFDITQ  +F  +K WV+ELK N+ E +++ + GNK DLE +R+V  E A  
Sbjct: 80  RGACVAILVFDITQQKTFDIVKGWVEELKANIQEEIIMVLCGNKIDLEQNRQVKSETAKL 139

Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           Y+  I   Y ETSA +++G+E +FL + K LI
Sbjct: 140 YADEINAMYVETSAKENEGVEGMFLEIGKKLI 171

Dictyostelium discoideum (taxid: 44689)

>sp|Q13636|RAB31_HUMAN Ras-related protein Rab-31 OS=Homo sapiens GN=RAB31 PE=1 SV=1

 Score =  155 bits (393), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 75/152 (49%), Positives = 102/152 (67%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V R++   F H+ISPTIGASF T  +  G    K  +WDTAGQERF S+APMY
Sbjct: 15  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  SF  +K WVKELK +  E +V+ + GNK DL   REV  ++A 
Sbjct: 75  YRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAK 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y++SIG    ETSA     IE++F  +S+ +
Sbjct: 135 EYAESIGAIVVETSAKNAINIEELFQGISRQI 166

Homo sapiens (taxid: 9606)

>sp|Q921E2|RAB31_MOUSE Ras-related protein Rab-31 OS=Mus musculus GN=Rab31 PE=1 SV=1

 Score =  155 bits (392), Expect = 8e-37,   Method: Compositional matrix adjust.
 Identities = 75/150 (50%), Positives = 101/150 (67%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V R++   F H+ISPTIGASF T  +  G    K  +WDTAGQERF S+APMY
Sbjct: 15  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  SF  +K WVKELK +  E +V+ + GNK DL   REV  ++A 
Sbjct: 75  YRGSAAAVIVYDITKQDSFHTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAK 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            Y++SIG    ETSA     IE++F  +S+
Sbjct: 135 EYAESIGAIVVETSAKNAINIEELFQGISR 164

Mus musculus (taxid: 10090)

>sp|Q6GQP4|RAB31_RAT Ras-related protein Rab-31 OS=Rattus norvegicus GN=Rab31 PE=1 SV=2

 Score =  155 bits (392), Expect = 9e-37,   Method: Compositional matrix adjust.
 Identities = 75/150 (50%), Positives = 101/150 (67%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V R++   F H+ISPTIGASF T  +  G    K  +WDTAGQERF S+APMY
Sbjct: 15  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  SF  +K WVKELK +  E +V+ + GNK DL   REV  ++A 
Sbjct: 75  YRGSAAAVIVYDITKQDSFHTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAK 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            Y++SIG    ETSA     IE++F  +S+
Sbjct: 135 EYAESIGALVVETSAKNAINIEELFQGISR 164

Rattus norvegicus (taxid: 10116)

>sp|Q8WQ53|RAB21_GEOCY Ras-related protein Rab-21 OS=Geodia cydonium GN=RAB21 PE=2 SV=1

 Score =  154 bits (390), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 64/153 (41%), Positives = 107/153 (69%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS+V+RY    F+     T+ ASF   ++N+G  +++L +WDTAGQER+ ++ P+Y
Sbjct: 26  AVGKTSLVLRYSENKFNDKHEQTLQASFVEKRLNIGGKRIQLAIWDTAGQERYHALGPIY 85

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR++  A++V+DIT   SF   + W+KELKR + + + LC+VGNK DL+  R V+ ++A 
Sbjct: 86  YRDSQGAIIVYDITDEDSFHKARNWIKELKRMLGDKVTLCIVGNKIDLDRQRTVSEKDAL 145

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            Y++S+G  +Y TSA Q +G+ ++FL+++K ++
Sbjct: 146 EYAESVGAKHYYTSAKQSKGVAELFLDLAKRIL 178

Geodia cydonium (taxid: 6047)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	617
157128524	242	low-Mr GTP-binding protein Rab31, putati	0.298	0.760	0.622	5e-61
170037970	240	low-Mr GTP-binding protein Rab31 [Culex	0.298	0.766	0.611	9e-61
158295454	242	AGAP006159-PA [Anopheles gambiae str. PE	0.277	0.706	0.656	3e-60
383857603	217	PREDICTED: ras-related protein RabJ-like	0.278	0.792	0.610	5e-59
340723572	220	PREDICTED: ras-related protein RabJ-like	0.280	0.786	0.606	2e-58
380022458	221	PREDICTED: ras-related protein RabJ-like	0.280	0.782	0.601	8e-58
270010105	238	hypothetical protein TcasGA2_TC009462 [T	0.322	0.836	0.549	3e-57
91085709	224	PREDICTED: similar to AGAP006159-PA [Tri	0.320	0.883	0.551	7e-57
110761970	221	PREDICTED: ras-related protein RabJ-like	0.280	0.782	0.583	2e-56
345490640	219	PREDICTED: ras-related protein RabJ-like	0.278	0.785	0.618	5e-56

>gi|157128524|ref|XP_001661468.1| low-Mr GTP-binding protein Rab31, putative [Aedes aegypti] gi|108872544|gb|EAT36769.1| AAEL011171-PA [Aedes aegypti]

 Score =  242 bits (617), Expect = 5e-61,   Method: Compositional matrix adjust.
 Identities = 117/188 (62%), Positives = 149/188 (79%), Gaps = 4/188 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS+VVRY+  +++  ISPTIGASFFT K+N+ + KVK+QVWDTAGQERF++MAP+Y
Sbjct: 15  GVGKTSLVVRYVSNVYTKEISPTIGASFFTCKVNLEDFKVKMQVWDTAGQERFKAMAPLY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAALLVFD+TQY+SF  IK+WV+EL+RNV EP+VL +VGNK DLE  R V+REEA 
Sbjct: 75  YRNANAALLVFDLTQYNSFVEIKSWVQELQRNVQEPMVLSLVGNKLDLEEKRAVSREEAA 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNIT----SA 291
            Y+ SIGG Y+ETSALQDQGIE VF++++ GLI LS E +  S  R   SD++     S+
Sbjct: 135 LYATSIGGNYFETSALQDQGIEQVFISIAVGLIKLSGEQICPSLKRYESSDSLVLSGYSS 194

Query: 292 NPRGVVEI 299
              GVV++
Sbjct: 195 GMNGVVQM 202

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170037970|ref|XP_001846827.1| low-Mr GTP-binding protein Rab31 [Culex quinquefasciatus] gi|167881359|gb|EDS44742.1| low-Mr GTP-binding protein Rab31 [Culex quinquefasciatus]

 Score =  241 bits (615), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 115/188 (61%), Positives = 150/188 (79%), Gaps = 4/188 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS+VVRY+  +++  +SPTIGASFFT K+N+ + KVK+QVWDTAGQERF++MAP+Y
Sbjct: 15  GVGKTSLVVRYVSNVYTKEVSPTIGASFFTCKVNLEDFKVKMQVWDTAGQERFKAMAPLY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAALLVFD+TQY+SF  IKTWV+EL+RNV EP+VL +VGNK DLE+ R V+REEA 
Sbjct: 75  YRNANAALLVFDLTQYNSFVEIKTWVQELQRNVQEPMVLSLVGNKLDLEAKRAVSREEAA 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNIT----SA 291
            Y+ SIGG Y+ETSALQDQGIE VF++++ GLI +S E +  S  R   SD++     ++
Sbjct: 135 LYATSIGGNYFETSALQDQGIEQVFISIAVGLIKMSGEQICPSFKRYESSDSLVLNGYAS 194

Query: 292 NPRGVVEI 299
              GVV++
Sbjct: 195 GMNGVVQM 202

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158295454|ref|XP_316217.3| AGAP006159-PA [Anopheles gambiae str. PEST] gi|157016045|gb|EAA10814.3| AGAP006159-PA [Anopheles gambiae str. PEST]

 Score =  239 bits (610), Expect = 3e-60,   Method: Compositional matrix adjust.
 Identities = 113/172 (65%), Positives = 144/172 (83%), Gaps = 1/172 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS+VVRY+  +++  ISPTIGASFFT K+N+ + KVK+QVWDTAGQERF++MAP+Y
Sbjct: 15  GVGKTSLVVRYVSNVYTKEISPTIGASFFTCKVNLEDFKVKMQVWDTAGQERFKAMAPLY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAALLVFD+TQY+SF  IK WV+EL+RNV EP+VL +VGNK DLE+ R V+REEA 
Sbjct: 75  YRNANAALLVFDLTQYNSFNEIKGWVQELQRNVQEPMVLSLVGNKLDLEAKRAVSREEAM 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDN 287
            Y+ SIGG Y+ETSAL DQGIE VF++++ GLI LS E +  SSL+ Y+S++
Sbjct: 135 LYANSIGGNYFETSALHDQGIEQVFISIAVGLIKLSGEDV-CSSLKRYESND 185

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383857603|ref|XP_003704294.1| PREDICTED: ras-related protein RabJ-like [Megachile rotundata]

 Score =  235 bits (600), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 105/172 (61%), Positives = 140/172 (81%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTSM++RY+GK F+ H+ PTIGASFFT K+NV   K+ LQVWDTAGQERFRSMAPMY
Sbjct: 15  GVGKTSMIIRYVGKAFNEHVDPTIGASFFTCKLNVENVKIMLQVWDTAGQERFRSMAPMY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAA+LVFD+TQY++FAA+K WV EL+RNV++ +VL V+GNK+DL   R+V+ EE  
Sbjct: 75  YRNANAAMLVFDLTQYNTFAAMKGWVTELRRNVEDAMVLAVIGNKSDLIKERQVDAEEGR 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDN 287
            Y+ +IG +Y+ETS LQD+GIE+VFL++  GL+ L+     + S+++Y+S N
Sbjct: 135 VYATNIGASYHETSVLQDEGIENVFLDIGMGLLRLASTEQDSMSIKIYESTN 186

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340723572|ref|XP_003400163.1| PREDICTED: ras-related protein RabJ-like [Bombus terrestris]

 Score =  233 bits (594), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 105/173 (60%), Positives = 140/173 (80%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTSM++RYIGK ++  ++PTIGASFF  K+N+ +  + L+VWDTAGQERFRSMAPMY
Sbjct: 14  GVGKTSMIMRYIGKTYNSQVNPTIGASFFNCKLNIQDTGIMLRVWDTAGQERFRSMAPMY 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAA+LVFD+TQY++FAA+K WV EL+RNV+E LVL V+GNK+DL   R+VN EE  
Sbjct: 74  YRNANAAMLVFDLTQYNTFAAMKRWVTELRRNVEETLVLVVIGNKSDLIEKRQVNAEEGR 133

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNI 288
            Y+  IG +Y+ETS LQ +GIE+VFL V++GL+ LS    +++ +RVY+S N+
Sbjct: 134 LYATKIGASYHETSVLQGEGIENVFLTVARGLLGLSSTDRNSTPIRVYESTNL 186

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380022458|ref|XP_003695062.1| PREDICTED: ras-related protein RabJ-like isoform 1 [Apis florea]

 Score =  231 bits (589), Expect = 8e-58,   Method: Compositional matrix adjust.
 Identities = 104/173 (60%), Positives = 139/173 (80%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS+++RYIGK  + H+SPTIGASFFT K+N+   ++ L+VWDTAGQERFRSMAPMY
Sbjct: 15  GVGKTSIIMRYIGKSCNEHLSPTIGASFFTCKLNLENARIMLRVWDTAGQERFRSMAPMY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAA+LVFD+TQY++FAA+K WV EL+RNV+E + L V+GNK+DL   R+V+ EE  
Sbjct: 75  YRNANAAMLVFDLTQYNTFAAMKRWVTELRRNVEEVMTLVVIGNKSDLTKERQVDAEEGR 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNI 288
            Y+  IG +YYETS LQ++GI++VFL +  GL+ LS     ++S+RVY+S N+
Sbjct: 135 VYATKIGASYYETSVLQNEGIKNVFLAIGNGLLKLSSTECDSTSIRVYESTNL 187

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270010105|gb|EFA06553.1| hypothetical protein TcasGA2_TC009462 [Tribolium castaneum]

 Score =  229 bits (585), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 117/213 (54%), Positives = 153/213 (71%), Gaps = 14/213 (6%)

Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +GVGKTS V+RY+   FS HI+PT+GASFF+ K+ + +  VKLQ+WDTAGQERF++MAPM
Sbjct: 28  IGVGKTSTVIRYVENSFSQHITPTVGASFFSCKLLIDDITVKLQIWDTAGQERFKAMAPM 87

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           +YRNANAAL+VFDIT   SF +++ WV ELK+NVD P+VLCVVGNK+DL  +R+VNR+EA
Sbjct: 88  FYRNANAALIVFDITLRQSFESMQGWVFELKQNVDNPMVLCVVGNKSDLAKNRQVNRDEA 147

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI-CLSQESLHTSSLRVYDSDNITSANP 293
             Y+KSIG TY+E SA+ DQG+  VF +V++GLI  L   S H  +L+VYDS+NI +   
Sbjct: 148 IQYAKSIGATYHECSAMHDQGVGLVFDDVARGLIRLLGNSSDH--NLKVYDSENIDNIMA 205

Query: 294 RGVVEITPLSSLDTPPLTEAETAKFVVGLSINS 326
                    S L+     + ET    V LSINS
Sbjct: 206 NS-------SELEATDTGKEET----VNLSINS 227

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91085709|ref|XP_972846.1| PREDICTED: similar to AGAP006159-PA [Tribolium castaneum]

 Score =  228 bits (581), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 117/212 (55%), Positives = 153/212 (72%), Gaps = 14/212 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS V+RY+   FS HI+PT+GASFF+ K+ + +  VKLQ+WDTAGQERF++MAPM+
Sbjct: 15  GVGKTSTVIRYVENSFSQHITPTVGASFFSCKLLIDDITVKLQIWDTAGQERFKAMAPMF 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAAL+VFDIT   SF +++ WV ELK+NVD P+VLCVVGNK+DL  +R+VNR+EA 
Sbjct: 75  YRNANAALIVFDITLRQSFESMQGWVFELKQNVDNPMVLCVVGNKSDLAKNRQVNRDEAI 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI-CLSQESLHTSSLRVYDSDNITSANPR 294
            Y+KSIG TY+E SA+ DQG+  VF +V++GLI  L   S H  +L+VYDS+NI +    
Sbjct: 135 QYAKSIGATYHECSAMHDQGVGLVFDDVARGLIRLLGNSSDH--NLKVYDSENIDNI--- 189

Query: 295 GVVEITPLSSLDTPPLTEAETAKFVVGLSINS 326
               +   S L+     + ET    V LSINS
Sbjct: 190 ----MANSSELEATDTGKEET----VNLSINS 213

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110761970|ref|XP_001122072.1| PREDICTED: ras-related protein RabJ-like [Apis mellifera]

 Score =  227 bits (578), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 101/173 (58%), Positives = 139/173 (80%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS+++RYIGK  + H++PTIGASFFT K+NV   ++ L+VWDTAGQERF+SMAPMY
Sbjct: 15  GVGKTSIIMRYIGKSCNEHLNPTIGASFFTCKLNVENARIMLRVWDTAGQERFKSMAPMY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAA+LVFD+TQY++FAA+K WV EL+RNV+E + L V+GNK+DL   R+V+ EE  
Sbjct: 75  YRNANAAMLVFDLTQYNTFAAMKRWVTELRRNVEEVMTLVVIGNKSDLTKERQVDAEEGR 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNI 288
            Y+  IG +Y+ETS LQ++GI++VFL +  GL+ LS     ++S+R+Y+S N+
Sbjct: 135 VYATKIGASYHETSVLQNEGIKNVFLAIGSGLLKLSSTECDSTSIRIYESTNL 187

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345490640|ref|XP_001602002.2| PREDICTED: ras-related protein RabJ-like [Nasonia vitripennis]

 Score =  225 bits (574), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 107/173 (61%), Positives = 135/173 (78%), Gaps = 1/173 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ RYI   F+H  +PTIGASFFT KIN+ + ++K QVWDTAGQERFRSMAPMY
Sbjct: 15  GVGKTSLINRYINNAFNHQNNPTIGASFFTCKINLEDVRIKFQVWDTAGQERFRSMAPMY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YRNANAA LVFDITQY+SF AIK+WV EL+RNV+EP+VL +VGNK DL   R+V+ EE  
Sbjct: 75  YRNANAAFLVFDITQYNSFTAIKSWVTELQRNVEEPMVLILVGNKVDLSEKRKVDSEECR 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLH-TSSLRVYDSDN 287
            Y++SIG TY+E SAL D+G++  FL  + GL+ LS       +SL+VYDS++
Sbjct: 135 KYAESIGATYHEISALTDEGVDQAFLTAALGLVKLSNGDRDLLTSLKVYDSNS 187

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	617
FB|FBgn0015372	261	RabX1 "RabX1" [Drosophila mela	0.285	0.674	0.538	3.7e-48
UNIPROTKB|Q17R06	222	RAB21 "Ras-related protein Rab	0.251	0.698	0.496	8.4e-39
UNIPROTKB|F1PGI1	238	RAB21 "Ras-related protein Rab	0.251	0.651	0.496	1.1e-38
UNIPROTKB|P55745	223	RAB21 "Ras-related protein Rab	0.251	0.695	0.496	1.1e-38
UNIPROTKB|Q9UL25	225	RAB21 "Ras-related protein Rab	0.251	0.688	0.496	1.1e-38
UNIPROTKB|F1SH25	222	RAB21 "Uncharacterized protein	0.251	0.698	0.496	1.1e-38
UNIPROTKB|F1NC27	228	RAB21 "Uncharacterized protein	0.251	0.679	0.496	1.5e-38
MGI|MGI:894308	222	Rab21 "RAB21, member RAS oncog	0.251	0.698	0.490	1.5e-38
RGD|1303150	223	Rab21 "RAB21, member RAS oncog	0.251	0.695	0.490	1.5e-38
UNIPROTKB|F1MPP1	214	LOC781001 "Uncharacterized pro	0.251	0.724	0.490	7.7e-38

FB|FBgn0015372 RabX1 "RabX1" [Drosophila melanogaster (taxid:7227)]

 Score = 503 (182.1 bits), Expect = 3.7e-48, P = 3.7e-48
 Identities = 97/180 (53%), Positives = 133/180 (73%)

Query:   116 GVGKTSMVVRYIGKMFSHHIS--PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAP 173
             GVGKT +V+RYI        S  PTI  SFFT  I + E K+KLQ+WDTAGQER+R++AP
Sbjct:    15 GVGKTRLVIRYIKNTLHRKESEVPTIAVSFFTCNIILDEVKIKLQIWDTAGQERYRAVAP 74

Query:   174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE 233
             MYYRNANAA+LVFD+TQY +F  IK+W++EL RNV +P++L +VGNK D+++ R V+REE
Sbjct:    75 MYYRNANAAILVFDLTQYKTFTEIKSWIQELHRNVQDPMILTLVGNKMDMQAQRAVSREE 134

Query:   234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDS-DNITSAN 292
             AF ++ SIG TY+ETS   DQG+E VF++ ++GL+ L+ E   + SLR + S D++   N
Sbjct:   135 AFVFATSIGATYFETSTETDQGLEQVFISTAQGLVRLADEG-KSPSLRSFQSTDSLAYTN 193

GO:0005886 "plasma membrane" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS;TAS

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0007422 "peripheral nervous system development" evidence=IMP

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

UNIPROTKB|Q17R06 RAB21 "Ras-related protein Rab-21" [Bos taurus (taxid:9913)]

 Score = 415 (151.1 bits), Expect = 8.4e-39, P = 8.4e-39
 Identities = 78/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    27 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 85

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    86 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKVDLEKERHVSIQEAE 145

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   146 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 182

GO:0006184 "GTP catabolic process" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0031901 "early endosome membrane" evidence=IEA

GO:0030659 "cytoplasmic vesicle membrane" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

GO:0000139 "Golgi membrane" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|F1PGI1 RAB21 "Ras-related protein Rab-21" [Canis lupus familiaris (taxid:9615)]

 Score = 414 (150.8 bits), Expect = 1.1e-38, P = 1.1e-38
 Identities = 78/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    43 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 101

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:   102 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 161

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   162 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 198

GO:0019003 "GDP binding" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|P55745 RAB21 "Ras-related protein Rab-21" [Canis lupus familiaris (taxid:9615)]

 Score = 414 (150.8 bits), Expect = 1.1e-38, P = 1.1e-38
 Identities = 78/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    28 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 86

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    87 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 146

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   147 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 183

GO:0006184 "GTP catabolic process" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0003924 "GTPase activity" evidence=ISS

GO:0031901 "early endosome membrane" evidence=IEA

GO:0030659 "cytoplasmic vesicle membrane" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

GO:0000139 "Golgi membrane" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|Q9UL25 RAB21 "Ras-related protein Rab-21" [Homo sapiens (taxid:9606)]

 Score = 414 (150.8 bits), Expect = 1.1e-38, P = 1.1e-38
 Identities = 78/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    30 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 88

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    89 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 148

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   149 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 185

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0000139 "Golgi membrane" evidence=IEA

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

GO:0030659 "cytoplasmic vesicle membrane" evidence=IEA

GO:0031901 "early endosome membrane" evidence=IEA

GO:0032154 "cleavage furrow" evidence=IEA

GO:0019003 "GDP binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=IDA

GO:0003924 "GTPase activity" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IDA

UNIPROTKB|F1SH25 RAB21 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 414 (150.8 bits), Expect = 1.1e-38, P = 1.1e-38
 Identities = 78/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    27 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 85

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    86 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 145

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   146 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 182

GO:0019003 "GDP binding" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|F1NC27 RAB21 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 413 (150.4 bits), Expect = 1.5e-38, P = 1.5e-38
 Identities = 78/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    34 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 92

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    93 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSVQEAE 152

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   153 TYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 189

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0019003 "GDP binding" evidence=IEA

MGI|MGI:894308 Rab21 "RAB21, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 413 (150.4 bits), Expect = 1.5e-38, P = 1.5e-38
 Identities = 77/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    28 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 86

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+D+T   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    87 YRDSNGAILVYDVTDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 146

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   147 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 183

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=ISO

GO:0005768 "endosome" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0006810 "transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

GO:0031410 "cytoplasmic vesicle" evidence=IEA

RGD|1303150 Rab21 "RAB21, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 413 (150.4 bits), Expect = 1.5e-38, P = 1.5e-38
 Identities = 77/157 (49%), Positives = 114/157 (72%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+RY    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    28 VGKTSLVLRYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 86

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+D+T   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    87 YRDSNGAILVYDVTDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 146

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   147 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 183

GO:0000139 "Golgi membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO;ISS

GO:0005525 "GTP binding" evidence=ISO;ISS

GO:0005768 "endosome" evidence=ISO

GO:0005789 "endoplasmic reticulum membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO;ISS

GO:0030659 "cytoplasmic vesicle membrane" evidence=IEA

GO:0031901 "early endosome membrane" evidence=IEA

UNIPROTKB|F1MPP1 LOC781001 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 407 (148.3 bits), Expect = 7.7e-38, P = 7.7e-38
 Identities = 77/157 (49%), Positives = 113/157 (71%)

Query:   117 VGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             VGKTS+V+ Y    F+  HI+ T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct:    19 VGKTSLVLCYCENKFNDKHIT-TLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 77

Query:   176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
             YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct:    78 YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKVDLEKERHVSIQEAE 137

Query:   236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ 272
              Y++S+G  +Y TSA Q++GIE++FL++ K +I  +Q
Sbjct:   138 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIETAQ 174

GO:0019003 "GDP binding" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	617
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	3e-65
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	4e-64
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-60
pfam00071	162	pfam00071, Ras, Ras family	3e-58
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-56
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	8e-44
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-43
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	4e-43
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	4e-42
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	2e-41
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-39
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	2e-39
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	4e-38
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	4e-38
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	2e-37
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	5e-37
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	6e-37
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	7e-35
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	1e-32
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	3e-32
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	4e-32
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	7e-32
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	8e-31
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	2e-30
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	2e-30
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	2e-30
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-30
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	3e-30
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	3e-29
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	3e-29
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	3e-29
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	6e-28
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	7e-28
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	5e-26
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	8e-26
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	2e-25
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	3e-25
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	6e-25
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	7e-24
pfam14438	113	pfam14438, SM-ATX, SM domain found in Ataxin-2	1e-23
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-23
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	2e-23
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	4e-23
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	1e-22
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-22
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	2e-22
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	6e-22
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	2e-21
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	3e-21
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	5e-21
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	5e-21
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	5e-21
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	6e-21
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	1e-20
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	1e-20
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	3e-20
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	3e-20
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	3e-20
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	2e-19
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	6e-19
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	7e-19
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	8e-19
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	1e-18
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	3e-18
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	5e-18
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	1e-17
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	2e-17
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	2e-16
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-16
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	2e-16
pfam08477	116	pfam08477, Miro, Miro-like protein	1e-15
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	4e-15
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	7e-15
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	3e-14
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	3e-13
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	3e-13
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	5e-13
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	8e-13
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	1e-12
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	3e-12
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	3e-12
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	6e-12
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	1e-10
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-10
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	2e-10
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	3e-10
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	4e-10
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	2e-09
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	6e-09
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	1e-08
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	2e-08
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	5e-08
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	7e-08
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	1e-07
pfam00071	162	pfam00071, Ras, Ras family	2e-07
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	3e-07
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	5e-07
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	6e-07
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	7e-07
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	9e-07
cd01897	167	cd01897, NOG, Nucleolar GTP-binding protein (NOG)	5e-06
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	6e-06
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-05
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-05
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	2e-05
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	4e-05
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	5e-05
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	8e-05
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	1e-04
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	2e-04
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	3e-04
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	4e-04
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	6e-04
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	0.002
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	0.002
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	0.003
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	0.004
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	0.004

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score =  210 bits (538), Expect = 3e-65
 Identities = 65/150 (43%), Positives = 98/150 (65%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS+++R++   FS +   TIG  F +  I V   KVKLQ+WDTAGQERFRS+   Y
Sbjct: 10  GVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQERFRSITSSY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+ A+LV+D+T   SF  +  W+ ELK      + + +VGNK+DLE  R+V+ EEA 
Sbjct: 70  YRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDERQVSTEEAQ 129

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            ++K  G  ++ETSA   + +++ F ++++
Sbjct: 130 QFAKENGLLFFETSAKTGENVDEAFESLAR 159

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score =  207 bits (530), Expect = 4e-64
 Identities = 69/153 (45%), Positives = 103/153 (67%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   FS +   TIGA+F T  +N+ +  VK ++WDTAGQER+RS+APMY
Sbjct: 11  SVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMY 70

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   SF   K+WVKEL+ +    +V+ + GNK DLES R+V+ EEA 
Sbjct: 71  YRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESKRQVSTEEAQ 130

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            Y+   G  + ETSA   + + ++F  +++ L 
Sbjct: 131 EYADENGLLFMETSAKTGENVNELFTEIARKLP 163

The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  198 bits (506), Expect = 1e-60
 Identities = 71/152 (46%), Positives = 106/152 (69%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY+   F+     T  ASFF   +N+G  ++ L +WDTAGQER+ ++ P+YY
Sbjct: 11  VGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYY 70

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R+A+ A+LV+DIT   SF  +K W+KELK+     + L +VGNK DLE  R V++ EA  
Sbjct: 71  RDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEE 130

Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           Y+KS+G  ++ETSA   +GIE++FL+++K +I
Sbjct: 131 YAKSVGAKHFETSAKTGKGIEELFLSLAKRMI 162

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score =  192 bits (490), Expect = 3e-58
 Identities = 67/150 (44%), Positives = 97/150 (64%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    F     PTIG  F+T  I V    VKLQ+WDTAGQERFR++ P+Y
Sbjct: 9   GVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQERFRALRPLY 68

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   LLV+DIT   SF  +K W++E+ R+ DE + + +VGNK DLE  R V+ EE  
Sbjct: 69  YRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQRVVSTEEGE 128

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +K +G  + ETSA  ++ +E+ F  +++
Sbjct: 129 ALAKELGLPFMETSAKTNENVEEAFEELAR 158

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  187 bits (478), Expect = 1e-56
 Identities = 68/150 (45%), Positives = 97/150 (64%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ R+    FS     TIG  F T  I V   +VKLQ+WDTAGQERFRS+   Y
Sbjct: 10  GVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   SF  ++ W+KEL+      +V+ +VGNK+DLE  R+V+REEA 
Sbjct: 70  YRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQRQVSREEAE 129

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++  G  ++ETSA  +  +E+ F  +++
Sbjct: 130 AFAEEHGLPFFETSAKTNTNVEEAFEELAR 159

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score =  153 bits (390), Expect = 8e-44
 Identities = 60/148 (40%), Positives = 92/148 (62%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I +    +K Q+WDTAGQER+R++   Y
Sbjct: 13  GVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQERYRAITSAY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  EEA 
Sbjct: 73  YRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAK 132

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++  G ++ ETSAL    +E+ F  +
Sbjct: 133 AFAEKNGLSFIETSALDGTNVEEAFKQL 160

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  153 bits (388), Expect = 1e-43
 Identities = 55/152 (36%), Positives = 90/152 (59%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS++ R++   F +    TIG  F +  + V +  V+LQ+WDTAGQERFRS+ P Y
Sbjct: 10  SVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQERFRSLIPSY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            R+++ A++V+DIT   SF     W+ +++      +++ +VGNKTDL   R+V+ EE  
Sbjct: 70  IRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGE 129

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             +K     + ETSA     ++ +F  +++ L
Sbjct: 130 KKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 161

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score =  152 bits (385), Expect = 4e-43
 Identities = 59/150 (39%), Positives = 89/150 (59%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    F+     TIG  F    I +   K+KLQ+WDTAGQERFR++   Y
Sbjct: 13  GVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTSY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   SF  IK W++ +  +  E +   +VGNK D+E  R V++EE  
Sbjct: 73  YRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDMEEKRVVSKEEGE 132

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++  G  + ETSA  +  +E+ FL ++K
Sbjct: 133 ALAREYGIKFLETSAKANINVEEAFLTLAK 162

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 167

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  148 bits (377), Expect = 4e-42
 Identities = 60/146 (41%), Positives = 85/146 (58%), Gaps = 2/146 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    F   +S TIG  F    + V   KVKL +WDTAGQERFR++   Y
Sbjct: 10  GVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQERFRTLTSSY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNREEA 234
           YR A   +LV+D+T+  +F  + TW+ EL      P  V  +VGNK D E +REV REE 
Sbjct: 70  YRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKE-NREVTREEG 128

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVF 260
             +++     + ETSA    G++  F
Sbjct: 129 QKFARKHNMLFIETSAKTRIGVQQAF 154

Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  147 bits (373), Expect = 2e-41
 Identities = 62/157 (39%), Positives = 94/157 (59%), Gaps = 9/157 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V LQ+WDTAGQERF+S+   +
Sbjct: 10  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQERFQSLGVAF 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE------PLVLCVVGNKTDLESSREV 229
           YR A+  +LV+D+T   SF ++ +W  E             P V  V+GNK DLE  R+V
Sbjct: 70  YRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFV--VLGNKIDLEEKRQV 127

Query: 230 NREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
           + ++A  + KS G   Y+ETSA +   ++  F  +++
Sbjct: 128 STKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIAR 164

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  141 bits (358), Expect = 2e-39
 Identities = 64/152 (42%), Positives = 92/152 (60%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I   F    + TIG  F +  +NVG   VKLQ+WDTAGQERFRS+   Y
Sbjct: 10  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQERFRSVTRSY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   SF A+  W+ + +      +V+ +VGNK DLE  REV   EA 
Sbjct: 70  YRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDDREVTFLEAS 129

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +++  G  + ETSAL  + +E+ FL  ++ +
Sbjct: 130 RFAQENGLLFLETSALTGENVEEAFLKCARSI 161

Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  141 bits (358), Expect = 2e-39
 Identities = 58/150 (38%), Positives = 94/150 (62%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++++  K F      TIG  F    I +   ++KLQ+WDTAGQE FRS+   Y
Sbjct: 14  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSY 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  + +W+++ +++ +  + + ++GNK DLES REV+ EE  
Sbjct: 74  YRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGE 133

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++  G  + ETSA     +E+ F+N +K
Sbjct: 134 AFAREHGLIFMETSAKTASNVEEAFINTAK 163

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 168

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  138 bits (349), Expect = 4e-38
 Identities = 59/151 (39%), Positives = 91/151 (60%)

Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +GVGK+ ++ ++  K F      TIG  F T  I V   K+KLQ+WDTAGQERFR++   
Sbjct: 11  MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRS 70

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR A  AL+V+DIT+  ++  + +W+ + +   +   V+ ++GNK DLE+ R+V  EEA
Sbjct: 71  YYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEA 130

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++   G  + E SA   + +ED FL  +K
Sbjct: 131 KQFADENGLLFLECSAKTGENVEDAFLETAK 161

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  139 bits (353), Expect = 4e-38
 Identities = 66/164 (40%), Positives = 97/164 (59%), Gaps = 12/164 (7%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK-VKLQVWDTAGQERFRSMAPMY 175
           VGK+S++ R+    F+    PT+G  FF+  I +     +KLQ+WDTAGQERFRS+   Y
Sbjct: 13  VGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP--LVLCVVGNKTDLESSREVNREE 233
           YRN+   LLVFDIT   SF  +  W++E + ++ +P   V  +VG+K DLES R+V REE
Sbjct: 73  YRNSVGVLLVFDITNRESFEHVHDWLEEARSHI-QPHRPVFILVGHKCDLESQRQVTREE 131

Query: 234 AFHYSKSIGGTYYETSALQDQGIE--------DVFLNVSKGLIC 269
           A   +K +G  Y ETSA     +E        +++  + +G +C
Sbjct: 132 AEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKRGELC 175

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 211

>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases)

 Score =  136 bits (344), Expect = 2e-37
 Identities = 53/146 (36%), Positives = 80/146 (54%), Gaps = 2/146 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +R++   F     PTI    +  +I V      L + DTAGQE F +M   Y
Sbjct: 9   GVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEEFSAMRDQY 67

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLESSREVNREEA 234
            RN +  +LV+ IT   SF  IK   +++ R  D+  V  V VGNK DLE+ R+V+ EE 
Sbjct: 68  IRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENERQVSTEEG 127

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVF 260
              ++  G  + ETSA  +  I+++F
Sbjct: 128 EALAEEWGCPFLETSAKTNINIDELF 153

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 160

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  135 bits (341), Expect = 5e-37
 Identities = 62/153 (40%), Positives = 92/153 (60%), Gaps = 1/153 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +V R+    FS     TIG  F    + +   +VKLQ+WDTAGQERFR++   Y
Sbjct: 13  NVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+AN A++ +DIT+  SF ++  W++E+++     +VL ++GNK DLE  REV  EEA 
Sbjct: 73  YRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEAC 132

Query: 236 HYSKSIGGTY-YETSALQDQGIEDVFLNVSKGL 267
             ++  G     ETSA +   +E+ FL ++  L
Sbjct: 133 TLAEHYGILAVLETSAKESSNVEEAFLLMATEL 165

Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  135 bits (340), Expect = 6e-37
 Identities = 62/153 (40%), Positives = 94/153 (61%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT +V R+   +F      TIG  F    + +   K+KLQ+WDTAGQERFRS+   Y
Sbjct: 17  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSY 76

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+ANA +L +DIT   SF  +  W++E+++  +  ++  +VGNK DL   REV+++ A 
Sbjct: 77  YRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAE 136

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +S +    Y ETSA +   +E +FL+++  LI
Sbjct: 137 EFSDAQDMYYLETSAKESDNVEKLFLDLACRLI 169

Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 169

>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog Ypt1

 Score =  129 bits (326), Expect = 7e-35
 Identities = 56/154 (36%), Positives = 92/154 (59%), Gaps = 2/154 (1%)

Query: 116 GVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           GVGK+ +++R+    ++  +IS TIG  F    I +    VKLQ+WDTAGQERFR++   
Sbjct: 12  GVGKSCLLLRFADDTYTESYIS-TIGVDFKIRTIELDGKTVKLQIWDTAGQERFRTITSS 70

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL   + V+  EA
Sbjct: 71  YYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKKVVDYTEA 130

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             ++  +G  + ETSA     +E+ F+ +++ + 
Sbjct: 131 KEFADELGIPFLETSAKNATNVEEAFMTMAREIK 164

Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score =  123 bits (311), Expect = 1e-32
 Identities = 65/170 (38%), Positives = 93/170 (54%), Gaps = 1/170 (0%)

Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           GVGKT ++VR+  G   +     T+G  F    + V   KVKLQ+WDTAGQERFRS+   
Sbjct: 10  GVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQERFRSVTHA 69

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR+A+A LL++D+T   SF  I+ W+ E+       +V+ ++GNK D+   R V RE+ 
Sbjct: 70  YYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSGERVVKREDG 129

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYD 284
              +K  G  + ETSA     +E  F  V+K L   S E       ++ D
Sbjct: 130 ERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRSVEQPDEPKFKIQD 179

Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 191

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score =  122 bits (307), Expect = 3e-32
 Identities = 51/153 (33%), Positives = 84/153 (54%), Gaps = 5/153 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-SMAPM 174
            VGKT +  R+    F      TIG  F    + +   ++K+Q+WDTAGQERFR SM   
Sbjct: 12  NVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQH 71

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVNREE 233
           YYRN +A + V+D+T   SF ++ +W++E +++     V   +VGNK DL    +V  + 
Sbjct: 72  YYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDL 131

Query: 234 AFHYSKSIGGTYYETSA---LQDQGIEDVFLNV 263
           A  ++ +     +ETSA    ++  +E +F+ +
Sbjct: 132 AQRFADAHSMPLFETSAKDPSENDHVEAIFMTL 164

Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  123 bits (309), Expect = 4e-32
 Identities = 58/167 (34%), Positives = 94/167 (56%), Gaps = 8/167 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++++  K F      TIG  F    I +    +KLQ+WDTAGQE FRS+   Y
Sbjct: 16  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  + +W+++ +++ +  + + ++GNK DL   R V+ EE  
Sbjct: 76  YRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGE 135

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLN--------VSKGLICLSQES 274
            ++K  G  + E SA   Q +E+ F+         +  G+  +S ES
Sbjct: 136 QFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNES 182

Length = 210

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  122 bits (308), Expect = 7e-32
 Identities = 57/148 (38%), Positives = 88/148 (59%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F      TIG  F T  + V    VK Q+WDTAGQER+R++   Y
Sbjct: 22  GVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAY 81

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  ++ W++EL+ + D  +V+ + GNK+DL   R V  E+  
Sbjct: 82  YRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQ 141

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
             ++  G ++ ETSAL+   +E  F  +
Sbjct: 142 ALAEKEGLSFLETSALEATNVEKAFQTI 169

Length = 216

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score =  118 bits (298), Expect = 8e-31
 Identities = 59/154 (38%), Positives = 93/154 (60%), Gaps = 6/154 (3%)

Query: 117 VGKTSMVVRYIGKMFSHH-ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           VGKTS+V RY+   F       TIGA+F   ++ VGE  V L +WDTAG ER+ +M+ +Y
Sbjct: 11  VGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIY 70

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL----ESSREVNR 231
           YR A AA++ +D+T   SF   K WVKEL +N++E   + + G K+DL     S R+V+ 
Sbjct: 71  YRGAKAAIVCYDLTDSSSFERAKFWVKEL-QNLEEHCKIYLCGTKSDLIEQDRSLRQVDF 129

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +   ++  I   ++ETS+   Q ++++F  V++
Sbjct: 130 HDVQDFADEIKAQHFETSSKTGQNVDELFQKVAE 163

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 193

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  118 bits (297), Expect = 2e-30
 Identities = 59/147 (40%), Positives = 90/147 (61%), Gaps = 3/147 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++V +I       ++PTIG  F   ++ VG  ++KL +WDTAGQERFR++   Y
Sbjct: 24  GVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSY 82

Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELK-RNVDEPLVLCVVGNKTDLESSREVNREE 233
           YRNA   +LV+D+T+  +F  +   W KE++  + ++  V  +VGNK D ES R+V+REE
Sbjct: 83  YRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREE 142

Query: 234 AFHYSKSIGGTYYETSALQDQGIEDVF 260
               +K  G  + E SA   + +E  F
Sbjct: 143 GMALAKEHGCLFLECSAKTRENVEQCF 169

Length = 211

>gnl|CDD|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  116 bits (293), Expect = 2e-30
 Identities = 53/148 (35%), Positives = 77/148 (52%), Gaps = 6/148 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++I   F     PTI    +  +I +      L + DTAGQE F +M   Y
Sbjct: 10  GVGKSALTIQFIQGHFVDDYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQY 68

Query: 176 YRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            R     LLV+ IT   SF  IK +   +  +K   D P+VL  VGNK DLES R V+ E
Sbjct: 69  MRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVL--VGNKCDLESERVVSTE 126

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    ++  G  + ETSA +   +++ F
Sbjct: 127 EGKELARQWGCPFLETSAKERVNVDEAF 154

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. Length = 164

>gnl|CDD|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  116 bits (293), Expect = 2e-30
 Identities = 50/148 (33%), Positives = 76/148 (51%), Gaps = 6/148 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PTI    +  +I +      L + DTAGQE F +M   Y
Sbjct: 12  GVGKSALTIQFVQGHFVDEYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQY 70

Query: 176 YRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            R     LLV+ IT   SF  I  +   +  +K   D P+VL  VGNK DLE+ R V+ E
Sbjct: 71  MRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVL--VGNKCDLENERVVSTE 128

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    ++  G  + ETSA +   +++ F
Sbjct: 129 EGKELARQWGCPFLETSAKERINVDEAF 156

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily. Length = 166

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score =  117 bits (296), Expect = 2e-30
 Identities = 58/154 (37%), Positives = 85/154 (55%), Gaps = 15/154 (9%)

Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK-VKLQVWDTAGQERFRSMAP 173
           LGVGKTS++ RY+  +FS H   TIG  F    I    N  V+LQ+WD AGQERF  M  
Sbjct: 9   LGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTR 68

Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVL-------CV-VGNKTDLES 225
           +YY+ A  A++VFD+T+  +F A+  W    K ++D  + L        + + NK DL+ 
Sbjct: 69  VYYKGAVGAIIVFDVTRPSTFEAVLKW----KADLDSKVTLPNGEPIPALLLANKCDLKK 124

Query: 226 SRE-VNREEAFHYSKSIGGT-YYETSALQDQGIE 257
            R   + E+   + K  G   ++ETSA ++  IE
Sbjct: 125 ERLAKDPEQMDQFCKENGFIGWFETSAKENINIE 158

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  117 bits (295), Expect = 3e-30
 Identities = 55/152 (36%), Positives = 95/152 (62%), Gaps = 5/152 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    FS     TIG  F    + +   +VKLQ+WDTAGQERFR++   Y
Sbjct: 16  GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLC--VVGNKTDLESSREVNREE 233
           YR  +  ++V+D+T   SF  +K W++E+++N D    +C  +VGNK D    + V  E+
Sbjct: 76  YRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCD---DVCKVLVGNKNDDPERKVVETED 132

Query: 234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           A+ ++  +G + +ETSA ++  +E++F  +++
Sbjct: 133 AYKFAGQMGISLFETSAKENINVEEMFNCITE 164

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 199

>gnl|CDD|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score =  113 bits (284), Expect = 3e-29
 Identities = 51/144 (35%), Positives = 82/144 (56%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS + RY    F+     T+G  F    +   + ++KLQ+WDTAGQER+R++   YY
Sbjct: 12  VGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQERYRTITTAYY 71

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A   +L++DIT   SF A++ W  ++K    +   + +VGNK D+E  R V+ E    
Sbjct: 72  RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSAERGRQ 131

Query: 237 YSKSIGGTYYETSALQDQGIEDVF 260
            +  +G  ++E SA ++  ++ VF
Sbjct: 132 LADQLGFEFFEASAKENINVKQVF 155

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  113 bits (284), Expect = 3e-29
 Identities = 57/150 (38%), Positives = 86/150 (57%), Gaps = 2/150 (1%)

Query: 116 GVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           GVGKT ++ R+    F S HIS TIG  F    I V   KV++Q+WDTAGQER++++   
Sbjct: 10  GVGKTCLLCRFTDNEFHSSHIS-TIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQ 68

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR A    LV+DI+   S+  I  WV ++     E +   ++GNK D E  R+V  E+ 
Sbjct: 69  YYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQG 128

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVS 264
              +K  G  ++ETSA  ++ I++ F  ++
Sbjct: 129 NKLAKEYGMDFFETSACTNKNIKESFTRLT 158

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206700 cd04127, Rab27A, Rab GTPase family 27a (Rab27a)

 Score =  113 bits (285), Expect = 3e-29
 Identities = 57/155 (36%), Positives = 86/155 (55%), Gaps = 15/155 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKI---NVGEN-------KVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++   + G +       +V LQ+WDTAGQ
Sbjct: 14  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVHLQLWDTAGQ 73

Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEP-LVLCVVGNKTD 222
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ +   + P +VL   GNK D
Sbjct: 74  ERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIVLI--GNKAD 131

Query: 223 LESSREVNREEAFHYSKSIGGTYYETSALQDQGIE 257
           L   REV+  +A   +   G  Y+ETSA   Q +E
Sbjct: 132 LPDQREVSERQARELADKYGIPYFETSAATGQNVE 166

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 180

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  111 bits (278), Expect = 6e-28
 Identities = 54/149 (36%), Positives = 88/149 (59%), Gaps = 1/149 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ R+    F      T+G  F    + +   K++LQ+WDTAGQERF S+   Y
Sbjct: 10  GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+A   +LV+DIT+  +F  +  W+K + +   E   L +VGNK D E+ RE+ R++  
Sbjct: 70  YRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGE 129

Query: 236 HYSKSIGGTYY-ETSALQDQGIEDVFLNV 263
            +++ I G  + E SA  +  ++++FL +
Sbjct: 130 KFAQQITGMRFCEASAKDNFNVDEIFLKL 158

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 202

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score =  111 bits (278), Expect = 7e-28
 Identities = 46/118 (38%), Positives = 67/118 (56%), Gaps = 1/118 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT+++ R +G  F     PTIG       I      +KLQ+WDTAGQE +RS+ P Y
Sbjct: 15  GVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEY 74

Query: 176 YRNANAALLVFDIT-QYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
           YR AN  L+V+D T +  S    + W++EL+    + + + +VGNK DL   +  + E
Sbjct: 75  YRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEE 132

Length = 219

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score =  104 bits (261), Expect = 5e-26
 Identities = 48/150 (32%), Positives = 83/150 (55%), Gaps = 5/150 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++ RY    F     PTIG  +   K++V   +V++  +D +G   +  +   +
Sbjct: 10  GVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEF 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-----EPLVLCVVGNKTDLESSREVN 230
           Y++    LLV+D+T   SF A+ +W+KE+K+        E +V+ V  NK DL   R V+
Sbjct: 70  YKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVS 129

Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVF 260
            +E   +++S G  Y+ETSA   +G+ ++F
Sbjct: 130 EDEGRLWAESKGFKYFETSACTGEGVNEMF 159

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 168

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  104 bits (259), Expect = 8e-26
 Identities = 54/167 (32%), Positives = 95/167 (56%)

Query: 131 FSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ 190
           F ++   TIG  F +  + + E  V+LQ+WDTAGQERFRS+ P Y R++ AA++V+DIT 
Sbjct: 5   FDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITN 64

Query: 191 YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSA 250
             SF     W++++     + +++ +VGNKTDL   R+V  EE    ++     ++ETSA
Sbjct: 65  RQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSA 124

Query: 251 LQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVV 297
                I+ +F  ++  L  L   + + +++      N ++AN + ++
Sbjct: 125 KAGHNIKVLFKKIAAKLPNLDNSNSNDANVVDIQLTNNSNANDKNML 171

Length = 176

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  102 bits (255), Expect = 2e-25
 Identities = 50/148 (33%), Positives = 80/148 (54%), Gaps = 5/148 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK--VKLQVWDTAGQERFRSMAP 173
            VGK+SM+ R++  +F+     TIG  F   +I + ++   V+L +WDTAGQE F ++  
Sbjct: 10  NVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITK 69

Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNRE 232
            YYR A A +LVF  T   SF AI++W ++++    + P+VL     K DL     +  E
Sbjct: 70  AYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMVLV--QTKIDLLDQAVITNE 127

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           EA   +K +    + TS   D  + ++F
Sbjct: 128 EAEALAKRLQLPLFRTSVKDDFNVTELF 155

Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signaling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  102 bits (256), Expect = 3e-25
 Identities = 56/150 (37%), Positives = 80/150 (53%), Gaps = 6/150 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ RY+   F   +  TIG  F    + V  + V LQ+WDTAGQERFRS+   +
Sbjct: 15  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPF 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKEL--KRNVDEP--LVLCVVGNKTDLESSREVNR 231
           YR ++  LL F +    SF  +  W KE     +V EP      ++GNK D+   R+V+ 
Sbjct: 75  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIP-ERQVST 133

Query: 232 EEAFHYSKSIG-GTYYETSALQDQGIEDVF 260
           EEA  + +  G   Y+ETSA     +   F
Sbjct: 134 EEAQAWCRDNGDYPYFETSAKDATNVAAAF 163

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score =  101 bits (253), Expect = 6e-25
 Identities = 53/153 (34%), Positives = 82/153 (53%), Gaps = 3/153 (1%)

Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           L VGKT ++ R+   +F  +   TIG  F   +  V      LQ+WDTAGQERF+ +A  
Sbjct: 9   LSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQERFKCIAST 68

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKE-LKRNVDEPLVLCVVGNKTDLES--SREVNR 231
           YYR A A ++VFD+T   S    + W+++ LK N    ++L +VG K DL S     +  
Sbjct: 69  YYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALME 128

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVS 264
           ++A   ++ +   Y+  SAL  + + D F  V+
Sbjct: 129 QDAIKLAREMKAEYWAVSALTGENVRDFFFRVA 161

Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 170

>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 98.3 bits (245), Expect = 7e-24
 Identities = 51/158 (32%), Positives = 92/158 (58%), Gaps = 7/158 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI  S+   ++ +   +  L++ DTAG E+F +M  +Y
Sbjct: 11  GVGKSALTVQFVQNVFIESYDPTIEDSYRK-QVEIDGRQCDLEILDTAGTEQFTAMRELY 69

Query: 176 YRNANAALLVFDITQYHS---FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            ++    LLV+ +T   S      ++  V  +K + + P+VL  VGNK DLE  R+V+RE
Sbjct: 70  IKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVL--VGNKADLEDDRQVSRE 127

Query: 233 EAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
           +    S+  G   +YETSA +   +++VF+++ + +IC
Sbjct: 128 DGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQIIC 165

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 168

>gnl|CDD|222754 pfam14438, SM-ATX, SM domain found in Ataxin-2

 Score = 95.8 bits (239), Expect = 1e-23
 Identities = 44/113 (38%), Positives = 58/113 (51%), Gaps = 7/113 (6%)

Query: 451 RFMQAITLHIGDKVTVYTVHGKQFEGYLKTFS--KQFELVISMTHQVDPENPQCIDPNTV 508
           R +  +T  IG +V V   +G  +EG   T S    F +V+ M   +   +        +
Sbjct: 2   RLVYLLTNLIGQRVEVTLKNGSVYEGIFHTASPEDDFGVVLKMARVLPKSDASGPLRGKI 61

Query: 509 VDMKIFKLDDIVRIEAKNVDLEYAV----RDTFATDTAISKFNGVIGERELEP 557
           VD  I    DIV+IEAK+VDL YA     +D F TDTAIS  NG   EREL+P
Sbjct: 62  VDTLIIPSKDIVQIEAKDVDLSYAASGGAKDGFRTDTAISG-NGGGRERELQP 113

SM domain found in Ataxin-2. Length = 113

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score = 97.2 bits (243), Expect = 2e-23
 Identities = 52/161 (32%), Positives = 77/161 (47%), Gaps = 21/161 (13%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVWDTAGQERFRSMAP 173
            VGKT +++ Y    F     PT+   F  ++A + V   +V L +WDTAGQE +  + P
Sbjct: 10  AVGKTCLLISYTTNKFPTEYVPTV---FDNYSANVTVDGKQVNLGLWDTAGQEEYDRLRP 66

Query: 174 MYYRNANAALLVFDITQYHSFAAIKT-WVKELKRN-VDEPLVLCVVGNKTDLESSRE--- 228
           + Y   +  LL F +    SF  +KT W  E+K    + P++L  VG K DL        
Sbjct: 67  LSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYCPNVPIIL--VGTKIDLRDDGNTLK 124

Query: 229 --------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                   +  EE    +K IG   Y E SAL  +G+++VF
Sbjct: 125 KLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVF 165

Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 97.0 bits (242), Expect = 2e-23
 Identities = 52/158 (32%), Positives = 82/158 (51%), Gaps = 15/158 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGAS-----FFTAKINVGENKVKLQVWDTAGQERFRS 170
           G GKT+ V R++   F      T+G       F T   N G  K++  VWDTAGQE+F  
Sbjct: 10  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHT---NRG--KIRFNVWDTAGQEKFGG 64

Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREV 229
           +   YY     A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +  
Sbjct: 65  LRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVK 122

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            ++  FH  K++   YYE SA  +   E  FL +++ L
Sbjct: 123 PKQITFHRKKNLQ--YYEISAKSNYNFEKPFLWLARKL 158

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

>gnl|CDD|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score = 95.6 bits (238), Expect = 4e-23
 Identities = 54/148 (36%), Positives = 77/148 (52%), Gaps = 7/148 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+   ++ +      L + DTAGQE + +M   Y
Sbjct: 11  GVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I T+ +++KR  D    P+VL  VGNK DL  +R V+  
Sbjct: 70  MRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVL--VGNKCDLA-ARTVSTR 126

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           +    +KS G  Y ETSA   QG+E+ F
Sbjct: 127 QGQDLAKSYGIPYIETSAKTRQGVEEAF 154

H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 94.8 bits (236), Expect = 1e-22
 Identities = 49/159 (30%), Positives = 77/159 (48%), Gaps = 18/159 (11%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++V Y    +     PT     F+  + V    V+LQ+ DTAGQ+ F  + P+ Y
Sbjct: 11  VGKTSLIVSYTTNGYPTEYVPT-AFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCY 69

Query: 177 RNANAALLVFDITQYHSFAAIKT-WVKEL-KRNVDEPLVLCVVGNKTDLESS-------- 226
            + +  LL F +    SF  I   W+ E+ K N   P++L  VG + DL +         
Sbjct: 70  PDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIIL--VGTQADLRTDVNVLIQLA 127

Query: 227 ----REVNREEAFHYSKSIG-GTYYETSALQDQGIEDVF 260
               + V++  A   ++ IG   Y E SAL  + +++VF
Sbjct: 128 RYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score = 94.6 bits (236), Expect = 2e-22
 Identities = 50/162 (30%), Positives = 78/162 (48%), Gaps = 22/162 (13%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVWDTAGQERFRSMAP 173
            VGKT +++ Y    F     PT+   F  ++A + V    V+L +WDTAGQE +  + P
Sbjct: 8   AVGKTCLLIVYTTNAFPEDYVPTV---FENYSADVEVDGKPVELGLWDTAGQEDYDRLRP 64

Query: 174 MYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE--- 228
           + Y + +  L+ F +    SF  +K  W  E+K    + P++L  VG K DL + +    
Sbjct: 65  LSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNVPIIL--VGTKLDLRNDKSTLE 122

Query: 229 ---------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                    V  E+    +K IG   Y E SAL  +G+ +VF
Sbjct: 123 ELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVF 164

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms. Length = 174

>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score = 94.0 bits (234), Expect = 2e-22
 Identities = 51/148 (34%), Positives = 77/148 (52%), Gaps = 6/148 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++I   F     PTI  S+ T +  +     +L + DTAGQE F +M   Y
Sbjct: 12  GVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWARLDILDTAGQEEFSAMREQY 70

Query: 176 YRNANAALLVFDITQYHSFAAIK---TWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            R     LLVF +T   SF  +    T +  +K   + P++L  VGNK DLE  R+V+RE
Sbjct: 71  MRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMIL--VGNKADLEHQRQVSRE 128

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    ++ +   Y ETSA     ++  F
Sbjct: 129 EGQELARQLKIPYIETSAKDRVNVDKAF 156

The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score = 92.6 bits (230), Expect = 6e-22
 Identities = 48/155 (30%), Positives = 81/155 (52%), Gaps = 6/155 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++   F     PTI   F+  +I V  +   L++ DTAG E+F SM  +Y
Sbjct: 11  GVGKSALTVQFVSGTFIEKYDPTI-EDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            +N    ++V+ +    +F  IK     +  +K     P++L  VGNK DLES REV+  
Sbjct: 70  IKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIIL--VGNKVDLESEREVSSA 127

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           E    ++  G  + ETSA     + ++F  + + +
Sbjct: 128 EGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 92.9 bits (231), Expect = 2e-21
 Identities = 55/158 (34%), Positives = 86/158 (54%), Gaps = 15/158 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGAS-----FFTAKINVGENKVKLQVWDTAGQERFRS 170
           G GKT+ V R++   F     PTIG       FFT   N G  K++   WDTAGQE+F  
Sbjct: 23  GTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFT---NCG--KIRFYCWDTAGQEKFGG 77

Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREV 229
           +   YY +   A+++FD+T   ++  + TW ++L R  +  P+VLC  GNK D+++ +  
Sbjct: 78  LRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPIVLC--GNKVDVKNRQVK 135

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            ++  FH  K++   YYE SA  +   E  FL +++ L
Sbjct: 136 AKQVTFHRKKNL--QYYEISAKSNYNFEKPFLYLARKL 171

Length = 219

>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score = 90.6 bits (225), Expect = 3e-21
 Identities = 45/154 (29%), Positives = 70/154 (45%), Gaps = 13/154 (8%)

Query: 116 GVGKTSMVVRYIGKMF---SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF---- 168
           GVGK+S++   +G      S     T     +  +++ G  KVKL + DT G + F    
Sbjct: 7   GVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKG--KVKLVLVDTPGLDEFGGLG 64

Query: 169 -RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR 227
              +A +  R A+  LLV D T   S    K  +    R    P++  +VGNK DL   R
Sbjct: 65  REELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPII--LVGNKIDLLEER 122

Query: 228 EVNREE-AFHYSKSIGGTYYETSALQDQGIEDVF 260
           EV         +K +G   +E SA   +G++++F
Sbjct: 123 EVEELLRLEELAKILGVPVFEVSAKTGEGVDELF 156

Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

>gnl|CDD|206710 cd04139, RalA_RalB, Ral (Ras-like) family containing highly homologous RalA and RalB

 Score = 89.8 bits (223), Expect = 5e-21
 Identities = 51/147 (34%), Positives = 84/147 (57%), Gaps = 2/147 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+   K+ +   +V+L + DTAGQE + ++   Y
Sbjct: 10  GVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQLNILDTAGQEDYAAIRDNY 68

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVNREEA 234
           +R+    LLVF IT   SF A+  + +++ R  ++  V L +VGNK DLE  R+V+ EEA
Sbjct: 69  FRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLEDKRQVSVEEA 128

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFL 261
            + ++  G  Y ETSA     ++ VF 
Sbjct: 129 ANLAEQWGVNYVETSAKTRANVDKVFF 155

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (>80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 90.8 bits (225), Expect = 5e-21
 Identities = 47/154 (30%), Positives = 78/154 (50%), Gaps = 5/154 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     ++  VWDTAGQE+F  +   Y
Sbjct: 5   GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGY 64

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y     A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 65  YIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDVKDRKVKAKSIT 122

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 123 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 154

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 91.3 bits (227), Expect = 5e-21
 Identities = 50/153 (32%), Positives = 81/153 (52%), Gaps = 5/153 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT+ V R++   F     PT+G      K       +   VWDTAGQE+F  +   Y
Sbjct: 19  GVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGY 78

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN-REEA 234
           Y     A+++FD+T   ++  +  W +++ R V E + + +VGNK D++  R+V  R+  
Sbjct: 79  YIKGQCAIIMFDVTSRITYKNVPNWHRDIVR-VCENIPIVLVGNKVDVK-DRQVKARQIT 136

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           FH  K++   YY+ SA  +   E  FL +++ L
Sbjct: 137 FHRKKNL--QYYDISAKSNYNFEKPFLWLARRL 167

Length = 215

>gnl|CDD|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 90.7 bits (225), Expect = 6e-21
 Identities = 51/151 (33%), Positives = 81/151 (53%), Gaps = 6/151 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++I   F     PTI  S+   +  + E    L + DTAGQE + +M   Y
Sbjct: 15  GVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQY 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R     L V+ IT   SF  I ++ +++ R  D+   P++L  VGNK DL+S R+V+  
Sbjct: 74  MRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMIL--VGNKCDLDSERQVSTG 131

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           E    +KS G  + ETSA Q   +++ F  +
Sbjct: 132 EGQELAKSFGIPFLETSAKQRVNVDEAFYEL 162

Length = 189

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score = 90.6 bits (225), Expect = 1e-20
 Identities = 48/138 (34%), Positives = 70/138 (50%), Gaps = 4/138 (2%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDTAGQERFRSMAPMY 175
            GKTS++ R+  + F      TIG  FF+ +I + G   V LQVWD  GQ+    M   Y
Sbjct: 11  SGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQQIGGKMLDKY 70

Query: 176 YRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
              A A  LV+DIT   SF  ++ W   VK++    +    + +VGNKTDLE +R+V  E
Sbjct: 71  IYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDLEHNRQVTAE 130

Query: 233 EAFHYSKSIGGTYYETSA 250
           +   +++         SA
Sbjct: 131 KHARFAQENDMESIFVSA 148

Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 213

>gnl|CDD|133375 cd04175, Rap1, Rap1 family GTPase consists of Rap1a and Rap1b isoforms

 Score = 88.7 bits (220), Expect = 1e-20
 Identities = 46/153 (30%), Positives = 84/153 (54%), Gaps = 6/153 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI  S+   ++ V   +  L++ DTAG E+F +M  +Y
Sbjct: 11  GVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLY 69

Query: 176 YRNANAALLVFDITQYHSF---AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            +N    +LV+ IT   +F     ++  +  +K   D P++L  VGNK DLE  R V +E
Sbjct: 70  MKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMIL--VGNKCDLEDERVVGKE 127

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +  + ++  G  + ETSA     + ++F ++ +
Sbjct: 128 QGQNLARQWGCAFLETSAKAKINVNEIFYDLVR 160

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score = 87.7 bits (218), Expect = 3e-20
 Identities = 44/151 (29%), Positives = 83/151 (54%), Gaps = 8/151 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM- 174
           GVGK+++ VR++ K F     P +  S ++ ++ +   +V L++ DT GQ++      + 
Sbjct: 9   GVGKSALTVRFLTKRFIGEYEPNLE-SLYSRQVTIDGEQVSLEIQDTPGQQQNEDPESLE 67

Query: 175 -YYRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVN 230
              R A+  +LV+ IT   SF  +      ++E+K+  D  + + +VGNK DL  SR+V+
Sbjct: 68  RSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKK-RDGEIPVILVGNKADLLHSRQVS 126

Query: 231 REEAFHYSKSIGGTYYETSALQD-QGIEDVF 260
            EE    +  +G  ++E SA ++   +++VF
Sbjct: 127 TEEGQKLALELGCLFFEVSAAENYLEVQNVF 157

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tumor suppressor activity. Length = 166

>gnl|CDD|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score = 88.0 bits (218), Expect = 3e-20
 Identities = 48/157 (30%), Positives = 85/157 (54%), Gaps = 7/157 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI    +  +I V   +  L++ DTAG E+F +M  +Y
Sbjct: 11  GVGKSALTVQFVQGIFVDKYDPTI-EDSYRKQIEVDCQQCMLEILDTAGTEQFTAMRDLY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            +N     LV+ IT   SF  ++     +  +K   D P++L  VGNK DLE  R V++E
Sbjct: 70  IKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMIL--VGNKCDLEDERVVSKE 127

Query: 233 EAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLI 268
           E  + ++  G   + ETSA     ++++F ++ + + 
Sbjct: 128 EGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQIN 164

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206712 cd04141, Rit_Rin_Ric, Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric)

 Score = 88.0 bits (218), Expect = 3e-20
 Identities = 48/148 (32%), Positives = 76/148 (51%), Gaps = 6/148 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++I   F  +  PTI  ++ T +  +      L + DTAGQ  F +M   Y
Sbjct: 12  GVGKSAVTMQFISHSFPDYHDPTIEDAYKT-QARIDNEPALLDILDTAGQAEFTAMRDQY 70

Query: 176 YRNANAALLVFDITQYHSF---AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            R     ++ + +T  HSF   +  K  +  ++   D PLVL  VGNK DLE  R+V  E
Sbjct: 71  MRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVL--VGNKVDLEQQRQVTTE 128

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E  + ++     ++ETSA     I+D F
Sbjct: 129 EGRNLAREFNCPFFETSAALRFYIDDAF 156

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score = 86.1 bits (214), Expect = 2e-19
 Identities = 44/145 (30%), Positives = 78/145 (53%), Gaps = 2/145 (1%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGK+S+ V+++   F     PTI  + F+  I     +  L++ DTAGQ+ +  +   Y 
Sbjct: 12  VGKSSLTVQFVEGHFVESYYPTI-ENTFSKIITYKGQEYHLEIVDTAGQDEYSILPQKYS 70

Query: 177 RNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
              +  +LV+ +T   SF  +K  + K L     E + + +VGNK+DL   R+V+ EE  
Sbjct: 71  IGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHMERQVSAEEGK 130

Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
             ++S G  + E+SA +++ +E+ F
Sbjct: 131 KLAESWGAAFLESSAKENENVEEAF 155

Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 180

>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 84.0 bits (208), Expect = 6e-19
 Identities = 41/148 (27%), Positives = 68/148 (45%), Gaps = 4/148 (2%)

Query: 116 GVGKTSMVVRYIG-KMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
            VGK++++ R +G K+      P    ++ T  I       K  + DTAGQE + ++  +
Sbjct: 11  NVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRRL 70

Query: 175 YYRNANAALLVFDITQYH-SFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
           YYR   ++L VFDI         I     KE+  + +  + + +VGNK DL    ++   
Sbjct: 71  YYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDLR-DAKLKTH 129

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
            AF ++K  G      SA   + I+  F
Sbjct: 130 VAFLFAKLNGEPIIPLSAETGKNIDSAF 157

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model [Unknown function, General]. Length = 162

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 85.3 bits (211), Expect = 7e-19
 Identities = 48/179 (26%), Positives = 79/179 (44%), Gaps = 38/179 (21%)

Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           + VGKTS++ RY+ + F   +S T+G +F+  +         + +WDTAG+E+F  +  M
Sbjct: 9   MNVGKTSLLHRYMERRFKDTVS-TVGGAFYLKQWG----PYNISIWDTAGREQFHGLGSM 63

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL----------- 223
           Y R A A +L +D++   S   ++     L    +E  +  VVGNK DL           
Sbjct: 64  YCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEK 123

Query: 224 --------ESSREVNREEAFHYSKSI--------------GGTYYETSALQDQGIEDVF 260
                   E  R+V  E+A  + K I                  +ETSA     ++++F
Sbjct: 124 DAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELF 182

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 220

>gnl|CDD|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score = 84.5 bits (209), Expect = 8e-19
 Identities = 43/155 (27%), Positives = 76/155 (49%), Gaps = 4/155 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT++ ++     F     PTI  S+   ++ V      L+V DTAGQE + ++   +
Sbjct: 9   GVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQW 67

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKEL---KRNVDEPLVLCVVGNKTDLESSREVNRE 232
            R     +LV+ IT   +F  ++ + +++   K      + + +VGNK D    REV+ E
Sbjct: 68  IREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTE 127

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           E    ++ +G  + E SA  +  +E  F  + + L
Sbjct: 128 EGAALARRLGCEFIEASAKTNVNVERAFYTLVRAL 162

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 190

>gnl|CDD|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score = 83.4 bits (206), Expect = 1e-18
 Identities = 42/145 (28%), Positives = 72/145 (49%), Gaps = 6/145 (4%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGK+ +V R++   +      T   + +          + +  WDTAGQERF++M   YY
Sbjct: 11  VGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYY 70

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLC-VVGNKTDLESSREVNREEAF 235
             A+A +LVFD+T+  ++  +  W +EL+     P + C VV NK DL+ S     ++ F
Sbjct: 71  HKAHACILVFDVTRKITYKNLSKWYEELREY--RPEIPCIVVANKIDLDPSVT---QKKF 125

Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
           ++++      Y  SA     +  +F
Sbjct: 126 NFAEKHNLPLYYVSAADGTNVVKLF 150

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 161

>gnl|CDD|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score = 82.2 bits (203), Expect = 3e-18
 Identities = 46/156 (29%), Positives = 77/156 (49%), Gaps = 9/156 (5%)

Query: 117 VGKTSMV--VRYIGKMFSHHISPTIGASFF--TAKINVGENKVKLQVWDTAGQERFRSMA 172
           VGK+++V      G  F  + + T G      T  +    + V+L ++D+AGQE F  M 
Sbjct: 11  VGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSAGQELFSDMV 70

Query: 173 PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN---VDEPLVLCVVGNKTDLESSREV 229
              +       +V+D+T   SF     W+  ++ +   +  P VL  VGNK DL   REV
Sbjct: 71  ENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVL--VGNKCDLTDRREV 128

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +  +A   +++    +YETSA +  G E  FL++++
Sbjct: 129 DAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLAR 164

RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown. Length = 167

>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like

 Score = 82.4 bits (204), Expect = 5e-18
 Identities = 46/165 (27%), Positives = 74/165 (44%), Gaps = 27/165 (16%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENK-VKLQVWDTAGQERFRSMA 172
           G GKT +++ Y    F     PT+   F  +   + V   K ++L +WDTAGQE +  + 
Sbjct: 13  GCGKTCLLMVYAQGSFPEEYVPTV---FENYVTTLQVPNGKIIELALWDTAGQEDYDRLR 69

Query: 173 PMYYRNANAALLVFDITQYHSFAAIK-TWVKELK---RNVDEPLVLCVVGNKTDLESSRE 228
           P+ Y + +  L+ + +    S   ++  W  E+         P+VL  VG KTDL   + 
Sbjct: 70  PLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVNHFCPGT--PIVL--VGLKTDLRKDKN 125

Query: 229 ------------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                       V  E+    +KSIG   Y E SA   + +++VF
Sbjct: 126 SVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVF 170

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 197

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score = 80.7 bits (199), Expect = 1e-17
 Identities = 48/131 (36%), Positives = 72/131 (54%), Gaps = 11/131 (8%)

Query: 140 GASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKT 199
           G  + T  I +   +VKLQ+WDT+GQ RF ++   Y R A   +LV+DIT   SF  I  
Sbjct: 40  GIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDR 99

Query: 200 WVKELKRNVDE-----PLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQ 254
           W+KE    +DE     P +L  VGN+  L   R+V  E+A  Y++  G T++E S L + 
Sbjct: 100 WIKE----IDEHAPGVPKIL--VGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNF 153

Query: 255 GIEDVFLNVSK 265
            I + F  +++
Sbjct: 154 NITESFTELAR 164

The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 189

>gnl|CDD|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 80.3 bits (198), Expect = 2e-17
 Identities = 51/157 (32%), Positives = 82/157 (52%), Gaps = 18/157 (11%)

Query: 118 GKTSMV-VRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           GKTS++ V  +G+ F     PT+  ++ T    V    V+L +WDTAGQE +  + P+ Y
Sbjct: 13  GKTSLLYVFTLGE-FPEEYHPTVFENYVT-DCRVDGKPVQLALWDTAGQEEYERLRPLSY 70

Query: 177 RNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESS-------- 226
             A+  L+ F I    S   ++T W++E++R   + P++L  VG K DL           
Sbjct: 71  SKAHVILIGFAIDTPDSLENVRTKWIEEVRRYCPNVPVIL--VGLKKDLRQEAVAKGNYA 128

Query: 227 --REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
               V  ++A   +++IG   Y E SAL  +G++DVF
Sbjct: 129 TDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVF 165

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors). Length = 190

>gnl|CDD|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 76.6 bits (189), Expect = 2e-16
 Identities = 38/143 (26%), Positives = 65/143 (45%), Gaps = 2/143 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN-KVKLQVWDTAGQERFRSMAPM 174
           GVGKTS+  + IG+ F    S T G +    KI   E  K++L VWD  GQE + +    
Sbjct: 11  GVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQEIYHATHQF 70

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           +  + +  LLVFD+      + +  W++++K       V+ +VG   D     ++ ++  
Sbjct: 71  FLTSRSLYLLVFDLRTGDEVSRVPYWLRQIKAFGGVSPVI-LVGTHIDESCDEDILKKAL 129

Query: 235 FHYSKSIGGTYYETSALQDQGIE 257
                +I    +  S    +GI 
Sbjct: 130 NKKFPAIINDIHFVSCKNGKGIA 152

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 77.0 bits (190), Expect = 2e-16
 Identities = 40/151 (26%), Positives = 76/151 (50%), Gaps = 8/151 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            +GKTS++V+Y+   F      T+G +F    I++   ++   +WD  GQ  F +M P+ 
Sbjct: 10  QIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLV 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL------ESSREV 229
            ++A A L +FD+T+  +  +IK W ++  R  ++  +  +VG K DL      E   E+
Sbjct: 70  CKDAVAILFMFDLTRKSTLNSIKEWYRQ-ARGFNKTAIPILVGTKYDLFADLPPEEQEEI 128

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
            + +A  Y+K++       S      ++ +F
Sbjct: 129 TK-QARKYAKAMKAPLIFCSTSHSINVQKIF 158

Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 182

>gnl|CDD|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 76.4 bits (188), Expect = 2e-16
 Identities = 48/156 (30%), Positives = 82/156 (52%), Gaps = 7/156 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V+R++   F     PTI  ++    I+  ++   LQ+ DT G  +F +M  + 
Sbjct: 11  GVGKSSLVLRFVKGTFRESYIPTIEDTYRQV-ISCSKSICTLQITDTTGSHQFPAMQRLS 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
               +A +LV+ IT   S   +K     + E+K N  E + + +VGNK D   SREV+  
Sbjct: 70  ISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDESPSREVSSS 129

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF---LNVSK 265
           E    +++    + ETSA  +  ++++F   LN+ K
Sbjct: 130 EGAALARTWNCAFMETSAKTNHNVQELFQELLNLEK 165

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 72.8 bits (179), Expect = 1e-15
 Identities = 29/110 (26%), Positives = 51/110 (46%), Gaps = 6/110 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+S++ + +G  F        G +     + V  +   L +WD  G+E  +    ++
Sbjct: 9   GSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREELKFEHIIF 68

Query: 176 YRNANAALLVFDITQYHSFA---AIKTWVKEL-KRNVDEPLVLCVVGNKT 221
            + A+A LLV+D+T   S      +  W+  L K     P++  +VGNK 
Sbjct: 69  MKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGGKIPVI--LVGNKL 116

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis. Length = 116

>gnl|CDD|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 75.2 bits (185), Expect = 4e-15
 Identities = 45/159 (28%), Positives = 75/159 (47%), Gaps = 21/159 (13%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT++V R++G  F    +PTI   F     ++     +L + DT+G   F +M  +  
Sbjct: 11  VGKTAIVSRFLGGRFEEQYTPTI-EDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSI 69

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKE-----------LKRNVDEPLVLCVVGNKTDLES 225
              +  +LVF +    SF  +    ++            K NV  P+V+C  GNK D + 
Sbjct: 70  LTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVIC--GNKADRDF 127

Query: 226 SREVNREEAFHYSKSIGG----TYYETSALQDQGIEDVF 260
            REV R+E       +GG     Y+E SA ++  ++++F
Sbjct: 128 PREVQRDEVEQL---VGGDENCAYFEVSAKKNSNLDEMF 163

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 247

>gnl|CDD|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 72.6 bits (178), Expect = 7e-15
 Identities = 53/164 (32%), Positives = 77/164 (46%), Gaps = 20/164 (12%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT M++ Y    F     PT+  +F +A + V  N V L +WDTAGQE +  + P+ Y
Sbjct: 12  VGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLWDTAGQEDYNRLRPLSY 70

Query: 177 RNANAALLVFDITQYHSFA-AIKTWVKELKR---NVDEPLVLCVVGNKTDLESSRE---- 228
           R A+  LL F +    S+   +K W+ EL+     V  P+VL  VG K DL   ++    
Sbjct: 71  RGADVFLLAFSLISKASYENVLKKWIPELRHYAPGV--PIVL--VGTKLDLRDDKQFFAD 126

Query: 229 ------VNREEAFHYSKSIGGTYY-ETSALQDQGIEDVFLNVSK 265
                 +   +     K IG   Y E S+   Q ++ VF    K
Sbjct: 127 HPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIK 170

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 70.8 bits (173), Expect = 3e-14
 Identities = 46/160 (28%), Positives = 72/160 (45%), Gaps = 18/160 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+    +   + VG  +  L ++DTAGQE +  + P+ 
Sbjct: 10  AVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLS 68

Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLE--------- 224
           Y   +  L+ F +    SF  +K  WV ELK      P +L  +G + DL          
Sbjct: 69  YPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLL--IGTQIDLRDDPKTLARL 126

Query: 225 ---SSREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E+    +K IG   Y E SAL  +G++ VF
Sbjct: 127 NDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVF 166

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 67.8 bits (166), Expect = 3e-13
 Identities = 50/158 (31%), Positives = 77/158 (48%), Gaps = 18/158 (11%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ Y 
Sbjct: 13  GKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLSYP 71

Query: 178 NANAALLVFDITQYHSFAAI-KTWVKELKRNV-DEPLVLCVVGNKTDLESS----RE--- 228
           + +  L+ F I    S   I + W  E+K    + P++L  VGNK DL +     RE   
Sbjct: 72  DTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIIL--VGNKKDLRNDEHTIRELAK 129

Query: 229 -----VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                V  EE    ++ IG   Y E SA   +G+ +VF
Sbjct: 130 MKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVF 167

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization (Ras-dva) family

 Score = 68.3 bits (167), Expect = 3e-13
 Identities = 41/149 (27%), Positives = 72/149 (48%), Gaps = 7/149 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT+++ R++   F      T+     + +  V   KV + + DT+G   F +M  + 
Sbjct: 9   GVGKTALIQRFLYDTFEPKHRRTV-EELHSKEYEVAGVKVTIDILDTSGSYSFPAMRKLS 67

Query: 176 YRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            +N +A  LV+ +    SF  +K     + E+K +   P+V  VVGNK D  + R+V   
Sbjct: 68  IQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIV--VVGNKIDSLAERQVEAA 125

Query: 233 EAFHYSK-SIGGTYYETSALQDQGIEDVF 260
           +A    +      + E SA  ++ + +VF
Sbjct: 126 DALSTVELDWNNGFVEASAKDNENVTEVF 154

Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 197

>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 66.8 bits (164), Expect = 5e-13
 Identities = 36/151 (23%), Positives = 59/151 (39%), Gaps = 13/151 (8%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+++ +           PTIG +  T +       VK  VWD  GQ++ R +   Y
Sbjct: 9   GAGKTTILYKLKLGEVVT-TIPTIGFNVETVEYK----NVKFTVWDVGGQDKIRPLWKHY 63

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPL---VLCVVGNKTDLE---SSREV 229
           Y N +  + V D +        K  + +L    +E L    L ++ NK DL    +  E+
Sbjct: 64  YENTDGLIFVVDSSDRERIEEAKNELHKL--LNEEELKGAPLLILANKQDLPGALTESEL 121

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
                    K         SA+   G+++  
Sbjct: 122 IELLGLESIKGRRWHIQPCSAVTGDGLDEGL 152

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 66.2 bits (162), Expect = 8e-13
 Identities = 44/130 (33%), Positives = 58/130 (44%), Gaps = 11/130 (8%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT++V       FS    PT+G  F   K+  G   V ++VWD  GQ RFRSM   Y R
Sbjct: 11  GKTTLVNVIASGQFSEDTIPTVG--FNMRKVTKG--NVTIKVWDLGGQPRFRSMWERYCR 66

Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLESSREVNREE 233
             NA + V D          K    EL   +++P    + L V+GNK DL  +  V+   
Sbjct: 67  GVNAIVYVVDAADREKLEVAKN---ELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELI 123

Query: 234 AFHYSKSIGG 243
                KSI  
Sbjct: 124 EQMNLKSITD 133

Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved. Length = 159

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score = 67.0 bits (164), Expect = 1e-12
 Identities = 38/148 (25%), Positives = 68/148 (45%), Gaps = 5/148 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+   +   ++        G   +   ++V   +  L V+D   QE    +    
Sbjct: 10  GVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQEDGMWLEDSC 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRN---VDEPLVLCVVGNKTDLESSREVNRE 232
            +  +A ++V+ +T   SF        +L+R     D P++L  VGNK+DL  SREV+ +
Sbjct: 70  MQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIIL--VGNKSDLVRSREVSVQ 127

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    +      + ETSA     ++++F
Sbjct: 128 EGRACAVVFDCKFIETSAALQHNVDELF 155

RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 65.4 bits (159), Expect = 3e-12
 Identities = 43/159 (27%), Positives = 74/159 (46%), Gaps = 18/159 (11%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT +++ Y    F     PT+  ++ +A+  V    V L +WDTAGQE +  +  + Y
Sbjct: 14  VGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSY 72

Query: 177 RNANAALLVFDITQYHSFAAIK-TWVKELKRNV-DEPLVLCVVGNKTDLESSREVNR--- 231
              N  ++ F I    S+  ++  W  E+  +  + P++L  VG K DL +  +  +   
Sbjct: 73  PQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILL--VGTKKDLRNDADTLKKLK 130

Query: 232 ---------EEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                    ++    +K I    Y E SAL   G+++VF
Sbjct: 131 EQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVF 169

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 191

>gnl|CDD|206663 cd01871, Rac1_like, Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3

 Score = 64.8 bits (158), Expect = 3e-12
 Identities = 45/159 (28%), Positives = 76/159 (47%), Gaps = 18/159 (11%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ Y
Sbjct: 12  VGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSY 70

Query: 177 RNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE------ 228
              +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++      
Sbjct: 71  PQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKLK 128

Query: 229 ------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                 +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 129 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 167

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 64.4 bits (157), Expect = 6e-12
 Identities = 44/157 (28%), Positives = 81/157 (51%), Gaps = 15/157 (9%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+++  +    F  +  PT+  ++ TA   V + +++L +WDT+G   + ++ P+ Y 
Sbjct: 13  GKTALLQVFAKDSFPENYVPTVFENY-TASFEVDKQRIELSLWDTSGSPYYDNVRPLSYP 71

Query: 178 NANAALLVFDITQYHSF-AAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSRE----- 228
           +++A L+ FDI++  +  + +K W  E++    N    LV C    +TDL +  E     
Sbjct: 72  DSDAVLICFDISRPETLDSVLKKWKGEVREFCPNTPVLLVGCKSDLRTDLSTLTELSNKR 131

Query: 229 ---VNREEAFHYSKSIGG-TYYETSALQ-DQGIEDVF 260
              V+ E+  + +K IG   Y E SA   +  + DVF
Sbjct: 132 QIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVF 168

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 176

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 61.6 bits (149), Expect = 1e-10
 Identities = 47/172 (27%), Positives = 86/172 (50%), Gaps = 19/172 (11%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+M+       +     PT+  ++ TA +   E +V+L +WDT+G   + ++ P+ Y 
Sbjct: 25  GKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYS 83

Query: 178 NANAALLVFDITQYHSF-AAIKTWVKELKRNVDEPLVLCVVGNKTDL------------E 224
           +++A LL FDI++   F +A+K W  E+        +L ++G KTDL            +
Sbjct: 84  DSDAVLLCFDISRPEIFDSALKKWRAEILDYCPSTRIL-LIGCKTDLRTDLSTLMELSNQ 142

Query: 225 SSREVNREEAFHYSKSIGG-TYYETSAL-QDQGIEDVFLNVSKGLICLSQES 274
               ++ E+    +K +G   Y E SA   ++ I  +F   S  L+C+++ S
Sbjct: 143 KQAPISYEQGCAMAKQLGAEAYLECSAFTSEKSIHSIFRTAS--LLCINKLS 192

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 232

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score = 59.4 bits (145), Expect = 2e-10
 Identities = 20/44 (45%), Positives = 28/44 (63%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS+++R++   FS +   TIG  F +  I V   KVKLQ+
Sbjct: 10  GVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQI 53

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 59.7 bits (144), Expect = 2e-10
 Identities = 43/157 (27%), Positives = 83/157 (52%), Gaps = 15/157 (9%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+++  +    F  +  PT+  ++ TA   +   +++L +WDT+G   + ++ P+ Y 
Sbjct: 17  GKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYP 75

Query: 178 NANAALLVFDITQYHSF-AAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSRE----- 228
           +++A L+ FDI++  +  + +K W   ++E   N    LV C    +TD+ +  E     
Sbjct: 76  DSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHR 135

Query: 229 ---VNREEAFHYSKSIG-GTYYETSALQDQ-GIEDVF 260
              V+ ++  + +K IG  TY E SALQ +  + D+F
Sbjct: 136 QTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 172

Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 182

>gnl|CDD|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 59.1 bits (143), Expect = 3e-10
 Identities = 40/159 (25%), Positives = 70/159 (44%), Gaps = 18/159 (11%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ Y
Sbjct: 12  VGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSY 70

Query: 177 RNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLC-VVGNKTDL----------- 223
              +  L+ F +    SF  +K  WV E+  +   P     +VG + DL           
Sbjct: 71  PQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC--PKTPFLLVGTQIDLRDDPSTIEKLA 128

Query: 224 -ESSREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
               + +  E     ++ +    Y E SAL  +G+++VF
Sbjct: 129 KNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVF 167

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 59.1 bits (143), Expect = 4e-10
 Identities = 41/154 (26%), Positives = 70/154 (45%), Gaps = 12/154 (7%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKTS++  +    F     PT+  ++    I V    V+L +WDTAGQE F  +  + Y 
Sbjct: 12  GKTSLLNVFTRGYFPQVYEPTVFENY-IHDIFVDGLAVELSLWDTAGQEEFDRLRSLSYA 70

Query: 178 NANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSREV------- 229
           + +  +L F +    S   +++ W+ E++ +    + L +V  K DL   R         
Sbjct: 71  DTHVIMLCFSVDNPDSLENVESKWLAEIRHHC-PGVKLVLVALKCDLREPRNERDRGTHT 129

Query: 230 -NREEAFHYSKSIGGT-YYETSALQDQGIEDVFL 261
            + EE    +K I    Y E SA  ++G+ + F 
Sbjct: 130 ISYEEGLAVAKRINACRYLECSAKLNRGVNEAFT 163

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 185

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 58.1 bits (140), Expect = 2e-09
 Identities = 39/157 (24%), Positives = 80/157 (50%), Gaps = 15/157 (9%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+++  +    +     PT+  ++ TA   + +++++L +WDT+G   + ++ P+ Y 
Sbjct: 13  GKTALLHVFAKDNYPESYVPTVFENY-TASFEIDKHRIELNMWDTSGSSYYDNVRPLAYP 71

Query: 178 NANAALLVFDITQYHSFAAI-KTW---VKELKRNVDEPLVLCVVGNKTDLESSRE----- 228
           +++A L+ FDI++  +  ++ K W    +E   N    LV C +  +TDL + RE     
Sbjct: 72  DSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKLVLVGCKLDMRTDLSTLRELSKQR 131

Query: 229 ---VNREEAFHYSKSIGGTYYE--TSALQDQGIEDVF 260
              V  E+    ++ +G   Y   +S + +  + DVF
Sbjct: 132 LIPVTHEQGSLLARQLGAVAYVECSSRMSENSVRDVF 168

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 221

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 55.4 bits (134), Expect = 6e-09
 Identities = 44/154 (28%), Positives = 68/154 (44%), Gaps = 17/154 (11%)

Query: 118 GKT-------SMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS 170
           GKT       +   +    +    I+PT+G +     I VG  K +L  WD  GQE  RS
Sbjct: 11  GKTTFLEQTKTKFSKNYKGLNPSKITPTVGLN--IGTIEVG--KARLMFWDLGGQEELRS 66

Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREV 229
           +   YY  ++  + V D T    F   K+  +++  N   E + L V+ NK DL  +  V
Sbjct: 67  LWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQDLPDALSV 126

Query: 230 NR-EEAFHYSKS-IGGTYYET---SALQDQGIED 258
              +E F    + IG         SAL+ +G+E+
Sbjct: 127 AEIKEVFDDCIALIGRRDCLVQPVSALEGEGVEE 160

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development. Length = 168

>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases

 Score = 54.3 bits (131), Expect = 1e-08
 Identities = 39/116 (33%), Positives = 57/116 (49%), Gaps = 18/116 (15%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+++ +++      H SPTIG+       NV E     ++  +WD  GQE  RS    
Sbjct: 27  GKTTILYQFLLGE-VVHTSPTIGS-------NVEEIVYKNIRFLMWDIGGQESLRSSWNT 78

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPL---VLCVVGNKTDLESS 226
           YY N +A +LV D T        K   +EL + +  E L   VL V+ NK DL+ +
Sbjct: 79  YYTNTDAVILVIDSTDRERLPLTK---EELYKMLAHEDLRKAVLLVLANKQDLKGA 131

Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date. Length = 174

>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 54.5 bits (131), Expect = 2e-08
 Identities = 52/185 (28%), Positives = 78/185 (42%), Gaps = 28/185 (15%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD---------TAGQE 166
           GVGKT++V +++ + F     PT     +   + +      L + D         TAGQE
Sbjct: 10  GVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQE 69

Query: 167 ----RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKEL----KRNVDEPLVLCVVG 218
               RFR +     RN+ A +LV+DI    SF  +K   +++         EP ++ VVG
Sbjct: 70  WMDPRFRGL-----RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIV-VVG 123

Query: 219 NKTDLESSREVNREEAFHY-SKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHT 277
           NK D +  R   R        KS    Y E SA  +  I  +F    + LI  +     T
Sbjct: 124 NKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLF---KELLISATTRGRST 180

Query: 278 S-SLR 281
             +LR
Sbjct: 181 HPALR 185

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated. Length = 198

>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 53.0 bits (127), Expect = 5e-08
 Identities = 43/135 (31%), Positives = 61/135 (45%), Gaps = 27/135 (20%)

Query: 150 VGENKVKLQVWDTAG-QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKT-WVKELKRN 207
           V    V L++WDT G  ++ R  A   Y  ++  LL F I   +S   +KT W  E++  
Sbjct: 61  VDGVSVSLRLWDTFGDHDKDRRFA---YGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHF 117

Query: 208 V-DEPLVLCVVGNKTDLESS--REVNR-----------------EEAFHYSKSIGGTYYE 247
               P++L  VG K DL  +   EVNR                 E     +K +G  YYE
Sbjct: 118 CPRVPVIL--VGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYE 175

Query: 248 TSALQDQGIEDVFLN 262
           TS +   G++DVF N
Sbjct: 176 TSVVTQFGVKDVFDN 190

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature. Length = 195

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 52.1 bits (126), Expect = 7e-08
 Identities = 19/44 (43%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S++ R+    FS     TIG  F T  I V   +VKLQ+
Sbjct: 10  GVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQI 53

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 51.5 bits (124), Expect = 1e-07
 Identities = 33/111 (29%), Positives = 47/111 (42%), Gaps = 10/111 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++ +         I PTIG   F  +  V    VK  VWD  GQE  R +   Y
Sbjct: 24  NAGKTTILYKLKLGEIVTTI-PTIG---FNVE-TVTYKNVKFTVWDVGGQESLRPLWRNY 78

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKEL---KRNVDEPLVLCVVGNKTDL 223
           + N +A + V D          K  +  L   +   D PL+  ++ NK DL
Sbjct: 79  FPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLL--ILANKQDL 127

Pfam combines a number of different Prosite families together. Length = 174

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score = 50.6 bits (122), Expect = 2e-07
 Identities = 19/44 (43%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+++R+    F     PTIG  F+T  I V    VKLQ+
Sbjct: 9   GVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQI 52

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score = 49.9 bits (120), Expect = 3e-07
 Identities = 17/43 (39%), Positives = 28/43 (65%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ 382
            VGK+S+V+R++   FS +   TIGA+F T  +N+ +  VK +
Sbjct: 11  SVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFE 53

The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 49.3 bits (118), Expect = 5e-07
 Identities = 45/151 (29%), Positives = 67/151 (44%), Gaps = 17/151 (11%)

Query: 116 GVGKTSMVVR-YIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           G GKT+++ R  +G++ +    PTIG +  T    V    +K QVWD  GQ   R     
Sbjct: 9   GAGKTTILYRLQVGEVVT--TIPTIGFNVET----VTYKNLKFQVWDLGGQTSIRPYWRC 62

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           YY N +A + V D T        K    EL   ++E      VL V  NK D+    S  
Sbjct: 63  YYSNTDAIIYVVDSTDRDRLGISK---SELHAMLEEEELKDAVLLVFANKQDMPGALSEA 119

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIED 258
           EV  +      K      ++TSA + +G+++
Sbjct: 120 EVAEKLGLSELKDRTWQIFKTSATKGEGLDE 150

Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability. Length = 158

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 49.8 bits (119), Expect = 6e-07
 Identities = 35/126 (27%), Positives = 58/126 (46%), Gaps = 10/126 (7%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK-VKLQVWDTAGQERFRSMAPMYY 176
           GKT+++ R     F + + PT G +    K+++G  K V    WD  GQE+ R +   Y 
Sbjct: 15  GKTTVLYRLKFNEFVNTV-PTKGFNTEKIKVSLGNAKGVTFHFWDVGGQEKLRPLWKSYT 73

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESS---REVN 230
           R  +  + V D          KT + ++ +   N   P++  V+ NK DL ++    EV 
Sbjct: 74  RCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQGVPVL--VLANKQDLPNALPVSEVE 131

Query: 231 REEAFH 236
           +  A H
Sbjct: 132 KLLALH 137

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 183

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score = 49.1 bits (118), Expect = 7e-07
 Identities = 17/43 (39%), Positives = 26/43 (60%)

Query: 341 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           VGKTS+V+RY+   F+     T  ASFF   +N+G  ++ L +
Sbjct: 11  VGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAI 53

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal

 Score = 48.9 bits (117), Expect = 9e-07
 Identities = 38/158 (24%), Positives = 67/158 (42%), Gaps = 24/158 (15%)

Query: 116 GVGKTSMVVRYIGKMFSHHISP-----TIGASFFTAKINVGENKVKLQVWDTAGQERFRS 170
           GVGK+S+++  + + F  ++       TI A            +V   + DT+ + + R+
Sbjct: 12  GVGKSSLIMSLVSEEFPENVPRVLPEITIPADVTPE-------RVPTTIVDTSSRPQDRA 64

Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKT-WVKELKRN-VDEPLVLCVVGNKTDLESSRE 228
                 R AN   LV+ + +  +   I+T W+  ++R  V  P++L   GNK+DL     
Sbjct: 65  NLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILV--GNKSDLRDGSS 122

Query: 229 VNR-EEAF-----HYSKSIGGTYYETSALQDQGIEDVF 260
               EE        + +    T  E SA     + +VF
Sbjct: 123 QAGLEEEMLPIMNEFREIE--TCVECSAKTLINVSEVF 158

Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 168

>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG)

 Score = 46.8 bits (112), Expect = 5e-06
 Identities = 35/143 (24%), Positives = 55/143 (38%), Gaps = 43/143 (30%)

Query: 144 FTAK-INVG---ENKVKLQVWDTAG-QERFRSMAPMYYRN-------------ANAALLV 185
           FT K + VG      ++ QV DT G  +R     P+  RN               A L  
Sbjct: 32  FTTKSLFVGHFDYKYLRWQVIDTPGILDR-----PLEERNTIEMQAITALAHLRAAVLFF 86

Query: 186 FDIT---------QYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
            D +         Q   F       KE+K   ++P++  VV NK DL    E +  E   
Sbjct: 87  IDPSETCGYSIEEQLSLF-------KEIKPLFNKPVI--VVLNKIDL--LTEEDLSEIEK 135

Query: 237 YSKSIGGTYYETSALQDQGIEDV 259
             +  G    + S L ++G++++
Sbjct: 136 ELEKEGEEVIKISTLTEEGVDEL 158

NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins. Length = 167

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score = 46.5 bits (111), Expect = 6e-06
 Identities = 20/44 (45%), Positives = 29/44 (65%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V LQ+
Sbjct: 10  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQI 53

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 45.0 bits (107), Expect = 2e-05
 Identities = 17/44 (38%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+++R+    F   +S TIG  F    + V   KVKL +
Sbjct: 10  GVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAI 53

Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score = 45.8 bits (109), Expect = 2e-05
 Identities = 22/46 (47%), Positives = 27/46 (58%), Gaps = 1/46 (2%)

Query: 339 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK-VKLQL 383
           LGVGKTS++ RY+  +FS H   TIG  F    I    N  V+LQL
Sbjct: 9   LGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQL 54

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 44.7 bits (106), Expect = 2e-05
 Identities = 37/158 (23%), Positives = 68/158 (43%), Gaps = 19/158 (12%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GK++++ +         I PT+G   F  ++   E  + L VWD  GQE+ R++   Y  
Sbjct: 11  GKSTLLYKLKHAELVTTI-PTVG---FNVEMLQLEKHLSLTVWDVGGQEKMRTVWKCYLE 66

Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV----LCVVGNKTDLE---SSREVN 230
           N +  + V D +     A +    KELK  +    +    + ++ NK DL    ++ E+ 
Sbjct: 67  NTDGLVYVVDSSDE---ARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEIT 123

Query: 231 REEAFHYSKSIGGTYYET---SALQDQGIEDVFLNVSK 265
           R   F   K      +     SA+  +G+ + F  ++ 
Sbjct: 124 RR--FKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS 159

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score = 44.2 bits (105), Expect = 4e-05
 Identities = 15/44 (34%), Positives = 24/44 (54%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ +++R+    F+     TIG  F    I +   K+KLQ+
Sbjct: 13  GVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQI 56

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 167

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 43.9 bits (103), Expect = 5e-05
 Identities = 34/120 (28%), Positives = 53/120 (44%), Gaps = 16/120 (13%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+++ +     F   I PTIG +  T    V    +K  +WD  G+ + R +   Y
Sbjct: 9   GAGKTTILFKLKQDEFMQPI-PTIGFNVET----VEYKNLKFTIWDVGGKHKLRPLWKHY 63

Query: 176 YRNANAALLVFD------ITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV 229
           Y N  A + V D      +++ HS  A     KEL+       +L +  NK D+  +  V
Sbjct: 64  YLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELR-----DALLLIFANKQDVAGALSV 118

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 43.0 bits (102), Expect = 8e-05
 Identities = 16/44 (36%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS++ R++   F +    TIG  F +  + V +  V+LQL
Sbjct: 10  SVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQL 53

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score = 42.8 bits (101), Expect = 1e-04
 Identities = 22/101 (21%), Positives = 42/101 (41%), Gaps = 13/101 (12%)

Query: 132 SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY 191
           S +I PT+G +      +  +  +    +D +GQ ++R +   YY+N    + V D +  
Sbjct: 26  SQNIVPTVGFN----VESFKKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDR 81

Query: 192 HSFAAIKTWVKELKRNVDEP------LVLCVVGNKTDLESS 226
                 K    EL+  ++ P      + +    NK DL  +
Sbjct: 82  LRMVVAK---DELELLLNHPDIKHRRIPILFYANKMDLPDA 119

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 34/109 (31%), Positives = 48/109 (44%), Gaps = 10/109 (9%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+ +++ +      HI+PT G   F  K NV  +  KL VWD  GQ + R     Y+ 
Sbjct: 27  GKTT-ILKQLASEDISHITPTQG---FNIK-NVQADGFKLNVWDIGGQRKIRPYWRNYFE 81

Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV---LCVVGNKTDL 223
           N +  + V D      F      + EL    +E L    + V  NK DL
Sbjct: 82  NTDVLIYVIDSADRKRFEEAGQELVELLE--EEKLAGVPVLVFANKQDL 128

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 42.9 bits (101), Expect = 3e-04
 Identities = 30/133 (22%), Positives = 54/133 (40%), Gaps = 25/133 (18%)

Query: 116 GVGKTSMV------------VRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDT 162
           GVGK+S+V             + IG      HI+     S   +     E    +++WD 
Sbjct: 31  GVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDV 90

Query: 163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD------------E 210
           +G ER++    ++Y   N  + V D++Q  +  +++ W  E+                  
Sbjct: 91  SGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGL 150

Query: 211 PLVLCVVGNKTDL 223
           P+   V+GNK D+
Sbjct: 151 PVPYIVIGNKADI 163

Length = 334

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 41.3 bits (97), Expect = 4e-04
 Identities = 16/44 (36%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           G GK+ ++ ++I   F    + TIG  F +  +NVG   VKLQ+
Sbjct: 10  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQI 53

Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor

 Score = 40.7 bits (95), Expect = 6e-04
 Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 14/113 (12%)

Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
             GKT+++ +  +G+  +    PTIG +  T    V    +   VWD  GQ++ R +   
Sbjct: 23  AAGKTTILYKLKLGESVT--TIPTIGFNVET----VTYKNISFTVWDVGGQDKIRPLWRH 76

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE----PLVLCVVGNKTDL 223
           YY N    + V D          +   +EL R ++E      V+ V  NK DL
Sbjct: 77  YYTNTQGLIFVVDSNDRDRIDEAR---EELHRMLNEDELRDAVILVFANKQDL 126

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop). Length = 175

>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 29/91 (31%), Positives = 41/91 (45%), Gaps = 11/91 (12%)

Query: 137 PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAA 196
           PTIG +  T    V    +K  +WD  GQ++ R +   YY+N N  + V D         
Sbjct: 47  PTIGFNVET----VEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGD 102

Query: 197 IKTWVKELKRNVDEP----LVLCVVGNKTDL 223
            +   +EL+R + E      VL V  NK DL
Sbjct: 103 AR---EELERMLSEDELRDAVLLVFANKQDL 130

Length = 182

>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase

 Score = 39.0 bits (91), Expect = 0.002
 Identities = 29/126 (23%), Positives = 51/126 (40%), Gaps = 12/126 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKTS++     +     + PT G  F +  I   +  ++L   +  G +  R     Y
Sbjct: 9   GAGKTSLLHSLSSERSLESVVPTTG--FNSVAIPTQDAIMELL--EIGGSQNLRKYWKRY 64

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP--LVLCVVGNKTDLESSR---EVN 230
              +   + V D          +   +EL + +  P  L L V+ NK DL ++R   E++
Sbjct: 65  LSGSQGLIFVVDSADSERLPLAR---QELHQLLQHPPDLPLVVLANKQDLPAARSVQEIH 121

Query: 231 REEAFH 236
           +E    
Sbjct: 122 KELELE 127

Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date. Length = 164

>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 27/91 (29%), Positives = 40/91 (43%), Gaps = 11/91 (12%)

Query: 137 PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAA 196
           PTIG +  T    V    +   VWD  GQ++ R +   Y++N    + V D         
Sbjct: 30  PTIGFNVET----VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGE 85

Query: 197 IKTWVKELKRNVDEP----LVLCVVGNKTDL 223
            +   +EL+R ++E      VL V  NK DL
Sbjct: 86  AR---EELQRMLNEDELRDAVLLVFANKQDL 113

The Arf1-Arf5-like subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score = 38.0 bits (88), Expect = 0.004
 Identities = 16/44 (36%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT +V R+   +F      TIG  F    + +   K+KLQ+
Sbjct: 17  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQI 60

Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 169

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score = 38.8 bits (90), Expect = 0.004
 Identities = 17/44 (38%), Positives = 22/44 (50%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT+++ R +G  F     PTIG       I      +KLQL
Sbjct: 15  GVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQL 58

Length = 219

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	617
KOG0084|consensus	205		100.0
KOG0092|consensus	200		100.0
KOG0098|consensus	216		100.0
KOG0078|consensus	207		100.0
KOG0094|consensus	221		99.98
KOG0080|consensus	209		99.97
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.97
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.97
KOG0394|consensus	210		99.97
KOG0087|consensus	222		99.97
KOG0093|consensus	193		99.97
KOG0086|consensus	214		99.96
KOG0079|consensus	198		99.96
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.96
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.96
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.96
KOG0091|consensus	213		99.96
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.96
KOG0088|consensus	218		99.96
KOG0097|consensus	215		99.96
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.96
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.96
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.96
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.96
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.96
KOG0095|consensus	213		99.96
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.96
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.95
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.95
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.95
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.95
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.95
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.95
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.95
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.95
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.95
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.95
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.95
PTZ00369	189	Ras-like protein; Provisional	99.95
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.95
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.95
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.95
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.95
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.95
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.95
PLN03110	216	Rab GTPase; Provisional	99.95
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.95
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.95
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.95
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.95
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.95
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.95
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.95
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.95
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.94
PLN03108	210	Rab family protein; Provisional	99.94
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.94
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.94
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.94
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.94
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.94
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.94
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.94
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.94
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.94
KOG0083|consensus	192		99.94
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.94
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.94
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.94
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.94
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.94
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.94
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.94
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.94
COG1160	444	Predicted GTPases [General function prediction onl	99.94
KOG0081|consensus	219		99.94
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.93
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.93
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.93
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.93
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.93
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.93
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.93
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.93
PLN03118	211	Rab family protein; Provisional	99.93
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.93
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.93
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.93
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.92
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.92
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.92
KOG0395|consensus	196		99.92
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.92
PRK03003	472	GTP-binding protein Der; Reviewed	99.92
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.92
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.91
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.91
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.91
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.9
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.9
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.9
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.9
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.9
KOG0393|consensus	198		99.9
PLN00223	181	ADP-ribosylation factor; Provisional	99.9
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.9
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.9
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.9
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.9
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.9
KOG4252|consensus	246		99.89
PTZ00133	182	ADP-ribosylation factor; Provisional	99.89
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.89
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.89
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.89
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.88
PTZ00099	176	rab6; Provisional	99.88
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.88
PRK00093	435	GTP-binding protein Der; Reviewed	99.87
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.87
PLN00023	334	GTP-binding protein; Provisional	99.87
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.87
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.87
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.87
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.86
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.86
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.86
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.86
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.84
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.84
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.84
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.82
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.82
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.82
KOG3905|consensus	473		99.81
KOG1673|consensus	205		99.81
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.81
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.81
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.81
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.81
COG1100	219	GTPase SAR1 and related small G proteins [General	99.8
PRK12299	335	obgE GTPase CgtA; Reviewed	99.8
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.8
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.79
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.78
PF14438	77	SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.	99.78
KOG0073|consensus	185		99.78
PRK04213	201	GTP-binding protein; Provisional	99.78
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.77
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.76
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.75
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.75
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.74
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.74
KOG0070|consensus	181		99.74
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.74
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.74
PRK15494	339	era GTPase Era; Provisional	99.74
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.73
COG1159	298	Era GTPase [General function prediction only]	99.73
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.73
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.73
KOG0075|consensus	186		99.73
KOG3883|consensus	198		99.73
PRK03003	472	GTP-binding protein Der; Reviewed	99.72
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.71
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.71
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.71
PRK00089	292	era GTPase Era; Reviewed	99.7
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.7
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.7
COG1160	444	Predicted GTPases [General function prediction onl	99.7
cd00881	189	GTP_translation_factor GTP translation factor fami	99.7
PRK12297	424	obgE GTPase CgtA; Reviewed	99.69
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.69
PRK11058	426	GTPase HflX; Provisional	99.69
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.69
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.69
KOG0096|consensus	216		99.68
KOG4423|consensus	229		99.67
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.67
COG0218	200	Predicted GTPase [General function prediction only	99.67
KOG0071|consensus	180		99.66
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.66
PRK12296	500	obgE GTPase CgtA; Reviewed	99.66
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.66
PRK12298	390	obgE GTPase CgtA; Reviewed	99.65
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.64
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.64
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.63
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.63
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.62
COG0486	454	ThdF Predicted GTPase [General function prediction	99.62
COG5180	654	PBP1 Protein interacting with poly(A)-binding prot	99.62
PRK00093	435	GTP-binding protein Der; Reviewed	99.61
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.61
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.59
PRK05306	787	infB translation initiation factor IF-2; Validated	99.59
CHL00189	742	infB translation initiation factor 2; Provisional	99.58
PRK05433	600	GTP-binding protein LepA; Provisional	99.58
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.58
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.58
PRK12317	425	elongation factor 1-alpha; Reviewed	99.56
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.56
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.55
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.55
KOG0074|consensus	185		99.54
KOG0076|consensus	197		99.53
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.53
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.52
KOG0072|consensus	182		99.5
COG2229	187	Predicted GTPase [General function prediction only	99.48
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.48
PRK10218	607	GTP-binding protein; Provisional	99.48
KOG1707|consensus	625		99.48
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.47
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.47
COG1084	346	Predicted GTPase [General function prediction only	99.46
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.46
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.45
PRK04004	586	translation initiation factor IF-2; Validated	99.44
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.44
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.44
KOG2375|consensus	756		99.44
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.43
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.43
COG2262	411	HflX GTPases [General function prediction only]	99.41
KOG1489|consensus	366		99.39
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.39
KOG1423|consensus	379		99.37
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.37
KOG1191|consensus	531		99.37
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.36
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.35
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.35
PRK12736	394	elongation factor Tu; Reviewed	99.34
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.34
PRK12735	396	elongation factor Tu; Reviewed	99.33
PRK12289	352	GTPase RsgA; Reviewed	99.32
COG1163	365	DRG Predicted GTPase [General function prediction	99.31
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.31
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.29
CHL00071	409	tufA elongation factor Tu	99.29
COG0536	369	Obg Predicted GTPase [General function prediction	99.29
PRK12288	347	GTPase RsgA; Reviewed	99.26
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.24
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.24
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.23
PRK13351	687	elongation factor G; Reviewed	99.22
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.22
PLN03126	478	Elongation factor Tu; Provisional	99.21
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.21
PRK00049	396	elongation factor Tu; Reviewed	99.21
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.2
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	99.2
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.19
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.18
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.18
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.17
PRK00098	298	GTPase RsgA; Reviewed	99.17
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.17
PLN00043	447	elongation factor 1-alpha; Provisional	99.17
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.16
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.16
KOG0462|consensus	650		99.15
PLN03127	447	Elongation factor Tu; Provisional	99.15
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.14
KOG0077|consensus	193		99.13
KOG2375|consensus	756		99.13
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.13
PRK09602	396	translation-associated GTPase; Reviewed	99.12
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.12
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.11
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.1
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	99.09
COG3596	296	Predicted GTPase [General function prediction only	99.09
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	99.09
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.09
PTZ00141	446	elongation factor 1- alpha; Provisional	99.07
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	99.07
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.05
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.05
PRK09563	287	rbgA GTPase YlqF; Reviewed	99.05
KOG0090|consensus	238		99.02
KOG1490|consensus	620		99.02
PRK12739	691	elongation factor G; Reviewed	99.02
PRK09866	741	hypothetical protein; Provisional	99.01
PRK12740	668	elongation factor G; Reviewed	99.01
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.0
PRK14845	1049	translation initiation factor IF-2; Provisional	98.95
COG1162	301	Predicted GTPases [General function prediction onl	98.95
KOG0084|consensus	205		98.94
KOG0094|consensus	221		98.94
KOG1145|consensus	683		98.92
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.91
PTZ00258	390	GTP-binding protein; Provisional	98.88
PRK00007	693	elongation factor G; Reviewed	98.87
PRK13796	365	GTPase YqeH; Provisional	98.85
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.84
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.82
PRK13768	253	GTPase; Provisional	98.81
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.78
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.77
KOG1707|consensus	625		98.76
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.76
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.75
KOG0092|consensus	200		98.71
PRK09601	364	GTP-binding protein YchF; Reviewed	98.71
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.68
PRK01889	356	GTPase RsgA; Reviewed	98.68
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.67
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.65
KOG0394|consensus	210		98.64
KOG0095|consensus	213		98.64
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.63
KOG0078|consensus	207		98.61
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.59
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.59
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.58
KOG0080|consensus	209		98.57
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.57
KOG1486|consensus	364		98.56
PF06741	72	LsmAD: LsmAD domain; InterPro: IPR009604 This entr	98.54
KOG0079|consensus	198		98.54
KOG0098|consensus	216		98.53
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.53
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.52
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.52
KOG0705|consensus	749		98.52
KOG1144|consensus	1064		98.51
PRK07560	731	elongation factor EF-2; Reviewed	98.48
KOG0410|consensus	410		98.47
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.43
KOG3886|consensus	295		98.43
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.42
KOG2486|consensus	320		98.41
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.37
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.36
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.36
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.36
KOG0087|consensus	222		98.35
COG1161	322	Predicted GTPases [General function prediction onl	98.35
PTZ00416	836	elongation factor 2; Provisional	98.35
KOG1532|consensus	366		98.33
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.32
KOG0458|consensus	603		98.3
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.29
KOG0086|consensus	214		98.29
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.26
KOG0461|consensus	522		98.26
KOG0093|consensus	193		98.24
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.22
KOG1547|consensus	336		98.01
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	98.01
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.0
KOG0097|consensus	215		98.0
KOG0083|consensus	192		97.99
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.98
KOG2655|consensus	366		97.98
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.97
COG5019	373	CDC3 Septin family protein [Cell division and chro	97.97
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.93
KOG1487|consensus	358		97.91
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.91
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	97.9
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	97.9
KOG0468|consensus	971		97.89
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	97.86
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	97.83
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	97.83
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	97.83
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.82
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	97.81
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.81
KOG0091|consensus	213		97.8
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.78
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	97.78
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	97.77
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	97.76
COG1161	322	Predicted GTPases [General function prediction onl	97.73
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.73
KOG2484|consensus	435		97.73
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	97.72
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	97.71
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	97.7
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.7
COG0050	394	TufB GTPases - translation elongation factors [Tra	97.68
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	97.67
KOG1954|consensus	532		97.67
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	97.66
KOG4273|consensus	418		97.64
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.64
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.63
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	97.62
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	97.62
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	97.61
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.61
KOG1143|consensus	591		97.58
COG5258	527	GTPBP1 GTPase [General function prediction only]	97.57
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	97.57
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	97.56
KOG1424|consensus	562		97.54
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	97.54
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	97.54
PLN00023	334	GTP-binding protein; Provisional	97.52
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	97.52
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	97.5
KOG0448|consensus	749		97.5
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	97.48
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	97.48
PLN03110	216	Rab GTPase; Provisional	97.48
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	97.48
KOG0081|consensus	219		97.48
KOG0088|consensus	218		97.47
KOG0395|consensus	196		97.46
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	97.46
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	97.46
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	97.44
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.42
KOG1424|consensus	562		97.41
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	97.41
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	97.4
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	97.39
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	97.39
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	97.38
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	97.38
PTZ00369	189	Ras-like protein; Provisional	97.37
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	97.37
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	97.37
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	97.36
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	97.36
KOG0460|consensus	449		97.34
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	97.33
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	97.32
PLN03108	210	Rab family protein; Provisional	97.32
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.29
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	97.29
KOG1191|consensus	531		97.28
cd01725	81	LSm2 The eukaryotic Sm and Sm-like (LSm) proteins	97.27
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	97.26
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	97.26
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	97.24
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	97.24
cd03110	179	Fer4_NifH_child This protein family's function is	97.23
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	97.22
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.22
PF12701	96	LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC	97.22
PRK12288	347	GTPase RsgA; Reviewed	97.21
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	97.18
cd01733	78	LSm10 The eukaryotic Sm and Sm-like (LSm) proteins	97.18
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	97.17
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	97.17
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	97.17
PRK10416	318	signal recognition particle-docking protein FtsY;	97.15
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	97.15
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	97.14
KOG0393|consensus	198		97.11
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	97.11
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	97.09
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	97.09
KOG1491|consensus	391		97.08
KOG2423|consensus	572		97.06
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	97.05
KOG2485|consensus	335		97.05
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	97.05
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	97.05
PRK13796	365	GTPase YqeH; Provisional	97.04
PRK14974	336	cell division protein FtsY; Provisional	97.02
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.01
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	97.01
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.0
KOG2484|consensus	435		97.0
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	96.99
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	96.98
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	96.97
PRK12289	352	GTPase RsgA; Reviewed	96.97
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	96.97
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	96.95
cd00600	63	Sm_like The eukaryotic Sm and Sm-like (LSm) protei	96.93
COG1100	219	GTPase SAR1 and related small G proteins [General	96.93
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	96.91
cd03112	158	CobW_like The function of this protein family is u	96.91
cd01724	90	Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins	96.9
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	96.9
KOG4252|consensus	246		96.89
COG0523	323	Putative GTPases (G3E family) [General function pr	96.88
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.88
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	96.86
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	96.85
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	96.85
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	96.84
KOG0463|consensus	641		96.84
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	96.81
PF01423	67	LSM: LSM domain ; InterPro: IPR001163 This family	96.79
KOG3859|consensus	406		96.79
cd01721	70	Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins	96.78
cd01736	74	LSm14_N LSm14 (also known as RAP55) belongs to a f	96.77
PLN03118	211	Rab family protein; Provisional	96.73
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.73
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.73

>KOG0084|consensus

Probab=100.00  E-value=4.6e-34  Score=267.67  Aligned_cols=167  Identities=38%  Similarity=0.667  Sum_probs=161.5

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+|+|+                      +|||||||+.||..+.|.+.+..|+|+++..+.+.++++.++++||||
T Consensus         8 ylFKiiliGd----------------------s~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDT   65 (205)
T KOG0084|consen    8 YLFKIILIGD----------------------SGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDT   65 (205)
T ss_pred             eEEEEEEECC----------------------CCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeec
Confidence            3489999999                      999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|+|||+.+...||++|++||+|||+++.+||..+..|+.++.++...++|.+|||||+|+.+.+.++.++++.|+.+++
T Consensus        66 AGQERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~  145 (205)
T KOG0084|consen   66 AGQERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELG  145 (205)
T ss_pred             cccHHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999998889999999999999999999999999999999


Q ss_pred             Ce-EEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GT-YYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~-~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++ |+|+|||++.||++.|..|...+....
T Consensus       146 ~~~f~ETSAK~~~NVe~~F~~la~~lk~~~  175 (205)
T KOG0084|consen  146 IPIFLETSAKDSTNVEDAFLTLAKELKQRK  175 (205)
T ss_pred             CcceeecccCCccCHHHHHHHHHHHHHHhc
Confidence            98 999999999999999999999887654

>KOG0092|consensus

Probab=100.00  E-value=8.9e-33  Score=258.07  Aligned_cols=168  Identities=47%  Similarity=0.826  Sum_probs=160.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      .+||||||+-||..+.|.+...+|+|.-|.++.+.++...++|.|||
T Consensus         3 ~~~~KvvLLG~----------------------~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWD   60 (200)
T KOG0092|consen    3 TREFKVVLLGD----------------------SGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWD   60 (200)
T ss_pred             cceEEEEEECC----------------------CCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEE
Confidence            34679999999                      99999999999999999988899999999999999999999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|+|+|..+.+.||++++++|+|||+++.+||..++.|+.++.+..+.++-+.|||||+||.+.+++..+++..+|...
T Consensus        61 TAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~  140 (200)
T KOG0092|consen   61 TAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQ  140 (200)
T ss_pred             cCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999888888999999999999999999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      |+.|+|+|||+|.||++||..|.+.+....
T Consensus       141 gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~  170 (200)
T KOG0092|consen  141 GLLFFETSAKTGENVNEIFQAIAEKLPCSD  170 (200)
T ss_pred             CCEEEEEecccccCHHHHHHHHHHhccCcc
Confidence            999999999999999999999999887644

>KOG0098|consensus

Probab=100.00  E-value=2e-32  Score=253.33  Aligned_cols=172  Identities=37%  Similarity=0.660  Sum_probs=164.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+|++++|+                      .|||||+|+.||+..+|.+.+..|+|+++..+.+.++++.++++|||
T Consensus         4 ~~~fKyIiiGd----------------------~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwD   61 (216)
T KOG0098|consen    4 AYLFKYIIIGD----------------------TGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWD   61 (216)
T ss_pred             cceEEEEEECC----------------------CCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEe
Confidence            45689999999                      99999999999999999999999999999999999999999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++.|++.++.||+.+.++|||||++.++||..+..||..++++...++.++|+|||+||...++++.+|...||+++
T Consensus        62 taGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~eh  141 (216)
T KOG0098|consen   62 TAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREH  141 (216)
T ss_pred             cCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999998778899999999999999999999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhhhccc
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLSQESL  275 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~~~~~  275 (617)
                      |+.++++||++++||++.|..+...+..+.+.+.
T Consensus       142 gLifmETSakt~~~VEEaF~nta~~Iy~~~q~g~  175 (216)
T KOG0098|consen  142 GLIFMETSAKTAENVEEAFINTAKEIYRKIQDGV  175 (216)
T ss_pred             CceeehhhhhhhhhHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999999998876544

>KOG0078|consensus

Probab=100.00  E-value=5.1e-32  Score=257.75  Aligned_cols=167  Identities=38%  Similarity=0.677  Sum_probs=161.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .-+||+++|+                      +|||||+|+.+|..+.|...+..|+|++|..+.+..++..+.+++|||
T Consensus        11 ~~~kvlliGD----------------------s~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDt   68 (207)
T KOG0078|consen   11 YLFKLLLIGD----------------------SGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDT   68 (207)
T ss_pred             eEEEEEEECC----------------------CCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEc
Confidence            3479999999                      999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|+++|..+...|++.|+++++|||+++..||+++..|+..|.++.+..+|++|||||+|+..+++++.+.++++|.++|
T Consensus        69 aGQerf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G  148 (207)
T KOG0078|consen   69 AGQERFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYG  148 (207)
T ss_pred             ccchhHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999889999999999999999999999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +.|+|+||++|.||++.|-.|++.+..+.
T Consensus       149 ~~F~EtSAk~~~NI~eaF~~La~~i~~k~  177 (207)
T KOG0078|consen  149 IKFFETSAKTNFNIEEAFLSLARDILQKL  177 (207)
T ss_pred             CeEEEccccCCCCHHHHHHHHHHHHHhhc
Confidence            99999999999999999999999998654

>KOG0094|consensus

Probab=99.98  E-value=5.3e-32  Score=252.55  Aligned_cols=165  Identities=36%  Similarity=0.668  Sum_probs=156.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      ..||+++|+                      .+|||||||+||+.+.|...|.+|+|++|..+.+.+.+..++|++|||+
T Consensus        22 ~~KlVflGd----------------------qsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTA   79 (221)
T KOG0094|consen   22 KYKLVFLGD----------------------QSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTA   79 (221)
T ss_pred             EEEEEEEcc----------------------CccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecc
Confidence            369999999                      9999999999999999999999999999999999999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCC-CCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~-~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      |||+|+.+++.|++++.++|+|||+++..||+...+|+..+...... .+-|+|||||.||.+.+++..++....+++++
T Consensus        80 GQERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~  159 (221)
T KOG0094|consen   80 GQERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELN  159 (221)
T ss_pred             cHHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999887654 47889999999999999999999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ..|+++||+.|.||.++|..|...+...
T Consensus       160 a~f~etsak~g~NVk~lFrrIaa~l~~~  187 (221)
T KOG0094|consen  160 AEFIETSAKAGENVKQLFRRIAAALPGM  187 (221)
T ss_pred             cEEEEecccCCCCHHHHHHHHHHhccCc
Confidence            9999999999999999999988877654

>KOG0080|consensus

Probab=99.97  E-value=8.9e-31  Score=236.16  Aligned_cols=166  Identities=34%  Similarity=0.638  Sum_probs=156.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+-+|+.+.|......|+|++|..+.+.+++..+++.||||
T Consensus        10 ~t~KiLlIGe----------------------SGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDT   67 (209)
T KOG0080|consen   10 TTFKILLIGE----------------------SGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDT   67 (209)
T ss_pred             eeEEEEEEcc----------------------CCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEec
Confidence            3589999999                      999999999999999998888888999999999999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|+|+|+.+.+.||+.+.++|+|||++.+++|..++.|+.++..+.. .++-.++||||+|...++.++.++..+|++++
T Consensus        68 AGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h  147 (209)
T KOG0080|consen   68 AGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKH  147 (209)
T ss_pred             cchHhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999988764 45677899999999888999999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++-|+|+||++.+||+..|++++.+|.+-
T Consensus       148 ~~LFiE~SAkt~~~V~~~FeelveKIi~t  176 (209)
T KOG0080|consen  148 RCLFIECSAKTRENVQCCFEELVEKIIET  176 (209)
T ss_pred             CcEEEEcchhhhccHHHHHHHHHHHHhcC
Confidence            99999999999999999999999988753

>cd04120 Rab12 Rab12 subfamily

Probab=99.97  E-value=2.2e-29  Score=247.48  Aligned_cols=156  Identities=34%  Similarity=0.664  Sum_probs=145.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      .|||||||+++|+.+.|...+.+|+|.++..+.+.+++..+.++||||+|+++|..++..|++++|++|+|||++++.||
T Consensus         9 ~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf   88 (202)
T cd04120           9 RGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETF   88 (202)
T ss_pred             CCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            99999999999999999989999999999888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc-CCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI-GGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~-g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +.+..|+..+.+....++|++|||||+||..++++..+++.++++++ ++.|+++||++|.||+++|++|++.+...
T Consensus        89 ~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~  165 (202)
T cd04120          89 DDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK  165 (202)
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            99999999888776667899999999999878888888888899875 78999999999999999999999887653

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>cd04121 Rab40 Rab40 subfamily

Probab=99.97  E-value=3.4e-29  Score=243.80  Aligned_cols=164  Identities=30%  Similarity=0.492  Sum_probs=152.7

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      .|||||||+.+|..+.+...+.++++.++....+.+++..+.+++|||+
T Consensus         6 ~~KivviG~----------------------~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~   63 (189)
T cd04121           6 LLKFLLVGD----------------------SDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTS   63 (189)
T ss_pred             eeEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCC
Confidence            479999999                      9999999999999999888888999999888888889999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |+++|..+++.+++++|++|||||++++.||+.+..|+.++.+..+ .+|+||||||+||...+.+..+++..+++.+++
T Consensus        64 G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~-~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~  142 (189)
T cd04121          64 GQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAP-GVPKILVGNRLHLAFKRQVATEQAQAYAERNGM  142 (189)
T ss_pred             CcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECccchhccCCCHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999987664 589999999999987788889999999999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +|++|||++|.||+++|++|++.+...
T Consensus       143 ~~~e~SAk~g~~V~~~F~~l~~~i~~~  169 (189)
T cd04121         143 TFFEVSPLCNFNITESFTELARIVLMR  169 (189)
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999999877653

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>KOG0394|consensus

Probab=99.97  E-value=5.9e-30  Score=236.60  Aligned_cols=166  Identities=38%  Similarity=0.695  Sum_probs=154.1

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      -+||+|+|+                      +|||||||+|+|...+|...+..|+|.+|.++.+.+++..+.++||||+
T Consensus         9 lLKViiLGD----------------------sGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTA   66 (210)
T KOG0394|consen    9 LLKVIILGD----------------------SGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTA   66 (210)
T ss_pred             ceEEEEeCC----------------------CCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecc
Confidence            379999999                      9999999999999999999999999999999999999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC----CCCeEEEEEECCCCCC--ccccCHHHHHHH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLES--SREVNREEAFHY  237 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~----~~iPvIlVgNK~DL~~--~~~v~~~e~~~~  237 (617)
                      |+|+|.++.-.||+.+|++++|||+.++.||+.++.|-.++.....    ...|+||+|||+|+..  .++++.+.++.|
T Consensus        67 GQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~W  146 (210)
T KOG0394|consen   67 GQERFQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTW  146 (210)
T ss_pred             cHHHhhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHH
Confidence            9999999999999999999999999999999999999999876553    4589999999999965  388999999999


Q ss_pred             HHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         238 SKSIG-GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       238 ~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      |...| ++|||+|||...||++.|+.+.+..+...
T Consensus       147 C~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E  181 (210)
T KOG0394|consen  147 CKSKGNIPYFETSAKEATNVDEAFEEIARRALANE  181 (210)
T ss_pred             HHhcCCceeEEecccccccHHHHHHHHHHHHHhcc
Confidence            98876 69999999999999999999998877644

>KOG0087|consensus

Probab=99.97  E-value=1.4e-29  Score=239.86  Aligned_cols=168  Identities=38%  Similarity=0.644  Sum_probs=161.6

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .-+||+++|+                      ++||||-|+.||..+.|.....+|+|+++.++.+.++++.++.+||||
T Consensus        13 ylFKiVliGD----------------------S~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDT   70 (222)
T KOG0087|consen   13 YLFKIVLIGD----------------------SAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDT   70 (222)
T ss_pred             eEEEEEEeCC----------------------CccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecc
Confidence            3489999999                      999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|+|+|+.+...||+.+-++++|||++...+|+.+.+||.+++.+...+++++|||||+||...+.+..+++..+++..+
T Consensus        71 AGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~  150 (222)
T KOG0087|consen   71 AGQERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEG  150 (222)
T ss_pred             cchhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcC
Confidence            99999999999999999999999999999999999999999999998899999999999999889999999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLSQ  272 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~~  272 (617)
                      +.|+++||..+.||++.|+.++..|.....
T Consensus       151 l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs  180 (222)
T KOG0087|consen  151 LFFLETSALDATNVEKAFERVLTEIYKIVS  180 (222)
T ss_pred             ceEEEecccccccHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999998887653

>KOG0093|consensus

Probab=99.97  E-value=1.3e-29  Score=225.32  Aligned_cols=167  Identities=31%  Similarity=0.583  Sum_probs=159.0

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +|+.|+|+                      ..||||||+.|++++.|...+..|+|+++..+++.-..+.+++++|||+|
T Consensus        22 fKlliiGn----------------------ssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTag   79 (193)
T KOG0093|consen   22 FKLLIIGN----------------------SSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAG   79 (193)
T ss_pred             eeEEEEcc----------------------CCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEeccc
Confidence            59999999                      99999999999999999999999999999999888788899999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      +|+|+.+.-.|++.++++|++||+++.+||..++.|.-.|+.+.-.++|||||+||||+.+++.++.+..+.++.++|+.
T Consensus        80 qEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfe  159 (193)
T KOG0093|consen   80 QERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFE  159 (193)
T ss_pred             chhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChH
Confidence            99999999999999999999999999999999999999999988888999999999999999999999999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHHhhhc
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLICLSQE  273 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~~~~~  273 (617)
                      |||+|||.+.||+++|+.++..|-.+..+
T Consensus       160 fFEtSaK~NinVk~~Fe~lv~~Ic~kmse  188 (193)
T KOG0093|consen  160 FFETSAKENINVKQVFERLVDIICDKMSE  188 (193)
T ss_pred             HhhhcccccccHHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999888765533

>KOG0086|consensus

Probab=99.96  E-value=1.5e-29  Score=226.23  Aligned_cols=161  Identities=39%  Similarity=0.644  Sum_probs=155.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      .|.|||+|+++|+..+|......|+|++|..+.+++.++.++++||||+|+++|+...+.||+.+.+.++|||++++++|
T Consensus        18 aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~Tsrdsf   97 (214)
T KOG0086|consen   18 AGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSF   97 (214)
T ss_pred             CCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhhhcc
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQES  274 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~~~~  274 (617)
                      +.+..|+..++...+..+.||++|||.||..+++++..++..|+.+..+.+.|+||++|+||++.|-...+.|..+.+.+
T Consensus        98 naLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~kIE~G  177 (214)
T KOG0086|consen   98 NALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIESG  177 (214)
T ss_pred             HHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999988876554


Q ss_pred             c
Q psy3029         275 L  275 (617)
Q Consensus       275 ~  275 (617)
                      +
T Consensus       178 E  178 (214)
T KOG0086|consen  178 E  178 (214)
T ss_pred             C
Confidence            4

>KOG0079|consensus

Probab=99.96  E-value=8.8e-30  Score=226.64  Aligned_cols=156  Identities=36%  Similarity=0.677  Sum_probs=150.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||+|+.+|..+.|...|..|+|+++..+++.+++..++++||||+|+|+|..+...|++..+++++|||+++.+||
T Consensus        17 sgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF   96 (198)
T KOG0079|consen   17 SGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESF   96 (198)
T ss_pred             CcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      .++.+||.+++..++ .+|-++||||.|+.+.+.+..++++.|+...|+.+||+|||.++|++..|..|.+++....
T Consensus        97 ~Nv~rWLeei~~ncd-sv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k  172 (198)
T KOG0079|consen   97 NNVKRWLEEIRNNCD-SVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAK  172 (198)
T ss_pred             HhHHHHHHHHHhcCc-cccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHH
Confidence            999999999999887 4799999999999988889999999999999999999999999999999999999887654

>cd04133 Rop_like Rop subfamily

Probab=99.96  E-value=1.8e-28  Score=236.03  Aligned_cols=159  Identities=33%  Similarity=0.569  Sum_probs=144.1

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+.+|+.+.|...+.||++..+ .+.+.+++..+++.||||+|
T Consensus         2 ~kivv~G~----------------------~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G   58 (176)
T cd04133           2 IKCVTVGD----------------------GAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAG   58 (176)
T ss_pred             eEEEEECC----------------------CCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCC
Confidence            58888888                      99999999999999999989999999775 45677888899999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCcc----------ccCHHH
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESSR----------EVNREE  233 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~----------~v~~~e  233 (617)
                      +++|..++..+++++|++|+|||++++.||+.+ ..|+..+.+..+ ++|++|||||+||.+++          .+..++
T Consensus        59 ~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~  137 (176)
T cd04133          59 QEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAP-NVPIVLVGTKLDLRDDKQYLADHPGASPITTAQ  137 (176)
T ss_pred             CccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeChhhccChhhhhhccCCCCCCHHH
Confidence            999999999999999999999999999999998 689999987654 58999999999996543          478889


Q ss_pred             HHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         234 AFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       234 ~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +.++++.+++ .|+||||++|.||+++|+.+++.+
T Consensus       138 ~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~  172 (176)
T cd04133         138 GEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVV  172 (176)
T ss_pred             HHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHH
Confidence            9999999998 699999999999999999999865

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.96  E-value=1.8e-28  Score=237.45  Aligned_cols=162  Identities=27%  Similarity=0.542  Sum_probs=146.4

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+.+.|...+.||++..+ .+.+.+++..+.++||||
T Consensus         4 ~~~KivvvGd----------------------~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDt   60 (182)
T cd04172           4 VKCKIVVVGD----------------------SQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDT   60 (182)
T ss_pred             ceEEEEEECC----------------------CCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEEC
Confidence            4579999999                      99999999999999999999999998765 467788999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCC------------cccc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLES------------SREV  229 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~------------~~~v  229 (617)
                      +|+++|..+++.+++++|++|+|||++++.||+.+ ..|+..+.+..+ .+|++|||||+||..            ++.+
T Consensus        61 aG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~~~~~~~~~v  139 (182)
T cd04172          61 SGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDLTTLVELSNHRQTPV  139 (182)
T ss_pred             CCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEeEChhhhcChhhHHHHHhcCCCCC
Confidence            99999999999999999999999999999999997 799999988765 589999999999864            3458


Q ss_pred             CHHHHHHHHHhcCC-eEEEEcCCCCCC-HHHHHHHHHHHHH
Q psy3029         230 NREEAFHYSKSIGG-TYYETSALQDQG-IEDVFLNVSKGLI  268 (617)
Q Consensus       230 ~~~e~~~~~~~~g~-~~~evSAktg~g-I~eLf~~I~~~l~  268 (617)
                      ..+++.++++++++ +|+||||++|.| |+++|..+++.+.
T Consensus       140 ~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         140 SYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             CHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHh
Confidence            88999999999996 999999999998 9999999887543

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd04122 Rab14 Rab14 subfamily

Probab=99.96  E-value=4e-28  Score=230.65  Aligned_cols=154  Identities=38%  Similarity=0.681  Sum_probs=143.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.|...+.+|++.++..+.+.+++..+.+.+|||+|++++..+++.+++++|++|+|||++++.+|
T Consensus        11 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   90 (166)
T cd04122          11 MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTY   90 (166)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHH
Confidence            99999999999999999888889999998888888888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+..|+..+.......+|++||+||+|+..++.+..+++..+++..+++++++||++|.||+++|..++..+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~  164 (166)
T cd04122          91 NHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIY  164 (166)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            99999999987766566899999999999887888888899999999999999999999999999999988774

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>KOG0091|consensus

Probab=99.96  E-value=6.6e-29  Score=224.68  Aligned_cols=168  Identities=38%  Similarity=0.622  Sum_probs=155.9

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEE-CCeEEEEEEEecC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDTA  163 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~-~~~~~~l~i~Dt~  163 (617)
                      ++++++|+                      +-||||||+..|+.++|.+...||+|++++.+.+.+ ++..+++++|||+
T Consensus         9 frlivigd----------------------stvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdta   66 (213)
T KOG0091|consen    9 FRLIVIGD----------------------STVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTA   66 (213)
T ss_pred             EEEEEEcC----------------------CcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeecc
Confidence            68889999                      999999999999999999999999999999888777 5678999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+++|+.+.+.||+|+-++++|||+++++||+.+..|+.+...+..  .++.+.|||+|+||..+++++.++++.+++.+
T Consensus        67 gqerfrsitksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~h  146 (213)
T KOG0091|consen   67 GQERFRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASH  146 (213)
T ss_pred             chHHHHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999877653  45567899999999999999999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhhhcc
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLSQES  274 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~~~~  274 (617)
                      |+.|+|+||++|.||++.|..|.+.+......+
T Consensus       147 gM~FVETSak~g~NVeEAF~mlaqeIf~~i~qG  179 (213)
T KOG0091|consen  147 GMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQG  179 (213)
T ss_pred             CceEEEecccCCCcHHHHHHHHHHHHHHHHhcC
Confidence            999999999999999999999999998876553

>cd04131 Rnd Rnd subfamily

Probab=99.96  E-value=4.2e-28  Score=234.02  Aligned_cols=160  Identities=26%  Similarity=0.538  Sum_probs=144.1

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      ++||+++|+                      +|||||||+++|+++.|...+.||++..+ .+.+.+++..+.+++|||+
T Consensus         1 ~~Kiv~vG~----------------------~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~   57 (178)
T cd04131           1 RCKIVVVGD----------------------VQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTS   57 (178)
T ss_pred             CeEEEEECC----------------------CCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECC
Confidence            468999999                      99999999999999999999999998775 4677888999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCC------------ccccC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLES------------SREVN  230 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~------------~~~v~  230 (617)
                      |+++|..+.+.+++++|++|+|||++++.||+.+ ..|+..+.+..+ .+|++|||||+||..            .+.+.
T Consensus        58 G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~-~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~  136 (178)
T cd04131          58 GSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCP-NTKVLLVGCKTDLRTDLSTLMELSHQRQAPVS  136 (178)
T ss_pred             CchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCC-CCCEEEEEEChhhhcChhHHHHHHhcCCCCCC
Confidence            9999999999999999999999999999999996 799999988765 589999999999954            24588


Q ss_pred             HHHHHHHHHhcCC-eEEEEcCCCCCC-HHHHHHHHHHHH
Q psy3029         231 REEAFHYSKSIGG-TYYETSALQDQG-IEDVFLNVSKGL  267 (617)
Q Consensus       231 ~~e~~~~~~~~g~-~~~evSAktg~g-I~eLf~~I~~~l  267 (617)
                      .+++.++++++++ +|+||||++|+| |+++|..+++..
T Consensus       137 ~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~  175 (178)
T cd04131         137 YEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMAC  175 (178)
T ss_pred             HHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHH
Confidence            8999999999997 899999999995 999999998854

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>KOG0088|consensus

Probab=99.96  E-value=5.6e-29  Score=223.84  Aligned_cols=168  Identities=45%  Similarity=0.739  Sum_probs=159.8

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      .-++||+++|.                      .-||||||+-||+.++|......|+...|..+.+++.+....+.|||
T Consensus        11 s~~FK~VLLGE----------------------GCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWD   68 (218)
T KOG0088|consen   11 SFKFKIVLLGE----------------------GCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWD   68 (218)
T ss_pred             ceeeEEEEEcC----------------------CccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeee
Confidence            44689999999                      89999999999999999999999999999999999999999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|+++|..+-+.||+.++++|+|||++|++||+.+..|..+++......+.++|||||+||.+++.++.+++..+++.-
T Consensus        69 TAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesv  148 (218)
T KOG0088|consen   69 TAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESV  148 (218)
T ss_pred             ccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999988888999999999999999999999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      |..|+++||+.+.||.++|+.|...+.+..
T Consensus       149 GA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~  178 (218)
T KOG0088|consen  149 GALYMETSAKDNVGISELFESLTAKMIEHS  178 (218)
T ss_pred             chhheecccccccCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999887765

>KOG0097|consensus

Probab=99.96  E-value=5.8e-28  Score=213.31  Aligned_cols=169  Identities=38%  Similarity=0.640  Sum_probs=160.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      -+|.+|+|+                      -|||||+|+.+|...+|.+....|+|++|.++.+.+.+..++++||||+
T Consensus        11 ifkyiiigd----------------------mgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdta   68 (215)
T KOG0097|consen   11 IFKYIIIGD----------------------MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTA   68 (215)
T ss_pred             eEEEEEEcc----------------------ccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecc
Confidence            479999999                      9999999999999999999999999999999999999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |+++|+...+.|++.+.+.+.|||++.+.++..+..|+...+.....+..+++++||.||..++.++.+++.+|+++.|+
T Consensus        69 gqerfravtrsyyrgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl  148 (215)
T KOG0097|consen   69 GQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGL  148 (215)
T ss_pred             cHHHHHHHHHHHhccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCe
Confidence            99999999999999999999999999999999999999998888777788999999999999999999999999999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHhhhcc
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICLSQES  274 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~~~~~  274 (617)
                      .|+++||++|.||++.|-+..+++....+++
T Consensus       149 ~fle~saktg~nvedafle~akkiyqniqdg  179 (215)
T KOG0097|consen  149 MFLEASAKTGQNVEDAFLETAKKIYQNIQDG  179 (215)
T ss_pred             EEEEecccccCcHHHHHHHHHHHHHHhhhcC
Confidence            9999999999999999999988888766553

>cd04117 Rab15 Rab15 subfamily

Probab=99.96  E-value=1.2e-27  Score=226.63  Aligned_cols=152  Identities=35%  Similarity=0.618  Sum_probs=141.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.|...+.+|+|.++..+.+.+.+..+.+++||++|++++..++..+++++|++++|||++++.||
T Consensus         9 ~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf   88 (161)
T cd04117           9 SGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSY   88 (161)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHH
Confidence            99999999999999999888899999988888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +.+..|+..+.......+|+++|+||+|+...+.+..+++..+++.++++|+++||++|.||+++|.+|.+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          89 QHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            999999999887766678999999999998878888889999999999999999999999999999999764

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.96  E-value=1.7e-27  Score=238.48  Aligned_cols=163  Identities=27%  Similarity=0.502  Sum_probs=147.2

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|+.+.|...+.||++.++ ...+.+++..+.+.||||+
T Consensus        13 ~~KIvvvGd----------------------~~VGKTsLi~r~~~~~F~~~y~pTi~~~~-~~~i~~~~~~v~l~iwDTa   69 (232)
T cd04174          13 RCKLVLVGD----------------------VQCGKTAMLQVLAKDCYPETYVPTVFENY-TAGLETEEQRVELSLWDTS   69 (232)
T ss_pred             eEEEEEECC----------------------CCCcHHHHHHHHhcCCCCCCcCCceeeee-EEEEEECCEEEEEEEEeCC
Confidence            478999999                      99999999999999999999999999875 4567888999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCC------------ccccC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLES------------SREVN  230 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~------------~~~v~  230 (617)
                      |+++|..+.+.|++++|++|+|||++++.||+.+ ..|+..+.+..+ .+|+||||||+||..            .+.+.
T Consensus        70 G~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~-~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs  148 (232)
T cd04174          70 GSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCP-STRILLIGCKTDLRTDLSTLMELSNQKQAPIS  148 (232)
T ss_pred             CchhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccccchhhhhccccCCcCC
Confidence            9999999999999999999999999999999984 799999987664 479999999999964            25688


Q ss_pred             HHHHHHHHHhcCC-eEEEEcCCCCC-CHHHHHHHHHHHHHHh
Q psy3029         231 REEAFHYSKSIGG-TYYETSALQDQ-GIEDVFLNVSKGLICL  270 (617)
Q Consensus       231 ~~e~~~~~~~~g~-~~~evSAktg~-gI~eLf~~I~~~l~~~  270 (617)
                      .+++.++++++++ .|+||||++|. ||+++|..++..+.+.
T Consensus       149 ~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         149 YEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             HHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHh
Confidence            8999999999999 69999999998 8999999999887654

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd01865 Rab3 Rab3 subfamily

Probab=99.96  E-value=1.8e-27  Score=226.15  Aligned_cols=154  Identities=34%  Similarity=0.601  Sum_probs=141.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|.++++...+.+|.|.++....+..++..+.+.+|||+|++++..++..+++++|++++|||++++.+|
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~   89 (165)
T cd01865          10 SSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESF   89 (165)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHH
Confidence            99999999999999999888999999888777777788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+.+|+..+.......+|++||+||+|+...+.+..++..++++.++++++++||++|.|++++|++|...+.
T Consensus        90 ~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~  163 (165)
T cd01865          90 NAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDIIC  163 (165)
T ss_pred             HHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            99999999998776556899999999999877777778888889889999999999999999999999988764

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.96  E-value=2e-27  Score=226.17  Aligned_cols=155  Identities=37%  Similarity=0.661  Sum_probs=143.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..|...+.++++.++..+.+.+++..+.+.+|||+|++++..++..+++++|++|+|||++++.+|
T Consensus        12 ~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~   91 (167)
T cd01867          12 SGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSF   91 (167)
T ss_pred             CCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHH
Confidence            99999999999999999999999999998888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+.+|+..+.+....++|++||+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++|.+.+..
T Consensus        92 ~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867          92 ENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             HhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999988766678999999999998777777888888999999999999999999999999999988753

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.96  E-value=1.7e-27  Score=228.40  Aligned_cols=164  Identities=29%  Similarity=0.493  Sum_probs=147.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|+.+.|...+.+|++..+ .+.+.+++..+.+.||||+
T Consensus         2 ~~ki~vvG~----------------------~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~   58 (172)
T cd04141           2 EYKIVMLGA----------------------GGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTA   58 (172)
T ss_pred             ceEEEEECC----------------------CCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCC
Confidence            368888998                      99999999999999999888899998654 4567788888999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      |+++|..++..+++.+|++|+|||++++.||..+.+|+..+.+.. ..++|++||+||+|+...+.+..+++..+++.++
T Consensus        59 G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~  138 (172)
T cd04141          59 GQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFN  138 (172)
T ss_pred             CchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999988887643 3468999999999998777888888999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++|++|||++|.||+++|++|++.+...
T Consensus       139 ~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  166 (172)
T cd04141         139 CPFFETSAALRHYIDDAFHGLVREIRRK  166 (172)
T ss_pred             CEEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999999999999999887653

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>KOG0095|consensus

Probab=99.96  E-value=4e-28  Score=216.26  Aligned_cols=165  Identities=38%  Similarity=0.659  Sum_probs=155.8

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|.                      .|||||+|+.||..+-|+.-...|+|++|..+++.+++..++++||||+|
T Consensus         8 fkivlvgn----------------------agvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtag   65 (213)
T KOG0095|consen    8 FKIVLVGN----------------------AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAG   65 (213)
T ss_pred             EEEEEEcc----------------------CCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccc
Confidence            68999999                      99999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      +++|+.+.+.|++.++++|+|||++-.+||+.+-+|+.+|.++...++--|+||||+|+.+.++++.+.+++|.+....-
T Consensus        66 qerfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmy  145 (213)
T KOG0095|consen   66 QERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMY  145 (213)
T ss_pred             hHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhh
Confidence            99999999999999999999999999999999999999999999887788999999999998999999999999888778


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      |+|+||+.-.||+.||..+...+....
T Consensus       146 fletsakea~nve~lf~~~a~rli~~a  172 (213)
T KOG0095|consen  146 FLETSAKEADNVEKLFLDLACRLISEA  172 (213)
T ss_pred             hhhhcccchhhHHHHHHHHHHHHHHHH
Confidence            999999999999999999987776544

>cd04128 Spg1 Spg1p

Probab=99.96  E-value=2.1e-27  Score=229.96  Aligned_cols=154  Identities=25%  Similarity=0.466  Sum_probs=137.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.|...+.||+|.++..+.+.+++..+.+++|||+|+++|..++..+++++|++++|||++++.||
T Consensus         9 ~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~   88 (182)
T cd04128           9 AQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTL   88 (182)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHH
Confidence            99999999999999999888999999998888888899899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCC-----ccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLES-----SREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~-----~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+.+|+..+.+..+..+| |+||||+|+..     +.....+++.++++.++++++++||++|.||+++|++|.+.+..
T Consensus        89 ~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128          89 NSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             HHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999876655567 68899999952     11122456778888899999999999999999999999988865

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.95  E-value=3.1e-27  Score=222.99  Aligned_cols=154  Identities=38%  Similarity=0.742  Sum_probs=147.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      ++||||||+++|.++.|...+.+|+|.+...+.+.+++..+.+.+||++|+++|..+...+++++|++|+|||++++.||
T Consensus         8 ~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~   87 (162)
T PF00071_consen    8 SGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESF   87 (162)
T ss_dssp             TTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHH
T ss_pred             CCCCHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+..|+..+....+..+|++|||||.|+...+.++.+++.+++++++++|+++||+++.||.++|..+++.+.
T Consensus        88 ~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen   88 ENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             HTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            99999999999988766899999999999888889999999999999999999999999999999999998774

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.95  E-value=2.8e-27  Score=223.69  Aligned_cols=154  Identities=31%  Similarity=0.612  Sum_probs=141.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++++...+.++++.++..+.+.+.+..+.+++|||+|++++..++..+++.+|++|+|||++++.+|
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~   88 (168)
T cd04119           9 SGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSF   88 (168)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            99999999999999999889999999998888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-----CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-----EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-----~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+..|+..+.+...     ..+|+++|+||+|+..++.+..++...++...+++++++||++|.|++++|++|++.+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119          89 EALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             HhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            999999999887653     45899999999999766667788888889888999999999999999999999988764

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.95  E-value=3.2e-27  Score=232.18  Aligned_cols=156  Identities=38%  Similarity=0.635  Sum_probs=141.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+++.+...+.+|+|.++..+.+.++ +..+.+.+|||+|+++|..+++.+++++|++|+|||++++.+
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s   88 (201)
T cd04107           9 LGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPST   88 (201)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHH
Confidence            9999999999999999888899999999888888887 788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC----CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         194 FAAIKTWVKELKRNV----DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~----~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      |+.+..|+..+....    ...+|++||+||+|+...+.+..+++.++++..+ ..++++||++|.||+++|++|++.+.
T Consensus        89 ~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~  168 (201)
T cd04107          89 FEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFLVKNIL  168 (201)
T ss_pred             HHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999999998886532    2468999999999997666778888999999998 59999999999999999999999886


Q ss_pred             Hh
Q psy3029         269 CL  270 (617)
Q Consensus       269 ~~  270 (617)
                      ..
T Consensus       169 ~~  170 (201)
T cd04107         169 AN  170 (201)
T ss_pred             Hh
Confidence            54

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd01875 RhoG RhoG subfamily

Probab=99.95  E-value=3e-27  Score=230.61  Aligned_cols=162  Identities=27%  Similarity=0.519  Sum_probs=143.1

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      .|||||||+.+|+.+.|...+.||++..+ .+.+.+++..+.++||||+
T Consensus         3 ~~ki~~vG~----------------------~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~   59 (191)
T cd01875           3 SIKCVVVGD----------------------GAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTA   59 (191)
T ss_pred             cEEEEEECC----------------------CCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECC
Confidence            468888888                      99999999999999999889999998765 4556788889999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCcc------------ccC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSR------------EVN  230 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~------------~v~  230 (617)
                      |+++|..+++.|++++|++|+|||++++.||+.+. .|+..+....+ ++|++|||||+||.+.+            .+.
T Consensus        60 G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~  138 (191)
T cd01875          60 GQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCP-NVPILLVGTKKDLRNDADTLKKLKEQGQAPIT  138 (191)
T ss_pred             CchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEeChhhhcChhhHHHHhhccCCCCC
Confidence            99999999999999999999999999999999996 69888876554 58999999999996542            366


Q ss_pred             HHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         231 REEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       231 ~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .+++..+++.++ ++|+++||++|.||+++|++|++.+..
T Consensus       139 ~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         139 PQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             HHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence            778889999998 599999999999999999999987754

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.95  E-value=4.9e-27  Score=222.90  Aligned_cols=154  Identities=35%  Similarity=0.678  Sum_probs=142.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.++.+.++..+.+.+.+..+.+++||++|++++..++..+++++|++|+|||++++++|
T Consensus        11 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~   90 (166)
T cd01869          11 SGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESF   90 (166)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHH
Confidence            99999999999999998888889999988888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+.+|+..+.......+|+++|+||+|+...+.+..+++..+++.++++++++||++|.||+++|..|++.+.
T Consensus        91 ~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869          91 NNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             HhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence            99999999998776556899999999999877778888888999999999999999999999999999988774

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>cd04127 Rab27A Rab27a subfamily

Probab=99.95  E-value=4.2e-27  Score=226.35  Aligned_cols=164  Identities=35%  Similarity=0.589  Sum_probs=147.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC----------Ce
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG----------EN  153 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~----------~~  153 (617)
                      .+||+++|+                      +|||||||+++|+++.+...+.+|++.++....+.+.          +.
T Consensus         4 ~~ki~ivG~----------------------~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~   61 (180)
T cd04127           4 LIKFLALGD----------------------SGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQ   61 (180)
T ss_pred             eEEEEEECC----------------------CCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCC
Confidence            479999999                      9999999999999999999999999998877766654          45


Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHH
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      .+.+.||||+|+++|..++..+++++|++|+|||++++.||..+..|+..+.... ..++|++||+||+|+...+.+..+
T Consensus        62 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~  141 (180)
T cd04127          62 RIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEE  141 (180)
T ss_pred             EEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHH
Confidence            6899999999999999999999999999999999999999999999999987754 245799999999999877778888


Q ss_pred             HHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       233 e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++.++++.++++++++||++|.|++++|++|++.+.+
T Consensus       142 ~~~~~~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~  178 (180)
T cd04127         142 QAKALADKYGIPYFETSAATGTNVEKAVERLLDLVMK  178 (180)
T ss_pred             HHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            8899999999999999999999999999999987754

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd01868 Rab11_like Rab11-like

Probab=99.95  E-value=8.1e-27  Score=221.02  Aligned_cols=161  Identities=39%  Similarity=0.700  Sum_probs=148.5

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+++|+++.+...+.++.+.++..+.+.+++..+.+.+||++|
T Consensus         4 ~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g   61 (165)
T cd01868           4 FKIVLIGD----------------------SGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAG   61 (165)
T ss_pred             eEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCC
Confidence            58888888                      99999999999999998888899999998888888888889999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++++..+++.++++++++|+|||++++.+|..+.+|+..+.+....++|++||+||+|+...+.+..++...++...+++
T Consensus        62 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  141 (165)
T cd01868          62 QERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLS  141 (165)
T ss_pred             hHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCE
Confidence            99999999999999999999999999999999999999998877666899999999999877777788888899888899


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++++||++|.|++++|++|+..+
T Consensus       142 ~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         142 FIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            99999999999999999998764

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd04109 Rab28 Rab28 subfamily

Probab=99.95  E-value=7.6e-27  Score=232.06  Aligned_cols=156  Identities=29%  Similarity=0.489  Sum_probs=142.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC-eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~-~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+++.|...+.+|+|.+++.+.+.+++ ..+.++||||+|++.+..++..|++++|++|+|||++++.+
T Consensus         9 ~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s   88 (215)
T cd04109           9 GAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQS   88 (215)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHH
Confidence            99999999999999999999999999998888888865 57999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCC---CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         194 FAAIKTWVKELKRNVD---EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~~---~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      |+.+.+|+..+.+...   .++|++||+||+|+...+.+..++...+++.++++++++||++|.||+++|++|.+.+...
T Consensus        89 ~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109          89 FENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             HHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            9999999999887643   3468999999999987778888888899999999999999999999999999999988754

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.95  E-value=8.1e-27  Score=224.39  Aligned_cols=150  Identities=26%  Similarity=0.507  Sum_probs=133.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.|...+.||++..+ .+.+.+++..+.+.||||+|+++|..++..+++++|++|+|||++++.+|
T Consensus        10 ~~vGKTsl~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~   88 (175)
T cd01874          10 GAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSF   88 (175)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCceeeee-EEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHH
Confidence            99999999999999999889999998775 34567788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------cccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------REVNREEAFHYSKSIG-GTYYETSALQDQGIEDVF  260 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf  260 (617)
                      +.+. .|+..+....+ ++|++||+||+|+...            +.+..+++.++++..+ +.|+++||++|.||+++|
T Consensus        89 ~~~~~~w~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f  167 (175)
T cd01874          89 ENVKEKWVPEITHHCP-KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVF  167 (175)
T ss_pred             HHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCHHHHH
Confidence            9996 59988877654 5899999999998643            4577788888998887 699999999999999999


Q ss_pred             HHHHHH
Q psy3029         261 LNVSKG  266 (617)
Q Consensus       261 ~~I~~~  266 (617)
                      +.++..
T Consensus       168 ~~~~~~  173 (175)
T cd01874         168 DEAILA  173 (175)
T ss_pred             HHHHHH
Confidence            998874

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>cd04136 Rap_like Rap-like subfamily

Probab=99.95  E-value=8.5e-27  Score=219.91  Aligned_cols=152  Identities=32%  Similarity=0.576  Sum_probs=135.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+...+.+|.+ +.+.+.+.+++..+.+.||||+|+++|..++..+++++|++++|||++++.+|
T Consensus        10 ~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   88 (163)
T cd04136          10 GGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSF   88 (163)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHH
Confidence            99999999999999998888888887 44566777888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +.+..|+..+.... ..++|++||+||+|+...+.+..++...+++.++++++++||++|.|++++|++|++.+
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136          89 NDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            99999999887654 24689999999999977667777777788888889999999999999999999998754

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd04125 RabA_like RabA-like subfamily

Probab=99.95  E-value=1.4e-26  Score=224.96  Aligned_cols=157  Identities=37%  Similarity=0.632  Sum_probs=144.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.+|+|.++..+.+.+++..+.+.+||++|++++..++..+++++|++|+|||++++.+|
T Consensus         9 ~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~   88 (188)
T cd04125           9 YGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESF   88 (188)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHH
Confidence            99999999999999998877899999988888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ..+..|+..+.......+|++||+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++|++.+....
T Consensus        89 ~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~  165 (188)
T cd04125          89 ENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRL  165 (188)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999998876666899999999999877777888888888888999999999999999999999999887644

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>PTZ00369 Ras-like protein; Provisional

Probab=99.95  E-value=2.1e-26  Score=224.16  Aligned_cols=166  Identities=30%  Similarity=0.498  Sum_probs=148.1

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.+|.+.++ .+.+.+++..+.+++|||
T Consensus         4 ~~~Ki~iiG~----------------------~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt   60 (189)
T PTZ00369          4 TEYKLVVVGG----------------------GGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDT   60 (189)
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeC
Confidence            3578888888                      99999999999999998888889998775 567778888999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|+++|..++..|++.+|++|+|||++++.+|+.+..|+..+.+... .++|++||+||+|+...+.+..+++..+++.+
T Consensus        61 ~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~  140 (189)
T PTZ00369         61 AGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSF  140 (189)
T ss_pred             CCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999998876543 46899999999999776777777888888888


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||++|.||+++|++|++.+....
T Consensus       141 ~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~  170 (189)
T PTZ00369        141 GIPFLETSAKQRVNVDEAFYELVREIRKYL  170 (189)
T ss_pred             CCEEEEeeCCCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999998886653

>cd01866 Rab2 Rab2 subfamily

Probab=99.95  E-value=2.6e-26  Score=218.82  Aligned_cols=155  Identities=38%  Similarity=0.675  Sum_probs=142.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++.++...+.++.|.++..+.+.+++..+.+.+||++|++++..+...+++++|++|+|||++++.+|
T Consensus        13 ~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~   92 (168)
T cd01866          13 TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETF   92 (168)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            99999999999999998888889999998888888898889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+..|+..+.+.....+|++||+||+|+...+.+..+++..++...++.++++||+++.||+++|.++.+.+.+
T Consensus        93 ~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866          93 NHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999987655568999999999998767778888888999999999999999999999999999887743

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.95  E-value=1.5e-26  Score=218.22  Aligned_cols=151  Identities=32%  Similarity=0.574  Sum_probs=137.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC--CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG--ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH  192 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~--~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~  192 (617)
                      +|||||||+++|+++.+...+.+|++.++..+.+.+.  +..+.+++|||+|+++|..++..+++++|++++|||+++++
T Consensus         9 ~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~   88 (162)
T cd04106           9 GNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRE   88 (162)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHH
Confidence            9999999999999999888889999998877777776  77899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         193 SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       193 S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +|+.+..|+..+.+... ++|++||+||+|+..++.+..+++..+++.++++++++||++|.|++++|++|...
T Consensus        89 s~~~l~~~~~~~~~~~~-~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106          89 SFEAIESWKEKVEAECG-DIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             HHHHHHHHHHHHHHhCC-CCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999876554 58999999999998777788888889999999999999999999999999998753

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd04176 Rap2 Rap2 subgroup

Probab=99.95  E-value=2.1e-26  Score=217.71  Aligned_cols=152  Identities=31%  Similarity=0.548  Sum_probs=135.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++++.+.+...+.+|.+ +++...+.+++..+.++||||+|+++|..++..+++++|++|+|||++++.+|
T Consensus        10 ~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~   88 (163)
T cd04176          10 GGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTF   88 (163)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHH
Confidence            99999999999999999888888876 55667788888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++..|+..+.+... .++|++||+||+|+..++.+..++...+++.++++++++||++|.|++++|.+|++.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176          89 QDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            999999988877532 4689999999999976666777777888888889999999999999999999998654

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.95  E-value=2.8e-26  Score=219.52  Aligned_cols=155  Identities=31%  Similarity=0.597  Sum_probs=138.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.|...+.||++.++..+.+.+.+..+.+++|||+|+++|..++..+++++|++|+|||++++.+|
T Consensus         9 ~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~   88 (170)
T cd04108           9 LSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASL   88 (170)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHH
Confidence            99999999999999999999999999998888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccc--cCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSRE--VNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~--v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+.+|+..+.+. .+...|+++|+||+|+.....  ...+++..++.+++.+++++||++|.||+++|+.|.+.+.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108          89 EHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            9999999987654 344578999999999965433  34566778888888999999999999999999999887754

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.95  E-value=2e-26  Score=229.67  Aligned_cols=163  Identities=29%  Similarity=0.539  Sum_probs=145.8

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+.+.+...+.+|+|.++..+.+..++..+.+.+||
T Consensus        11 ~~~~Ki~vvG~----------------------~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~D   68 (219)
T PLN03071         11 YPSFKLVIVGD----------------------GGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWD   68 (219)
T ss_pred             CCceEEEEECc----------------------CCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEE
Confidence            34579999999                      99999999999999999999999999998888887888889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|+++|..++..|++++|++|+|||++++.+|+.+..|+..+.+... ++|++|||||+|+.. +.+..+++ .+++..
T Consensus        69 t~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~  145 (219)
T PLN03071         69 TAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNKVDVKN-RQVKAKQV-TFHRKK  145 (219)
T ss_pred             CCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhhhh-ccCCHHHH-HHHHhc
Confidence            999999999999999999999999999999999999999999987654 589999999999854 34444544 777888


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++|+++||++|.||+++|++|++.+..
T Consensus       146 ~~~~~e~SAk~~~~i~~~f~~l~~~~~~  173 (219)
T PLN03071        146 NLQYYEISAKSNYNFEKPFLYLARKLAG  173 (219)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHHHHc
Confidence            8999999999999999999999988854

>cd04113 Rab4 Rab4 subfamily

Probab=99.95  E-value=2.3e-26  Score=217.05  Aligned_cols=152  Identities=42%  Similarity=0.707  Sum_probs=141.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+.++....+.+++..+.+++||++|+++|..+++.+++++|++|+|||++++.+|
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   88 (161)
T cd04113           9 SGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSF   88 (161)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHH
Confidence            99999999999999998888899999988888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      ..+..|+..+.......+|++||+||+|+...+.+..+++..+++..++.++++||+++.|++++|+++++.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          89 EALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            999999999877666678999999999998777788888889999999999999999999999999999864

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>PLN03110 Rab GTPase; Provisional

Probab=99.95  E-value=3.1e-26  Score=227.92  Aligned_cols=166  Identities=36%  Similarity=0.647  Sum_probs=153.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+...+.+|+|.++..+.+.+++..+.++||||+
T Consensus        12 ~~Ki~ivG~----------------------~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~   69 (216)
T PLN03110         12 LFKIVLIGD----------------------SGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTA   69 (216)
T ss_pred             eeEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECC
Confidence            479999999                      9999999999999999888889999999988889999989999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..++..++++++++|+|||++++.+|+.+..|+..+......++|++||+||+|+...+.+..+++..++..+++
T Consensus        70 G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~  149 (216)
T PLN03110         70 GQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGL  149 (216)
T ss_pred             CcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999887666789999999999987777888888889988999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++||++|.|++++|+.|+..+....
T Consensus       150 ~~~e~SA~~g~~v~~lf~~l~~~i~~~~  177 (216)
T PLN03110        150 SFLETSALEATNVEKAFQTILLEIYHII  177 (216)
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999887754

>cd04175 Rap1 Rap1 subgroup

Probab=99.95  E-value=2.5e-26  Score=217.63  Aligned_cols=152  Identities=29%  Similarity=0.556  Sum_probs=136.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+...+.+|++..+ .+.+.+++..+.+++|||+|++++..+++.+++++|++|+|||++++.+|
T Consensus        10 ~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   88 (164)
T cd04175          10 GGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTF   88 (164)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHH
Confidence            99999999999999888888889988665 46677788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +.+.+|+..+.... ..++|++||+||+|+...+.+..++...+++.++++++++||++|.|++++|.+|++.+
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175          89 NDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            99999999887643 35689999999999987777777777788888899999999999999999999998765

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd04144 Ras2 Ras2 subfamily

Probab=99.95  E-value=2.9e-26  Score=223.29  Aligned_cols=156  Identities=28%  Similarity=0.467  Sum_probs=138.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.|...+.+|.+..+ .+.+.+++..+.++||||+|+++|..++..+++.+|++|+|||++++.||
T Consensus         8 ~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~   86 (190)
T cd04144           8 GGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTF   86 (190)
T ss_pred             CCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHH
Confidence            99999999999999998888889988664 45566788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC---CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         195 AAIKTWVKELKRNVD---EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~---~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +.+..|+..+.....   .++|++||+||+|+...+.+..+++..++..++++++++||++|.||+++|++|++.+....
T Consensus        87 ~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~  166 (190)
T cd04144          87 ERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQR  166 (190)
T ss_pred             HHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            999999988866532   45899999999999877778888888889889999999999999999999999998876544

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04111 Rab39 Rab39 subfamily

Probab=99.95  E-value=4.5e-26  Score=225.87  Aligned_cols=167  Identities=39%  Similarity=0.667  Sum_probs=150.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEE-CCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~-~~~~~~l~i~Dt  162 (617)
                      .+||+++|+                      +|||||||+++|+++.+...+.+|+|.++..+.+.+ ++..+.+++|||
T Consensus         2 ~~KIvvvG~----------------------~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt   59 (211)
T cd04111           2 QFRLIVIGD----------------------STVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDT   59 (211)
T ss_pred             ceEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeC
Confidence            368888888                      999999999999999988888899999988888877 466789999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|++++..++..+++++|++|+|||++++.||+.+.+|+..+.+... ..+|++||+||+|+...+.+..++...+++.+
T Consensus        60 ~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~  139 (211)
T cd04111          60 AGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDL  139 (211)
T ss_pred             CcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999876543 45789999999999877778888889999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLSQ  272 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~~  272 (617)
                      +++++++||++|.||+++|++|.+.+.....
T Consensus       140 ~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~  170 (211)
T cd04111         140 GMKYIETSARTGDNVEEAFELLTQEIYERIK  170 (211)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999998876643

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd01864 Rab19 Rab19 subfamily

Probab=99.95  E-value=3.6e-26  Score=216.91  Aligned_cols=161  Identities=40%  Similarity=0.658  Sum_probs=145.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|..+.+...+.++.+.++..+.+.+++..+.+.+|||+
T Consensus         3 ~~kv~vvG~----------------------~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~   60 (165)
T cd01864           3 LFKIILIGD----------------------SNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTA   60 (165)
T ss_pred             eeEEEEECC----------------------CCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECC
Confidence            368888888                      9999999999999999888888999988888888888888899999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..++..+++.+|++++|||++++.+|..+..|+..+.......+|+++|+||+|+...+++..+++..+++.++.
T Consensus        61 G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  140 (165)
T cd01864          61 GQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGM  140 (165)
T ss_pred             ChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999876656789999999999987777777888889888886


Q ss_pred             -eEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         244 -TYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       244 -~~~evSAktg~gI~eLf~~I~~~  266 (617)
                       .++++||++|.|++++|++|.+.
T Consensus       141 ~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         141 LAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHh
Confidence             78999999999999999999864

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04110 Rab35 Rab35 subfamily

Probab=99.95  E-value=4.8e-26  Score=223.52  Aligned_cols=165  Identities=34%  Similarity=0.663  Sum_probs=150.4

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+...+.+|++.++..+.+.+.+..+.+.|||++
T Consensus         6 ~~kivvvG~----------------------~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~   63 (199)
T cd04110           6 LFKLLIIGD----------------------SGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTA   63 (199)
T ss_pred             eeEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCC
Confidence            479999999                      9999999999999999888899999999888888888888999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..++..++++++++|+|||++++++|..+..|+..+..... .+|++||+||+|+...+.+..+++..++..+++
T Consensus        64 G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~-~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~  142 (199)
T cd04110          64 GQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKNDDPERKVVETEDAYKFAGQMGI  142 (199)
T ss_pred             CchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECcccccccccCHHHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999877654 479999999999987777777888889988899


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++||++|.||+++|++|...+....
T Consensus       143 ~~~e~Sa~~~~gi~~lf~~l~~~~~~~~  170 (199)
T cd04110         143 SLFETSAKENINVEEMFNCITELVLRAK  170 (199)
T ss_pred             EEEEEECCCCcCHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999887643

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>cd04126 Rab20 Rab20 subfamily

Probab=99.95  E-value=3.4e-26  Score=227.62  Aligned_cols=152  Identities=31%  Similarity=0.564  Sum_probs=134.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.|.. +.+|+|.++..+.+    ..+.+.||||+|+++|..++..+++++|++|+|||++++.+|
T Consensus         9 ~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf   83 (220)
T cd04126           9 MNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSL   83 (220)
T ss_pred             CCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHH
Confidence            9999999999999999864 67899887655443    568899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCC-------------------ccccCHHHHHHHHHhcC-------------
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLES-------------------SREVNREEAFHYSKSIG-------------  242 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~-------------------~~~v~~~e~~~~~~~~g-------------  242 (617)
                      +.+..|+..+.+.....+|+||||||+||..                   .+++..+++..++++++             
T Consensus        84 ~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~  163 (220)
T cd04126          84 EELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAA  163 (220)
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccc
Confidence            9999888887765555689999999999975                   57788899999999876             


Q ss_pred             -CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 -GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 -~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                       ++|+||||++|.||+++|..+++.+....
T Consensus       164 ~~~~~E~SA~tg~~V~elf~~i~~~~~~~~  193 (220)
T cd04126         164 EKMCFETSAKTGYNVDELFEYLFNLVLPLI  193 (220)
T ss_pred             cceEEEeeCCCCCCHHHHHHHHHHHHHHHH
Confidence             68999999999999999999998887654

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.95  E-value=2.9e-26  Score=220.35  Aligned_cols=150  Identities=29%  Similarity=0.563  Sum_probs=132.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+.+|+.+.|...+.||++.. +.+.+.+++..+.+.||||+|+++|..+++.+++++|++|+|||+++++||
T Consensus        10 ~~vGKSsli~~~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf   88 (174)
T cd01871          10 GAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF   88 (174)
T ss_pred             CCCCHHHHHHHHhcCCCCCcCCCcceee-eEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHH
Confidence            9999999999999999988999998754 455667888889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------cccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVF  260 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf  260 (617)
                      +.+. .|+..+....+ ++|++||+||+|+...            +.+..+++.+++++++. +|++|||++|.||+++|
T Consensus        89 ~~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f  167 (174)
T cd01871          89 ENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGLKTVF  167 (174)
T ss_pred             HHHHHHHHHHHHHhCC-CCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCHHHHH
Confidence            9996 69888876554 5899999999999543            24778889999999985 99999999999999999


Q ss_pred             HHHHHH
Q psy3029         261 LNVSKG  266 (617)
Q Consensus       261 ~~I~~~  266 (617)
                      +.+++.
T Consensus       168 ~~l~~~  173 (174)
T cd01871         168 DEAIRA  173 (174)
T ss_pred             HHHHHh
Confidence            998763

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd04112 Rab26 Rab26 subfamily

Probab=99.95  E-value=6.1e-26  Score=221.23  Aligned_cols=157  Identities=41%  Similarity=0.657  Sum_probs=142.7

Q ss_pred             CCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+++.+. ..+.+|.+.++..+.+.+++..+.+.||||+|++++..++..+++++|++|+|||++++.+
T Consensus         9 ~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s   88 (191)
T cd04112           9 SGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKAS   88 (191)
T ss_pred             CCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHH
Confidence            999999999999998875 3678899988877778888889999999999999999989999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         194 FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      |+.+..|+..+.......+|++||+||+|+..++.+..+++..+++.++++|+++||++|.|++++|.+|.+.+....
T Consensus        89 ~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~  166 (191)
T cd04112          89 FDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRK  166 (191)
T ss_pred             HHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            999999999998877667899999999999776777778888899999999999999999999999999999887653

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.94  E-value=5.1e-26  Score=216.78  Aligned_cols=152  Identities=28%  Similarity=0.557  Sum_probs=135.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+...+.+|++.++..+.+..++..+.+.+|||+|++++..++..++..+|++|+|||++++.+|
T Consensus         9 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   88 (166)
T cd00877           9 GGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTY   88 (166)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHH
Confidence            99999999999999888888999999998888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+..|+..+..... ++|+++|+||+|+.. +.+.. +..++++..+++++++||++|.||+++|++|++.+..
T Consensus        89 ~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877          89 KNVPNWHRDLVRVCG-NIPIVLCGNKVDIKD-RKVKA-KQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             HHHHHHHHHHHHhCC-CCcEEEEEEchhccc-ccCCH-HHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            999999999988765 589999999999973 33333 3456777778899999999999999999999988754

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>PLN03108 Rab family protein; Provisional

Probab=99.94  E-value=1.3e-25  Score=222.41  Aligned_cols=167  Identities=34%  Similarity=0.606  Sum_probs=152.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+|+|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+|||
T Consensus         5 ~~~kivivG~----------------------~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt   62 (210)
T PLN03108          5 YLFKYIIIGD----------------------TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDT   62 (210)
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeC
Confidence            4578999999                      999999999999999888888899999988888888888899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+.+|+..+.......+|+++|+||+|+...+.+..+++.++++.++
T Consensus        63 ~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~  142 (210)
T PLN03108         63 AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHG  142 (210)
T ss_pred             CCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999998877665568999999999998777788888999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++||+++.||+++|+++++.+....
T Consensus       143 ~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~  171 (210)
T PLN03108        143 LIFMEASAKTAQNVEEAFIKTAAKIYKKI  171 (210)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999998887654

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.94  E-value=5.3e-26  Score=226.42  Aligned_cols=162  Identities=23%  Similarity=0.491  Sum_probs=142.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      ++||+|+|+                      +|||||||+++|+.+.|...|.||++..+ ...+.+++..+.|.||||+
T Consensus         1 ~~KIvvvGd----------------------~~vGKTsLi~~~~~~~f~~~y~pTi~~~~-~~~~~~~~~~v~L~iwDt~   57 (222)
T cd04173           1 RCKIVVVGD----------------------AECGKTALLQVFAKDAYPGSYVPTVFENY-TASFEIDKRRIELNMWDTS   57 (222)
T ss_pred             CeEEEEECC----------------------CCCCHHHHHHHHHcCCCCCccCCccccce-EEEEEECCEEEEEEEEeCC
Confidence            368899998                      99999999999999999999999998775 4677888999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCc------------cccC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESS------------REVN  230 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v~  230 (617)
                      |+++|..+++.++.++|++|+|||++++++|+.+ ..|...+....+ .+|+||||||+||..+            ..+.
T Consensus        58 G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~-~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs  136 (222)
T cd04173          58 GSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCP-NAKVVLVGCKLDMRTDLATLRELSKQRLIPVT  136 (222)
T ss_pred             CcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEECcccccchhhhhhhhhccCCccC
Confidence            9999999999999999999999999999999998 468877766554 5899999999999642            1367


Q ss_pred             HHHHHHHHHhcCC-eEEEEcCCCCCC-HHHHHHHHHHHHHH
Q psy3029         231 REEAFHYSKSIGG-TYYETSALQDQG-IEDVFLNVSKGLIC  269 (617)
Q Consensus       231 ~~e~~~~~~~~g~-~~~evSAktg~g-I~eLf~~I~~~l~~  269 (617)
                      .+++..+++++++ +|+||||+++.+ |+++|..++.....
T Consensus       137 ~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~  177 (222)
T cd04173         137 HEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLG  177 (222)
T ss_pred             HHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHh
Confidence            7889999999996 999999999985 99999998887654

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>cd04116 Rab9 Rab9 subfamily

Probab=99.94  E-value=6.4e-26  Score=216.07  Aligned_cols=161  Identities=37%  Similarity=0.652  Sum_probs=144.5

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.+++|.++..+.+.+++..+.++|||+
T Consensus         4 ~~~ki~vvG~----------------------~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~   61 (170)
T cd04116           4 SLLKVILLGD----------------------GGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDT   61 (170)
T ss_pred             eEEEEEEECC----------------------CCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeC
Confidence            4578999999                      999999999999999998888899998888888888999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC----CCCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV----DEPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~----~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      +|++++..++..+++.+|++|+|||++++.+|+.+..|+..+....    ...+|++||+||+|+. .+.+..+++.+++
T Consensus        62 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~  140 (170)
T cd04116          62 AGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWC  140 (170)
T ss_pred             CChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHH
Confidence            9999999999999999999999999999999999999998876644    2458999999999986 4567778888999


Q ss_pred             HhcCC-eEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         239 KSIGG-TYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       239 ~~~g~-~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +.+++ +++++||++|.|++++|+.+++.
T Consensus       141 ~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         141 RENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             HHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            88885 89999999999999999998864

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.94  E-value=8.1e-26  Score=212.38  Aligned_cols=151  Identities=34%  Similarity=0.562  Sum_probs=133.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.+|.+..+ .+.+.+++..+.+.+|||+|++++..++..|++++|++++|||++++.+|
T Consensus        10 ~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~   88 (162)
T cd04138          10 GGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSF   88 (162)
T ss_pred             CCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHH
Confidence            99999999999999998888889887654 56667788888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+.+... .++|++||+||+|+.. +.+..+++..+++.++++++++||++|.|++++|++|++.+
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138          89 EDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            999999988877642 4689999999999865 45566777888888899999999999999999999998654

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04140 ARHI_like ARHI subfamily

Probab=99.94  E-value=8.6e-26  Score=214.52  Aligned_cols=150  Identities=27%  Similarity=0.441  Sum_probs=132.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.|...+.++.+..+ ...+......+.+.+|||+|+++|..+...++..++++|+|||++++.+|
T Consensus        10 ~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   88 (165)
T cd04140          10 GGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSL   88 (165)
T ss_pred             CCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            99999999999999998888888887554 55566677889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC---CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD---EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~---~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +.+..|+..+.+...   .++|++||+||+|+...+++..+++..++..+++++++|||++|.||+++|++|++
T Consensus        89 ~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~  162 (165)
T cd04140          89 EELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQELLN  162 (165)
T ss_pred             HHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHHHh
Confidence            999999887766432   45899999999999776777777888888888899999999999999999999875

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.94  E-value=1.3e-25  Score=211.81  Aligned_cols=155  Identities=45%  Similarity=0.768  Sum_probs=141.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||++|++++..+...+++.+|++|+|||++++.++
T Consensus         9 ~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~   88 (164)
T smart00175        9 SGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESF   88 (164)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHH
Confidence            99999999999999988888889999988888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+..|+..+..+....+|+++|+||+|+...+++..+.+.++++.++++++++||+++.|+++++++|.+.+.+
T Consensus        89 ~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175       89 ENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            999999999888765578999999999997766777788888999899999999999999999999999987743

Rab GTPases are implicated in vesicle trafficking.

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.94  E-value=9.3e-26  Score=221.48  Aligned_cols=155  Identities=27%  Similarity=0.510  Sum_probs=139.5

Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY  191 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~  191 (617)
                      +|.+|||||||+++|+.+.|...+.+|+|.++..+.+.+++..+.+.||||+|+++|..++..|++++|++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            35599999999999999998888999999999888888888999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         192 HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       192 ~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .||+.+..|+..+.+... .+|++|||||+|+.. +.+..+. ..+++..++.|++|||++|.||+++|++|++.+..
T Consensus        81 ~S~~~i~~w~~~i~~~~~-~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~  155 (200)
T smart00176       81 VTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG  155 (200)
T ss_pred             HHHHHHHHHHHHHHHhCC-CCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999999988664 589999999999854 4455444 47888889999999999999999999999988854

Ran is involved in the active transport of proteins through nuclear pores.

>cd04124 RabL2 RabL2 subfamily

Probab=99.94  E-value=1.3e-25  Score=212.55  Aligned_cols=151  Identities=27%  Similarity=0.499  Sum_probs=133.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+...+.++.+.+++.+.+.+++..+.+++|||+|+++|..+++.+++++|++|+|||++++.+|
T Consensus         9 ~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   88 (161)
T cd04124           9 SAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITY   88 (161)
T ss_pred             CCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHH
Confidence            99999999999999998888888888888887788888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+..|+..+.+..+ .+|+++|+||+|+...   ..++...++...+++++++||++|.|++++|+.+++.+.+
T Consensus        89 ~~~~~~~~~i~~~~~-~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  159 (161)
T cd04124          89 KNLSKWYEELREYRP-EIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVS  159 (161)
T ss_pred             HHHHHHHHHHHHhCC-CCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999977543 4799999999998432   1344556777778899999999999999999999987754

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd04134 Rho3 Rho3 subfamily

Probab=99.94  E-value=1.2e-25  Score=218.80  Aligned_cols=153  Identities=26%  Similarity=0.489  Sum_probs=133.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|.++.|...+.||++..+ ...+.+++..+.+.||||+|+++|..++..+++++|++|+|||++++.||
T Consensus         9 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~-~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf   87 (189)
T cd04134           9 GACGKTSLLNVFTRGYFPQVYEPTVFENY-VHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSL   87 (189)
T ss_pred             CCCCHHHHHHHHhcCCCCCccCCcceeee-EEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHH
Confidence            99999999999999999888899998775 34566778889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCcc------------ccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSR------------EVNREEAFHYSKSIG-GTYYETSALQDQGIEDVF  260 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~------------~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf  260 (617)
                      +.+. .|+..+....+ .+|++||+||+||...+            .+..+++..+++..+ +.|++|||++|.||+++|
T Consensus        88 ~~~~~~~~~~i~~~~~-~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f  166 (189)
T cd04134          88 ENVESKWLGEIREHCP-GVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGVNEAF  166 (189)
T ss_pred             HHHHHHHHHHHHHhCC-CCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHH
Confidence            9986 69999887654 58999999999996543            345667778888777 689999999999999999


Q ss_pred             HHHHHHHHH
Q psy3029         261 LNVSKGLIC  269 (617)
Q Consensus       261 ~~I~~~l~~  269 (617)
                      ++|.+.+..
T Consensus       167 ~~l~~~~~~  175 (189)
T cd04134         167 TEAARVALN  175 (189)
T ss_pred             HHHHHHHhc
Confidence            999988764

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.94  E-value=1.4e-25  Score=212.19  Aligned_cols=153  Identities=32%  Similarity=0.550  Sum_probs=135.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+.. +.+.+.+++..+.+.+|||+|++++..++..+++.+|++++|||++++.+|
T Consensus         9 ~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   87 (164)
T smart00173        9 GGVGKSALTIQFVQGHFVDDYDPTIEDS-YRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSF   87 (164)
T ss_pred             CCCCHHHHHHHHHhCcCCcccCCchhhh-EEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            9999999999999998888888887744 456677788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+..|+..+.+.. ..++|+++|+||+|+..++.+..+++..+++.++++++++||++|.|++++|++|++.+.
T Consensus        88 ~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173       88 EEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            99999988876643 235899999999999876777777888888888999999999999999999999988764

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>KOG0083|consensus

Probab=99.94  E-value=9.6e-28  Score=210.05  Aligned_cols=160  Identities=36%  Similarity=0.595  Sum_probs=148.9

Q ss_pred             CCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCC
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ  190 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~  190 (617)
                      +|.+++|||+|+-||..+.|. ....+|+|+++..+.+.+++..+++++|||+|+++|++....|++.+|+++++||+.+
T Consensus         3 lgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydian   82 (192)
T KOG0083|consen    3 LGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIAN   82 (192)
T ss_pred             cccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeeccc
Confidence            344999999999999888774 4567899999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         191 YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       191 ~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ..||+++..|+.+|.++....+.+.++|||+|+..++.+..++...+++.+++||+|+||++|.||+..|-.|.+.+.+.
T Consensus        83 kasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~  162 (192)
T KOG0083|consen   83 KASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKL  162 (192)
T ss_pred             chhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHh
Confidence            99999999999999999887788999999999988899999999999999999999999999999999999999988764


Q ss_pred             h
Q psy3029         271 S  271 (617)
Q Consensus       271 ~  271 (617)
                      .
T Consensus       163 ~  163 (192)
T KOG0083|consen  163 K  163 (192)
T ss_pred             c
Confidence            3

>cd01861 Rab6 Rab6 subfamily

Probab=99.94  E-value=1.5e-25  Score=211.16  Aligned_cols=152  Identities=35%  Similarity=0.689  Sum_probs=139.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+.++..+.+.+++..+.+.+|||+|++++..++..+++.+|++|+|||++++.+|
T Consensus         9 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~   88 (161)
T cd01861           9 QSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSF   88 (161)
T ss_pred             CCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHH
Confidence            99999999999999998888889999998888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +.+..|+..+......++|+++|+||+|+...+.+..++...+++..+++++++||+++.|+++++++|.+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          89 DNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            999999999877655568999999999997666777788888888889999999999999999999999764

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.94  E-value=1.9e-25  Score=210.97  Aligned_cols=152  Identities=32%  Similarity=0.532  Sum_probs=134.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+.. ......+++..+.+.+|||+|++++..++..+++.+|++++|||++++.+|
T Consensus        11 ~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   89 (164)
T cd04145          11 GGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSF   89 (164)
T ss_pred             CCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            9999999999999998887888888754 355567788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +.+..|+..+.+.. ..++|++||+||+|+..++.+..++..++++.++++++++||++|.||+++|++|++.+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145          90 EEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             HHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            99999998887653 34689999999999987666777778888888889999999999999999999998754

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.94  E-value=1.1e-25  Score=220.25  Aligned_cols=158  Identities=29%  Similarity=0.423  Sum_probs=131.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHH-HHHcC-----CCCCccCCCcce-eEEEEE--------E
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVV-RYIGK-----MFSHHISPTIGA-SFFTAK--------I  148 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLin-rl~~~-----~~~~~~~~t~g~-~~~~~~--------i  148 (617)
                      .+||+++|+                      +|||||||+. +++++     .|...+.||+|. +.+...        +
T Consensus         2 ~~Kiv~vG~----------------------~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~   59 (195)
T cd01873           2 TIKCVVVGD----------------------NAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRD   59 (195)
T ss_pred             ceEEEEECC----------------------CCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccce
Confidence            468999999                      9999999996 66554     345677899873 433322        2


Q ss_pred             EECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCC--
Q psy3029         149 NVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLES--  225 (617)
Q Consensus       149 ~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~--  225 (617)
                      .+++..+.++||||+|++++  +...+++++|++|+|||++++.||+.+. .|+..+....+ .+|++|||||+||..  
T Consensus        60 ~~~~~~v~l~iwDTaG~~~~--~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~-~~piilvgNK~DL~~~~  136 (195)
T cd01873          60 VVDGVSVSLRLWDTFGDHDK--DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP-RVPVILVGCKLDLRYAD  136 (195)
T ss_pred             eeCCEEEEEEEEeCCCChhh--hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhccccc
Confidence            56788999999999999763  4567899999999999999999999997 59999877654 579999999999863  


Q ss_pred             -----------------ccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         226 -----------------SREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       226 -----------------~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                                       .+.++.+++.+++++++++|+||||++|.||+++|+.+++.
T Consensus       137 ~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         137 LDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             cchhhhcccccccccccCCccCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence                             36788899999999999999999999999999999998753

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.94  E-value=2.5e-25  Score=210.01  Aligned_cols=153  Identities=47%  Similarity=0.833  Sum_probs=140.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.++.+.++..+.+.+++..+.+.+||++|++++..++..+++++|++|+|||++++.+|
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   89 (163)
T cd01860          10 SSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESF   89 (163)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHH
Confidence            99999999999999998877889999888888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+.......+|+++|+||+|+...+.+..++...++..+++.++++||++|.|++++|++|++.+
T Consensus        90 ~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860          90 EKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            9999999999887656689999999999976666777888888998899999999999999999999998865

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.94  E-value=2.1e-25  Score=213.04  Aligned_cols=153  Identities=33%  Similarity=0.624  Sum_probs=139.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc-ccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-SMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~-~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+.+.+...+.++++.++..+.+.+++..+.+.+|||+|++++. .++..+++++|++++|||++++.+
T Consensus        11 ~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   90 (170)
T cd04115          11 SNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMAS   90 (170)
T ss_pred             CCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHH
Confidence            9999999999999999888889999999888888899989999999999999886 578889999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCC---CCCHHHHHHHHHHHH
Q psy3029         194 FAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQ---DQGIEDVFLNVSKGL  267 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAkt---g~gI~eLf~~I~~~l  267 (617)
                      |..+..|+..+.... ...+|++||+||+|+...+++..+++.++++..+++|+++||++   +.||+++|..+++.+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115          91 FHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             HHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            999999999887754 35689999999999987778888888889998889999999999   899999999998765

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd04142 RRP22 RRP22 subfamily

Probab=99.94  E-value=2.6e-25  Score=218.20  Aligned_cols=155  Identities=24%  Similarity=0.296  Sum_probs=131.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc--------cchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS--------MAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~--------~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+++|+++.|...+.||.+.+++...+.+++..+.+.||||+|..++..        ....+++.+|++|+||
T Consensus         9 ~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~   88 (198)
T cd04142           9 PGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVY   88 (198)
T ss_pred             CCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEE
Confidence            99999999999999999888999998877777777888889999999999765432        1334578999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcC---CCCCeEEEEEECCCCCCccccCHHHHHHHHH-hcCCeEEEEcCCCCCCHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNV---DEPLVLCVVGNKTDLESSREVNREEAFHYSK-SIGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~---~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~-~~g~~~~evSAktg~gI~eLf~~  262 (617)
                      |++++.||+.+..|+..+.+..   ..++|++||+||+|+...+.+..++...++. .++++|+++||++|.||+++|+.
T Consensus        89 D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~v~~lf~~  168 (198)
T cd04142          89 DICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKE  168 (198)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCCHHHHHHH
Confidence            9999999999999998887754   3568999999999997766666776766654 56889999999999999999999


Q ss_pred             HHHHHHH
Q psy3029         263 VSKGLIC  269 (617)
Q Consensus       263 I~~~l~~  269 (617)
                      +++.+..
T Consensus       169 i~~~~~~  175 (198)
T cd04142         169 LLISATT  175 (198)
T ss_pred             HHHHhhc
Confidence            9987764

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>cd04118 Rab24 Rab24 subfamily

Probab=99.94  E-value=3.8e-25  Score=215.54  Aligned_cols=155  Identities=36%  Similarity=0.635  Sum_probs=137.8

Q ss_pred             CCCCHHHHHHHHHcCCCCC-ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~-~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+++.+.. .+.+|+|.++..+.+.+++..+.+.+||++|++++..++..+++++|++|+|||++++.+
T Consensus         9 ~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s   88 (193)
T cd04118           9 ESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSS   88 (193)
T ss_pred             CCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHH
Confidence            9999999999999998864 688999998888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc----cccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         194 FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS----REVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~----~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      |+.+..|+..+....+ ++|++||+||+|+...    +.+..+++..++..++++++++||++|.|++++|++|.+.+..
T Consensus        89 ~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~  167 (193)
T cd04118          89 FERAKFWVKELQNLEE-HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVS  167 (193)
T ss_pred             HHHHHHHHHHHHhcCC-CCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            9999999999877543 5799999999998532    3455567778888888999999999999999999999988865


Q ss_pred             h
Q psy3029         270 L  270 (617)
Q Consensus       270 ~  270 (617)
                      .
T Consensus       168 ~  168 (193)
T cd04118         168 R  168 (193)
T ss_pred             h
Confidence            4

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.94  E-value=3.1e-25  Score=209.79  Aligned_cols=152  Identities=28%  Similarity=0.526  Sum_probs=134.6

Q ss_pred             CCCCHHHHHHHHHcC--CCCCccCCCcceeEEEEEEEEC-CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh
Q psy3029         115 LGVGKTSMVVRYIGK--MFSHHISPTIGASFFTAKINVG-ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY  191 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~  191 (617)
                      +|||||||+++|..+  .+...+.+|.|.++..+.+.+. +..+.+.+|||+|++.+..+++.+++++|++++|||++++
T Consensus         9 ~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~   88 (164)
T cd04101           9 PAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNK   88 (164)
T ss_pred             CCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCH
Confidence            999999999999864  6778899999999877777775 5679999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         192 HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       192 ~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .+|..+..|+..+.... ..+|+++|+||+|+..+.++...++..+...++++++++||+++.|++++|+.|.+.+
T Consensus        89 ~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101          89 ASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             HHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            99999999999987765 3479999999999977777777677777778889999999999999999999998754

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.94  E-value=4e-26  Score=240.50  Aligned_cols=220  Identities=20%  Similarity=0.144  Sum_probs=166.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc---------cccchhhhccCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF---------RSMAPMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~---------~~~~~~~~~~ad~iIlV  185 (617)
                      ||||||||+|||++.+ .+.+..++|+++++...........|.++||+|.+..         ..+...++..||++|||
T Consensus        12 PNVGKSTLFNRL~g~r-~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfv   90 (444)
T COG1160          12 PNVGKSTLFNRLTGRR-IAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFV   90 (444)
T ss_pred             CCCcHHHHHHHHhCCe-eeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEE
Confidence            9999999999999988 6778888999888776655555567999999997632         23456678899999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHH
Q psy3029         186 FDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       186 ~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~  264 (617)
                      +|....-+-  .++.+..+.+  ..++|+|+|+||+|....    .+...+|+ .+|+ .++.+||.||.|+.+|++.++
T Consensus        91 VD~~~Git~--~D~~ia~~Lr--~~~kpviLvvNK~D~~~~----e~~~~efy-slG~g~~~~ISA~Hg~Gi~dLld~v~  161 (444)
T COG1160          91 VDGREGITP--ADEEIAKILR--RSKKPVILVVNKIDNLKA----EELAYEFY-SLGFGEPVPISAEHGRGIGDLLDAVL  161 (444)
T ss_pred             EeCCCCCCH--HHHHHHHHHH--hcCCCEEEEEEcccCchh----hhhHHHHH-hcCCCCceEeehhhccCHHHHHHHHH
Confidence            998775432  2333333333  234699999999997421    22233344 5666 799999999999999999998


Q ss_pred             HHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCc-hhhhheeeeccCCCCCCCcceeeeeeeccccc
Q psy3029         265 KGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLT-EAETAKFVVGLSINSRVPNCFEANWFWLGVGK  343 (617)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~-~~~~~v~ivG~~~~s~~~~~~~~~~g~~~vGK  343 (617)
                      +.+. ..++..                                 ... ...+|++|||+|                +|||
T Consensus       162 ~~l~-~~e~~~---------------------------------~~~~~~~ikiaiiGrP----------------NvGK  191 (444)
T COG1160         162 ELLP-PDEEEE---------------------------------EEEETDPIKIAIIGRP----------------NVGK  191 (444)
T ss_pred             hhcC-Cccccc---------------------------------ccccCCceEEEEEeCC----------------CCCc
Confidence            8763 111100                                 000 246899999999                9999


Q ss_pred             ccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecCCCceeeec
Q psy3029         344 TSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPV  394 (617)
Q Consensus       344 ssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~~~~~~  394 (617)
                      |++++++++.. ......|.+..|.....++++++.+.|--++|++.|....
T Consensus       192 SsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~  243 (444)
T COG1160         192 SSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKIT  243 (444)
T ss_pred             hHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCcccccc
Confidence            99999999654 5566678889999999999999999999999998776663

>KOG0081|consensus

Probab=99.94  E-value=5.1e-27  Score=211.38  Aligned_cols=159  Identities=33%  Similarity=0.573  Sum_probs=146.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC---------CeEEEEEEEecCCcccccccchhhhccCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG---------ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~---------~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV  185 (617)
                      +||||||++.++..++|......|+|++|..+.+..+         +..+.+++|||+|+|+|+.+.-.|++.|-++|++
T Consensus        18 SGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLi   97 (219)
T KOG0081|consen   18 SGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLI   97 (219)
T ss_pred             CCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhccceEE
Confidence            9999999999999999999999999999988877652         3568999999999999999999999999999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         186 FDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       186 ~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                      ||+++..||.++..|+.+++.+.- .+..||++|||+||.+.+.+..+++.+++.++|+||||+||-+|.||++..+.|+
T Consensus        98 FDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~Nv~kave~Ll  177 (219)
T KOG0081|consen   98 FDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTNVEKAVELLL  177 (219)
T ss_pred             EeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcCHHHHHHHHH
Confidence            999999999999999999877642 3457999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhc
Q psy3029         265 KGLICLSQE  273 (617)
Q Consensus       265 ~~l~~~~~~  273 (617)
                      ..+.+..+.
T Consensus       178 dlvM~Rie~  186 (219)
T KOG0081|consen  178 DLVMKRIEQ  186 (219)
T ss_pred             HHHHHHHHH
Confidence            988877654

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.93  E-value=3.6e-25  Score=214.50  Aligned_cols=155  Identities=27%  Similarity=0.469  Sum_probs=134.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+++.+...+.++++.++.. .+... +..+.+.+|||+|+++|..++..+++++|++|+|||++++.|
T Consensus         9 ~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s   87 (187)
T cd04132           9 GGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTS   87 (187)
T ss_pred             CCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHH
Confidence            9999999999999999988888998877644 34454 678899999999999999999999999999999999999999


Q ss_pred             HHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc----cccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         194 FAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS----REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       194 ~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~----~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      |+.+. .|+..+.... .++|++||+||+|+...    +.+..+++.+++..+++ +++++||++|.||+++|..+++.+
T Consensus        88 ~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~  166 (187)
T cd04132          88 LDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEA  166 (187)
T ss_pred             HHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHH
Confidence            99986 5988877654 35799999999999653    24567788889999998 999999999999999999999888


Q ss_pred             HHhh
Q psy3029         268 ICLS  271 (617)
Q Consensus       268 ~~~~  271 (617)
                      ....
T Consensus       167 ~~~~  170 (187)
T cd04132         167 LKKE  170 (187)
T ss_pred             Hhhh
Confidence            7644

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.93  E-value=3.7e-25  Score=211.49  Aligned_cols=156  Identities=30%  Similarity=0.532  Sum_probs=135.5

Q ss_pred             CCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCC
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ  190 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~  190 (617)
                      |+|.+|||||||+++|+++.+...+.++.+..+ ...+.+++..+.+.+|||+|+++|..++..+++++|++|+|||+++
T Consensus         3 i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   81 (174)
T smart00174        3 VVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDS   81 (174)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCC
Confidence            334499999999999999999888888887554 4566778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCcc------------ccCHHHHHHHHHhcCC-eEEEEcCCCCCCH
Q psy3029         191 YHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSR------------EVNREEAFHYSKSIGG-TYYETSALQDQGI  256 (617)
Q Consensus       191 ~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~------------~v~~~e~~~~~~~~g~-~~~evSAktg~gI  256 (617)
                      +.||+.+. .|+..+....+ ++|++||+||+|+..+.            .+..+++.++++.++. .+++|||++|.||
T Consensus        82 ~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v  160 (174)
T smart00174       82 PASFENVKEKWYPEVKHFCP-NTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGV  160 (174)
T ss_pred             HHHHHHHHHHHHHHHHhhCC-CCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCH
Confidence            99999986 69999887654 57999999999996532            3677888889999987 9999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy3029         257 EDVFLNVSKGLI  268 (617)
Q Consensus       257 ~eLf~~I~~~l~  268 (617)
                      +++|+.|++.+.
T Consensus       161 ~~lf~~l~~~~~  172 (174)
T smart00174      161 REVFEEAIRAAL  172 (174)
T ss_pred             HHHHHHHHHHhc
Confidence            999999988763

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.93  E-value=6.6e-25  Score=207.60  Aligned_cols=145  Identities=23%  Similarity=0.396  Sum_probs=124.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+.+|+.+.|...+.|+ +..+ ...+.+++..+.+.+|||+|++.     ..+++++|++++|||++++.||
T Consensus         9 ~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~~~sf   81 (158)
T cd04103           9 LQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLENEASF   81 (158)
T ss_pred             CCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCCHHHH
Confidence            999999999999998887766555 3343 46778888889999999999975     3567899999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCCeEEEEEECCCCC--CccccCHHHHHHHHHhc-CCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-EPLVLCVVGNKTDLE--SSREVNREEAFHYSKSI-GGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~--~~~~v~~~e~~~~~~~~-g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +.+..|+..+..... ..+|++|||||+|+.  ..+.+..+++.+++++. ++.|++|||++|.||+++|..+++.
T Consensus        82 ~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103          82 QTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            999999999987653 458999999999985  35678888888899876 4899999999999999999998764

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd04123 Rab21 Rab21 subfamily

Probab=99.93  E-value=1.5e-24  Score=203.76  Aligned_cols=153  Identities=46%  Similarity=0.824  Sum_probs=137.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+.++....+...+..+.+.+||++|++.+..+++.+++++|++++|||++++.++
T Consensus         9 ~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   88 (162)
T cd04123           9 GRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSF   88 (162)
T ss_pred             CCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHH
Confidence            99999999999999988777777877777777777778888999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+......++|+++|+||+|+...+.+..++..++++.++++++++||+++.|+++++++|.+.+
T Consensus        89 ~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123          89 QKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            9999999998887666789999999999987677777778888888899999999999999999999998764

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.93  E-value=9.3e-25  Score=221.28  Aligned_cols=152  Identities=24%  Similarity=0.427  Sum_probs=133.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.|...+.+|++ ++..+.+.+++..+.+.||||+|++.|..+...++..+|++|+|||+++++||
T Consensus         9 ~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf   87 (247)
T cd04143           9 SKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESF   87 (247)
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHH
Confidence            99999999999999999888889987 56677788888899999999999999988888899999999999999999999


Q ss_pred             HHHHHHHHHHHhc---------CCCCCeEEEEEECCCCCCccccCHHHHHHHHHh-cCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRN---------VDEPLVLCVVGNKTDLESSREVNREEAFHYSKS-IGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       195 ~~l~~~l~~i~~~---------~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                      +.+..|+..+.+.         ...++|+|||+||+|+..++++..+++.+++.. .++.++++||++|.||+++|++|+
T Consensus        88 ~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~  167 (247)
T cd04143          88 EEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALF  167 (247)
T ss_pred             HHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHH
Confidence            9999999888653         224589999999999976667777777777653 467899999999999999999998


Q ss_pred             HHH
Q psy3029         265 KGL  267 (617)
Q Consensus       265 ~~l  267 (617)
                      ...
T Consensus       168 ~~~  170 (247)
T cd04143         168 SLA  170 (247)
T ss_pred             HHh
Confidence            754

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>cd01892 Miro2 Miro2 subfamily

Probab=99.93  E-value=8.7e-25  Score=208.96  Aligned_cols=161  Identities=17%  Similarity=0.224  Sum_probs=139.4

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .+||+++|+                      +|||||||+++|+++.|. ..+.||.+.++....+.+++..+.+.+||+
T Consensus         4 ~~kv~~vG~----------------------~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~   61 (169)
T cd01892           4 VFLCFVLGA----------------------KGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREV   61 (169)
T ss_pred             EEEEEEECC----------------------CCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEec
Confidence            478999999                      999999999999999988 889999999887777888888889999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..+...+++++|++|+|||++++.+|+.+..|+..+...  .++|+++|+||+|+...+.+...+..++++.++
T Consensus        62 ~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~  139 (169)
T cd01892          62 GEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLG  139 (169)
T ss_pred             CCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEcccccccccccccCHHHHHHHcC
Confidence            999999999999999999999999999999999998998876432  358999999999996555443444567788888


Q ss_pred             C-eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         243 G-TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       243 ~-~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      + .++++||++|.|++++|+.|.+.+.
T Consensus       140 ~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         140 LPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             CCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            7 4799999999999999999988764

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.93  E-value=1.4e-24  Score=207.84  Aligned_cols=148  Identities=30%  Similarity=0.545  Sum_probs=130.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|.++.|...+.+|. .+++...+.+++..+.+++|||+|++++..++..+++++|++|+|||++++.+|
T Consensus         9 ~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf   87 (173)
T cd04130           9 GAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSF   87 (173)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHH
Confidence            9999999999999999988888886 455666778888889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCC------------ccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLES------------SREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVF  260 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~------------~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf  260 (617)
                      +.+. .|+..+....+ .+|+++|+||+|+..            ++.+..+++..+++..+. .|+++||++|.||+++|
T Consensus        88 ~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf  166 (173)
T cd04130          88 QNISEKWIPEIRKHNP-KAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF  166 (173)
T ss_pred             HHHHHHHHHHHHhhCC-CCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHH
Confidence            9985 69988876443 479999999999863            356777888899999988 99999999999999999


Q ss_pred             HHHH
Q psy3029         261 LNVS  264 (617)
Q Consensus       261 ~~I~  264 (617)
                      +.++
T Consensus       167 ~~~~  170 (173)
T cd04130         167 DTAI  170 (173)
T ss_pred             HHHH
Confidence            8875

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.93  E-value=1.2e-24  Score=206.48  Aligned_cols=153  Identities=29%  Similarity=0.503  Sum_probs=132.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc-cccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF-RSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~-~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+.+.+...+.++.+..+ .+.+.+++..+.+++||++|++++ ......+++.+|++|+|||++++.|
T Consensus         8 ~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   86 (165)
T cd04146           8 SGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSS   86 (165)
T ss_pred             CCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHH
Confidence            99999999999999888777888876543 556678888899999999999853 4567788999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC--CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCC-CCHHHHHHHHHHHHH
Q psy3029         194 FAAIKTWVKELKRNV--DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQD-QGIEDVFLNVSKGLI  268 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~--~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg-~gI~eLf~~I~~~l~  268 (617)
                      |+.+..|+..+....  ..++|+++|+||+|+...+.+..+++..+++.++++|+++||++| .||+++|..|++.+.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146          87 FDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            999999998887754  345899999999999777777888888999999999999999999 599999999987653

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>PLN03118 Rab family protein; Provisional

Probab=99.93  E-value=2.5e-24  Score=213.32  Aligned_cols=164  Identities=38%  Similarity=0.685  Sum_probs=144.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+ ..+.++.|.++....+.+++..+.+.||||+
T Consensus        14 ~~kv~ivG~----------------------~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~   70 (211)
T PLN03118         14 SFKILLIGD----------------------SGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTA   70 (211)
T ss_pred             ceEEEEECc----------------------CCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECC
Confidence            478999999                      99999999999998876 4678999988888888888888999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHH-HHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~-~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+++|..++..+++++|++|+|||++++.+|..+.. |...+.... ...+|++||+||+|+...+.+..++...++..+
T Consensus        71 G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~  150 (211)
T PLN03118         71 GQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEH  150 (211)
T ss_pred             CchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHc
Confidence            999999999999999999999999999999999976 666665443 245799999999999877777778888888889


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++.|+++||+++.|++++|++|...+...
T Consensus       151 ~~~~~e~SAk~~~~v~~l~~~l~~~~~~~  179 (211)
T PLN03118        151 GCLFLECSAKTRENVEQCFEELALKIMEV  179 (211)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999999999988654

>cd01863 Rab18 Rab18 subfamily

Probab=99.93  E-value=2.7e-24  Score=202.71  Aligned_cols=151  Identities=38%  Similarity=0.721  Sum_probs=135.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+.++....+.+.+..+.+.+||++|++.+..+...+++.+|++|+|||++++.+|
T Consensus         9 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   88 (161)
T cd01863           9 SGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTF   88 (161)
T ss_pred             CCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHH
Confidence            99999999999999988777889999988877788888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      ..+..|+..+..+. ...+|+++|+||+|+.. ..+..++...++...+++++++||++|.|++++++.+.+.
T Consensus        89 ~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863          89 TNLETWLNELETYSTNNDIVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             HhHHHHHHHHHHhCCCCCCcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            99999999988765 35689999999999963 4456677888998899999999999999999999998764

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>cd04177 RSR1 RSR1 subgroup

Probab=99.93  E-value=2.9e-24  Score=204.67  Aligned_cols=154  Identities=31%  Similarity=0.610  Sum_probs=137.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|.++.+...+.++++.. ..+.+.+++..+.+++|||+|+++|..+++.+++.++++++|||++++.+|
T Consensus        10 ~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~   88 (168)
T cd04177          10 GGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASL   88 (168)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHH
Confidence            9999999999999999888888888755 466777888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+..|...+.+.. ..++|+++|+||+|+...+.+..++...+++.++ ++++++||+++.|++++|++|+.++..
T Consensus        89 ~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~~  165 (168)
T cd04177          89 NELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQIIC  165 (168)
T ss_pred             HHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            99999998887643 3468999999999998777777777888888888 799999999999999999999987754

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd01862 Rab7 Rab7 subfamily

Probab=99.93  E-value=3.3e-24  Score=204.01  Aligned_cols=156  Identities=39%  Similarity=0.692  Sum_probs=138.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|.+..+...+.++++.++..+.+.+.+..+.+.+||++|++.+..++..+++++|++|+|||++++.+|
T Consensus         9 ~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~   88 (172)
T cd01862           9 SGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSF   88 (172)
T ss_pred             CCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHH
Confidence            99999999999999998888889999888888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC----CCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~----~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+..|...+.....    .++|+++|+||+|+..++.+..++...+++..+ .+++++||++|.|++++|++|.+.+.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~  168 (172)
T cd01862          89 ESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIARKALE  168 (172)
T ss_pred             HHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            999889887655442    358999999999997656666777778888887 699999999999999999999988765


Q ss_pred             h
Q psy3029         270 L  270 (617)
Q Consensus       270 ~  270 (617)
                      .
T Consensus       169 ~  169 (172)
T cd01862         169 Q  169 (172)
T ss_pred             c
Confidence            3

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd04135 Tc10 TC10 subfamily

Probab=99.92  E-value=3.5e-24  Score=204.71  Aligned_cols=151  Identities=30%  Similarity=0.543  Sum_probs=131.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+...+.++.+.. ....+.+++..+.+.+|||+|+++|..++..+++++|++|+|||++++.+|
T Consensus         9 ~~~GKTsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~   87 (174)
T cd04135           9 GAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASF   87 (174)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHH
Confidence            9999999999999999888888887644 455677788889999999999999999999999999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------cccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVF  260 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf  260 (617)
                      +.+. .|+..+... ...+|++||+||+|+.+.            +.+..+++..+++.+++ ++++|||++|.||+++|
T Consensus        88 ~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f  166 (174)
T cd04135          88 QNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGLKTVF  166 (174)
T ss_pred             HHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCHHHHH
Confidence            9985 688888765 455899999999998543            25667788889998886 89999999999999999


Q ss_pred             HHHHHHH
Q psy3029         261 LNVSKGL  267 (617)
Q Consensus       261 ~~I~~~l  267 (617)
                      +.++..+
T Consensus       167 ~~~~~~~  173 (174)
T cd04135         167 DEAILAI  173 (174)
T ss_pred             HHHHHHh
Confidence            9998764

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd04148 RGK RGK subfamily

Probab=99.92  E-value=3.9e-24  Score=213.48  Aligned_cols=154  Identities=23%  Similarity=0.328  Sum_probs=133.8

Q ss_pred             CCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhc-cCCEEEEEEeCCChh
Q psy3029         115 LGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR-NANAALLVFDITQYH  192 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~-~ad~iIlV~Dis~~~  192 (617)
                      +|||||||+++|+.+.+. ..+.++.+.+++.+.+.+++..+.+.+|||+|++.  .....++. ++|++|+|||++++.
T Consensus         9 ~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iilV~d~td~~   86 (221)
T cd04148           9 PGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVVVYSVTDRS   86 (221)
T ss_pred             CCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEEEEECCCHH
Confidence            999999999999988876 67778877677888888888899999999999983  23445666 899999999999999


Q ss_pred             hHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         193 SFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       193 S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +|+.+.+|+..+..... .++|+|||+||+|+...+.+..+++.+++..++++++++||+++.||+++|++|+..+...
T Consensus        87 S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~~  165 (221)
T cd04148          87 SFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRLR  165 (221)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence            99999999998877542 4689999999999987777888888888888899999999999999999999999888643

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>cd04114 Rab30 Rab30 subfamily

Probab=99.92  E-value=8.7e-24  Score=200.89  Aligned_cols=153  Identities=40%  Similarity=0.700  Sum_probs=137.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+...+.++++.++..+.+.+.+..+.+.+||++|++.+...+..+++.+|++++|||++++.+|
T Consensus        16 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   95 (169)
T cd04114          16 AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESF   95 (169)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            99999999999998888777888998888888888888889999999999999998889999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+.......+|+++|+||+|+...+++..+....+.+.....++++||++|.|++++|+.|.+.+
T Consensus        96 ~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114          96 RCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             HHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            9999999988777666689999999999987777777667777777778999999999999999999998754

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>KOG0395|consensus

Probab=99.92  E-value=3e-24  Score=209.50  Aligned_cols=154  Identities=32%  Similarity=0.531  Sum_probs=144.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||+|+.+|+...|...|.||++ +.+.+.+.+++..+.+.|+||+|+++|..+...++.+++++++||+++++.||
T Consensus        12 ~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF   90 (196)
T KOG0395|consen   12 GGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSF   90 (196)
T ss_pred             CCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHH
Confidence            99999999999999999999999998 56888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+..++..|.+.. ...+|+++||||+|+...+++..+++..++..++++|+|+||+.+.+|+++|..|++.+..
T Consensus        91 ~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~  166 (196)
T KOG0395|consen   91 EEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELVREIRL  166 (196)
T ss_pred             HHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHh
Confidence            99999999985533 3568999999999999889999999999999999999999999999999999999998865

>cd00154 Rab Rab family

Probab=99.92  E-value=8.3e-24  Score=196.94  Aligned_cols=150  Identities=45%  Similarity=0.787  Sum_probs=137.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|.+..+...+.+|.+.++....+...+..+.+.+||++|++.+......+++++|++|+|||+++++++
T Consensus         9 ~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~   88 (159)
T cd00154           9 SGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESF   88 (159)
T ss_pred             CCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHH
Confidence            99999999999999998888889999999888888888889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                      ..+..|+..+.......+|+++|+||+|+..+.....++..+++...+++++++||+++.|+++++++|.
T Consensus        89 ~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          89 ENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             HHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            9999999998887655689999999999975566677888889988899999999999999999999875

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.92  E-value=3.9e-24  Score=236.47  Aligned_cols=214  Identities=22%  Similarity=0.237  Sum_probs=150.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc--------ccccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER--------FRSMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~--------~~~~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++... ..+.+++|+++......+......+.+|||+|++.        +..+...+++.+|++|+||
T Consensus        47 ~nvGKSSL~nrl~~~~~-~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~Vv  125 (472)
T PRK03003         47 PNVGKSTLVNRILGRRE-AVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVV  125 (472)
T ss_pred             CCCCHHHHHHHHhCcCc-ccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEE
Confidence            99999999999998764 34455666665444443332335688999999763        3344566788999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~  265 (617)
                      |+++..++.. ..|+..+..   .++|+++|+||+|+....   .+.. ++. .+++ ..++|||++|.|++++|++|+.
T Consensus       126 D~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~-~~~-~~g~~~~~~iSA~~g~gi~eL~~~i~~  196 (472)
T PRK03003        126 DATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAA-ALW-SLGLGEPHPVSALHGRGVGDLLDAVLA  196 (472)
T ss_pred             ECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhH-HHH-hcCCCCeEEEEcCCCCCcHHHHHHHHh
Confidence            9998766543 234444433   347999999999985421   1222 222 2343 4579999999999999999987


Q ss_pred             HHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeeccccccc
Q psy3029         266 GLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTS  345 (617)
Q Consensus       266 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKss  345 (617)
                      .+......                                  .+.....++++++|+|                ++|||+
T Consensus       197 ~l~~~~~~----------------------------------~~~~~~~~kI~iiG~~----------------nvGKSS  226 (472)
T PRK03003        197 ALPEVPRV----------------------------------GSASGGPRRVALVGKP----------------NVGKSS  226 (472)
T ss_pred             hccccccc----------------------------------ccccccceEEEEECCC----------------CCCHHH
Confidence            76321000                                  0000123678888888                999999


Q ss_pred             ceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         346 MVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       346 i~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      ++++++...+ .....|+++.++..+.+.++++.+.|--++|+.
T Consensus       227 Lin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~  270 (472)
T PRK03003        227 LLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLR  270 (472)
T ss_pred             HHHHHhCCCcccccCCCCccCCcceEEEEECCEEEEEEECCCcc
Confidence            9999998765 344568888999889999999999887777764

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.92  E-value=1.8e-23  Score=197.01  Aligned_cols=153  Identities=34%  Similarity=0.545  Sum_probs=134.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+...+...+.++.+.. ..+...+++..+.+.+||++|++++..++..+++.++++++|||++++.+|
T Consensus         9 ~~~GKTsl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   87 (164)
T cd04139           9 GGVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESF   87 (164)
T ss_pred             CCCCHHHHHHHHHhCCCccccCCcchhh-EEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            9999999999999998888888887755 455667788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+..|+..+.... ..++|+++|+||+|+...+....++...++..++++++++||++|.|++++|++|.+.+.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139          88 TATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            99999988887763 246899999999999765555667777888888999999999999999999999988764

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.91  E-value=2.7e-23  Score=198.82  Aligned_cols=151  Identities=30%  Similarity=0.551  Sum_probs=128.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.+|++..+. ..+.+++..+.+.+|||+|+++|..++..++.++|++++|||++++++|
T Consensus        10 ~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~   88 (175)
T cd01870          10 GACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSL   88 (175)
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHH
Confidence            999999999999999988888899886653 4567788889999999999999998888899999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------cccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVF  260 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf  260 (617)
                      +.+. .|+..+.+... ++|+++|+||+|+...            ..+...++.++++.++. ++++|||++|.||+++|
T Consensus        89 ~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf  167 (175)
T cd01870          89 ENIPEKWTPEVKHFCP-NVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGVREVF  167 (175)
T ss_pred             HHHHHHHHHHHHhhCC-CCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCHHHHH
Confidence            9885 58888776543 5799999999998542            23445667788887775 89999999999999999


Q ss_pred             HHHHHHH
Q psy3029         261 LNVSKGL  267 (617)
Q Consensus       261 ~~I~~~l  267 (617)
                      ++|.+.+
T Consensus       168 ~~l~~~~  174 (175)
T cd01870         168 EMATRAA  174 (175)
T ss_pred             HHHHHHh
Confidence            9998643

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>cd04149 Arf6 Arf6 subfamily

Probab=99.91  E-value=2e-23  Score=199.36  Aligned_cols=154  Identities=19%  Similarity=0.272  Sum_probs=123.4

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|.                      +|||||||+++|..+.+. .+.||+|.++...  .  ...+.+++|||
T Consensus         8 ~~~kv~i~G~----------------------~~~GKTsli~~l~~~~~~-~~~~t~g~~~~~~--~--~~~~~~~l~Dt   60 (168)
T cd04149           8 KEMRILMLGL----------------------DAAGKTTILYKLKLGQSV-TTIPTVGFNVETV--T--YKNVKFNVWDV   60 (168)
T ss_pred             CccEEEEECc----------------------CCCCHHHHHHHHccCCCc-cccCCcccceEEE--E--ECCEEEEEEEC
Confidence            3568888888                      999999999999987764 4678888776432  2  24688999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH--
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK--  239 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~--  239 (617)
                      +|++++..+++.+++++|++|+|||++++.+|..+.+|+..+.... ..++|++||+||+|+...  +..+++..++.  
T Consensus        61 ~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~  138 (168)
T cd04149          61 GGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA--MKPHEIQEKLGLT  138 (168)
T ss_pred             CCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCHHHHHHHcCCC
Confidence            9999999999999999999999999999999999988887765432 245799999999998642  34555555442  


Q ss_pred             ---hcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         240 ---SIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       240 ---~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                         ...+.++++||++|.||+++|++|.+
T Consensus       139 ~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         139 RIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             ccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence               12347899999999999999999864

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd00876 Ras Ras family

Probab=99.91  E-value=5e-23  Score=192.97  Aligned_cols=153  Identities=34%  Similarity=0.543  Sum_probs=135.4

Q ss_pred             CCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh
Q psy3029         113 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH  192 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~  192 (617)
                      |.+|||||||+++|++..+...+.++.+ +...+.+...+..+.+++||++|++.+..++..+++.+|++++|||+++++
T Consensus         6 G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~   84 (160)
T cd00876           6 GAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRE   84 (160)
T ss_pred             CCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHH
Confidence            3399999999999998888888888877 556667777777899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         193 SFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       193 S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      ++..+..|+..+..... ..+|+++|+||+|+...+.+..+++..+++.++++++++||+++.|+++++++|.+.
T Consensus        85 s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876          85 SFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            99999999888877654 468999999999998767777788888988888999999999999999999999864

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>cd04129 Rho2 Rho2 subfamily

Probab=99.90  E-value=9.6e-23  Score=198.02  Aligned_cols=153  Identities=29%  Similarity=0.538  Sum_probs=130.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|..+.+...+.++.+..+. ..+.+++..+.+.+||++|++.+......+++++|++|+|||++++++|
T Consensus        10 ~g~GKStLl~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~   88 (187)
T cd04129          10 GACGKTSLLSVFTLGEFPEEYHPTVFENYV-TDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSL   88 (187)
T ss_pred             CCCCHHHHHHHHHhCCCCcccCCcccceEE-EEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHH
Confidence            999999999999988887777787765543 4566777888999999999998888777888999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCC----------ccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLES----------SREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~----------~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~  262 (617)
                      +.+. .|+..+....+ ++|++||+||+|+..          .+.+..+++..+++.++. ++|+|||++|.||+++|+.
T Consensus        89 ~~~~~~~~~~i~~~~~-~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~  167 (187)
T cd04129          89 ENVRTKWIEEVRRYCP-NVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDDVFEA  167 (187)
T ss_pred             HHHHHHHHHHHHHhCC-CCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHHHHHH
Confidence            9996 69999887655 489999999999854          234556778888999985 8999999999999999999


Q ss_pred             HHHHHHH
Q psy3029         263 VSKGLIC  269 (617)
Q Consensus       263 I~~~l~~  269 (617)
                      +.+.+..
T Consensus       168 l~~~~~~  174 (187)
T cd04129         168 ATRAALL  174 (187)
T ss_pred             HHHHHhc
Confidence            9987754

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.90  E-value=1.5e-23  Score=198.31  Aligned_cols=144  Identities=21%  Similarity=0.307  Sum_probs=112.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|..+.+. .+.||+|.++..  +..  ..+.+.+||++|++++..++..+++++|++|+|||++++.+|
T Consensus         9 ~~~GKTsli~~l~~~~~~-~~~pt~g~~~~~--~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~   83 (159)
T cd04150           9 DAAGKTTILYKLKLGEIV-TTIPTIGFNVET--VEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERI   83 (159)
T ss_pred             CCCCHHHHHHHHhcCCCc-ccCCCCCcceEE--EEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHH
Confidence            999999999999888876 478898876532  222  468899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHH-HHHH----HhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEA-FHYS----KSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~-~~~~----~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +.+.+|+..+... ....+|++||+||+|+...  ...++. ..+.    ....+.++++||++|.||+++|++|.+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150          84 GEAREELQRMLNEDELRDAVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             HHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            9998888776542 2234799999999998542  222222 2221    122346789999999999999999853

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.90  E-value=1.3e-23  Score=199.76  Aligned_cols=146  Identities=18%  Similarity=0.254  Sum_probs=122.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.||+|.+.    ..++...+.+.+||++|++++..++..+++++|++|+|||++++.+|
T Consensus         8 ~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~   83 (164)
T cd04162           8 DGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERL   83 (164)
T ss_pred             CCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            99999999999999888888889998653    23445678999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH----HHHHHHHHhcCCeEEEEcCCC------CCCHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR----EEAFHYSKSIGGTYYETSALQ------DQGIEDVFLNVS  264 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~----~e~~~~~~~~g~~~~evSAkt------g~gI~eLf~~I~  264 (617)
                      ..+..|+..+.... .++|++||+||+|+...+.+..    .++..++++.++.++++||++      ++||+++|+.++
T Consensus        84 ~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~  162 (164)
T cd04162          84 PLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             HHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence            99999988886544 4589999999999976543321    123456667788899999998      999999999876


Q ss_pred             H
Q psy3029         265 K  265 (617)
Q Consensus       265 ~  265 (617)
                      .
T Consensus       163 ~  163 (164)
T cd04162         163 N  163 (164)
T ss_pred             c
Confidence            3

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd04158 ARD1 ARD1 subfamily

Probab=99.90  E-value=6.2e-23  Score=195.94  Aligned_cols=148  Identities=22%  Similarity=0.317  Sum_probs=120.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+. .+.||+|..+..  +.  ...+.+.+|||+|++++..++..+++++|++++|||++++.+|
T Consensus         8 ~~~GKTsl~~~l~~~~~~-~~~~T~~~~~~~--~~--~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~   82 (169)
T cd04158           8 DGAGKTTILFKLKQDEFM-QPIPTIGFNVET--VE--YKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRV   82 (169)
T ss_pred             CCCCHHHHHHHHhcCCCC-CcCCcCceeEEE--EE--ECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHH
Confidence            999999999999998765 478888876543  22  2468899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC------CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG------GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g------~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+.+.. ..+.|++||+||+|+..  .+..+++.+++....      +.++++||++|.||+++|++|.+.+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~  160 (169)
T cd04158          83 SEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQL  160 (169)
T ss_pred             HHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHH
Confidence            99999988886542 23479999999999864  355666666654222      2688999999999999999998876


Q ss_pred             HH
Q psy3029         268 IC  269 (617)
Q Consensus       268 ~~  269 (617)
                      ..
T Consensus       161 ~~  162 (169)
T cd04158         161 VA  162 (169)
T ss_pred             hh
Confidence            54

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.90  E-value=9.6e-23  Score=199.93  Aligned_cols=153  Identities=25%  Similarity=0.398  Sum_probs=129.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+...+.++.+ ++....+.+.+..+.+++||++|+.+|..++..++..+|++|+|||++++.+|
T Consensus         8 ~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~   86 (198)
T cd04147           8 AGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESF   86 (198)
T ss_pred             CCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            99999999999999998887878875 45566777788889999999999999998889999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCCeEEEEEECCCCCC-ccccCHHHHHHHHH-hcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-EPLVLCVVGNKTDLES-SREVNREEAFHYSK-SIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~-~~~v~~~e~~~~~~-~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+..|+..+..... ..+|++||+||+|+.. .+.+..++..+... .++.+++++||++|.||+++|++|++.+.
T Consensus        87 ~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147          87 EEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence            999999988877554 4689999999999865 35455544444443 45678999999999999999999998764

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>KOG0393|consensus

Probab=99.90  E-value=1.1e-23  Score=201.83  Aligned_cols=164  Identities=31%  Similarity=0.597  Sum_probs=147.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEEe
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVWD  161 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~D  161 (617)
                      ..+|++|+|+                      .+||||+|+..+..+.|...|.||+- +-+...+.++ +..+.+.+||
T Consensus         3 ~~~K~VvVGD----------------------ga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwD   59 (198)
T KOG0393|consen    3 RRIKCVVVGD----------------------GAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWD   59 (198)
T ss_pred             eeeEEEEECC----------------------CCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeee
Confidence            3579999999                      99999999999999999999999998 4567788895 9999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------cc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------RE  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~  228 (617)
                      |+|+++|..++...|.++|++|+||++.++.||+++. +|+.++.++++. +|+||||+|.||.++            ..
T Consensus        60 TAGqedYDrlRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~cp~-vpiiLVGtk~DLr~d~~~~~~l~~~~~~~  138 (198)
T KOG0393|consen   60 TAGQEDYDRLRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHCPN-VPIILVGTKADLRDDPSTLEKLQRQGLEP  138 (198)
T ss_pred             cCCCcccccccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhCCC-CCEEEEeehHHhhhCHHHHHHHHhccCCc
Confidence            9999999999988999999999999999999999975 799999999965 899999999999743            35


Q ss_pred             cCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         229 VNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       229 v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++.+++..+++++|. .|+||||++..|++++|+..+......
T Consensus       139 Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  139 VTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             ccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcc
Confidence            778889999999995 899999999999999999988877553

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.90  E-value=7.7e-23  Score=197.86  Aligned_cols=155  Identities=21%  Similarity=0.328  Sum_probs=123.4

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|..+.+. .+.||+|.++..  +.  ...+.+++||+
T Consensus        16 ~~~ki~ivG~----------------------~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~~--~~--~~~~~~~i~D~   68 (181)
T PLN00223         16 KEMRILMVGL----------------------DAAGKTTILYKLKLGEIV-TTIPTIGFNVET--VE--YKNISFTVWDV   68 (181)
T ss_pred             CccEEEEECC----------------------CCCCHHHHHHHHccCCCc-cccCCcceeEEE--EE--ECCEEEEEEEC
Confidence            3468999998                      999999999999987775 577898876532  32  34688999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|++++..++..|++++|++|+|||+++++++..+..|+..+... ....+|++||+||+|+...  ...++   +.+.+
T Consensus        69 ~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~--~~~~~---~~~~l  143 (181)
T PLN00223         69 GGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAE---ITDKL  143 (181)
T ss_pred             CCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC--CCHHH---HHHHh
Confidence            999999999999999999999999999999999888777766432 2235799999999998643  23333   33333


Q ss_pred             CC--------eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         242 GG--------TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       242 g~--------~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++        .++++||++|+||+++|++|.+.+..
T Consensus       144 ~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~~  179 (181)
T PLN00223        144 GLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  179 (181)
T ss_pred             CccccCCCceEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            33        35689999999999999999988754

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.90  E-value=7.3e-23  Score=201.05  Aligned_cols=149  Identities=22%  Similarity=0.302  Sum_probs=128.2

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-----CeEEEEEE
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-----ENKVKLQV  159 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-----~~~~~l~i  159 (617)
                      +||+++|+                      ++||||||+++|+++.|...+.+|+|.++..+.+.+.     +..+.++|
T Consensus         1 vKIvlvGd----------------------~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~I   58 (202)
T cd04102           1 VRVLVVGD----------------------SGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVEL   58 (202)
T ss_pred             CEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEE
Confidence            48888998                      9999999999999999988999999988877777663     46789999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-------------------CCCCeEEEEEEC
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-------------------DEPLVLCVVGNK  220 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-------------------~~~iPvIlVgNK  220 (617)
                      |||+|+++|..++..|++++|++|+|||++++.||+.+..|+.++....                   ..++|++|||||
T Consensus        59 wDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK  138 (202)
T cd04102          59 WDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTK  138 (202)
T ss_pred             EecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEEC
Confidence            9999999999999999999999999999999999999999999987632                   246899999999


Q ss_pred             CCCCCccccCHHH----HHHHHHhcCCeEEEEcCCCCCC
Q psy3029         221 TDLESSREVNREE----AFHYSKSIGGTYYETSALQDQG  255 (617)
Q Consensus       221 ~DL~~~~~v~~~e----~~~~~~~~g~~~~evSAktg~g  255 (617)
                      +|+.+++.+..+.    ...++++++++.+++++.....
T Consensus       139 ~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~~  177 (202)
T cd04102         139 LDQIPEKESSGNLVLTARGFVAEQGNAEEINLNCTNGRL  177 (202)
T ss_pred             ccchhhcccchHHHhhHhhhHHHhcCCceEEEecCCccc
Confidence            9997766554432    3467888999999999886543

RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.90  E-value=3.3e-23  Score=199.20  Aligned_cols=156  Identities=20%  Similarity=0.275  Sum_probs=122.6

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|..+.+. .+.||+|.++...  ..  ..+.+.+|||
T Consensus        12 ~~~ki~l~G~----------------------~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~~--~~--~~~~l~l~D~   64 (175)
T smart00177       12 KEMRILMVGL----------------------DAAGKTTILYKLKLGESV-TTIPTIGFNVETV--TY--KNISFTVWDV   64 (175)
T ss_pred             CccEEEEEcC----------------------CCCCHHHHHHHHhcCCCC-CcCCccccceEEE--EE--CCEEEEEEEC
Confidence            3578999998                      999999999999877764 5778988776433  22  4588999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH---
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS---  238 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~---  238 (617)
                      +|++++..++..|++++|++|+|||++++.+++.+.+|+..+.... ...+|++||+||+|+....  ..++.....   
T Consensus        65 ~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~  142 (175)
T smart00177       65 GGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM--KAAEITEKLGLH  142 (175)
T ss_pred             CCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC--CHHHHHHHhCcc
Confidence            9999999999999999999999999999999999988888775432 2357999999999986432  223322221   


Q ss_pred             --HhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         239 --KSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       239 --~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                        +...+.++++||++|.||+++|++|.+.+
T Consensus       143 ~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      143 SIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             ccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence              11223577899999999999999998764

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).

>cd00157 Rho Rho (Ras homology) family

Probab=99.90  E-value=1.7e-22  Score=192.05  Aligned_cols=149  Identities=32%  Similarity=0.613  Sum_probs=126.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.... ....+...+..+.+++||++|++++......+++.+|++++|||++++.+|
T Consensus         9 ~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   87 (171)
T cd00157           9 GAVGKTCLLISYTTGKFPTEYVPTVFDN-YSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSF   87 (171)
T ss_pred             CCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHH
Confidence            9999999999999998877777776544 455567788889999999999999988888889999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCcc-----------ccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSR-----------EVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFL  261 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~-----------~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~  261 (617)
                      ..+. .|+..+..... .+|+++|+||+|+....           .+..+++..++..+++ +++++||++|.|++++++
T Consensus        88 ~~~~~~~~~~~~~~~~-~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  166 (171)
T cd00157          88 ENVKTKWIPEIRHYCP-NVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVKEVFE  166 (171)
T ss_pred             HHHHHHHHHHHHhhCC-CCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHH
Confidence            8765 58887776554 58999999999986544           2356677788888888 999999999999999999


Q ss_pred             HHHH
Q psy3029         262 NVSK  265 (617)
Q Consensus       262 ~I~~  265 (617)
                      +|++
T Consensus       167 ~i~~  170 (171)
T cd00157         167 EAIR  170 (171)
T ss_pred             HHhh
Confidence            9864

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.90  E-value=1e-22  Score=197.13  Aligned_cols=163  Identities=19%  Similarity=0.292  Sum_probs=130.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEE-CCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~-~~~~~~l~i~Dt  162 (617)
                      .+||+++|.                      +|||||||+++|+.+.+.. +.||.|.++....+.+ ++..+.+.+|||
T Consensus         3 ~~kv~~vG~----------------------~~~GKTsli~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt   59 (183)
T cd04152           3 SLHIVMLGL----------------------DSAGKTTVLYRLKFNEFVN-TVPTKGFNTEKIKVSLGNSKGITFHFWDV   59 (183)
T ss_pred             ceEEEEECC----------------------CCCCHHHHHHHHhcCCcCC-cCCccccceeEEEeeccCCCceEEEEEEC
Confidence            468888888                      9999999999999888764 4688887776665554 346789999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH--
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK--  239 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~--  239 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+.... ..++|++||+||+|+...  ...++...+..  
T Consensus        60 ~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~  137 (183)
T cd04152          60 GGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALH  137 (183)
T ss_pred             CCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCcc
Confidence            9999999999999999999999999999999998888888776543 245899999999998542  33344443332  


Q ss_pred             h----cCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         240 S----IGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       240 ~----~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      .    .+++++++||++|.|+++++++|++.+....
T Consensus       138 ~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~~  173 (183)
T cd04152         138 ELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKRR  173 (183)
T ss_pred             ccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHHH
Confidence            1    1246899999999999999999999886654

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.90  E-value=3.4e-22  Score=192.35  Aligned_cols=155  Identities=27%  Similarity=0.468  Sum_probs=134.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+..+ ...+...+..+.+.+|||+|++++..+...++..++++++|||+++..++
T Consensus        10 ~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~   88 (180)
T cd04137          10 RSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSF   88 (180)
T ss_pred             CCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHH
Confidence            99999999999999988777888877654 45566777788999999999999998889999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +.+..|+..+.+.. ...+|+++|+||+|+...+.+..++...+++.++.+++++||+++.|+++++.+|.+.+...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  165 (180)
T cd04137          89 EVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIEEIEKV  165 (180)
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            99999888876643 34579999999999976666666677778888889999999999999999999999887653

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>KOG4252|consensus

Probab=99.89  E-value=2.7e-24  Score=197.48  Aligned_cols=168  Identities=31%  Similarity=0.517  Sum_probs=158.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..||++|+|.                      .+|||||+|+|||.+-|...|..|+|+++..+.+.+.+..+++.+|||
T Consensus        19 ~aiK~vivGn----------------------g~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdt   76 (246)
T KOG4252|consen   19 RAIKFVIVGN----------------------GSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDT   76 (246)
T ss_pred             hhEEEEEECC----------------------CccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHh
Confidence            4589999999                      999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|+++|..+...||+.+.+.+|||+-+|+.||+.+.+|...+...... +|.++|-||+||.++.++...++..+++.+.
T Consensus        77 agqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~-IPtV~vqNKIDlveds~~~~~evE~lak~l~  155 (246)
T KOG4252|consen   77 AGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETER-IPTVFVQNKIDLVEDSQMDKGEVEGLAKKLH  155 (246)
T ss_pred             ccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhcc-CCeEEeeccchhhHhhhcchHHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999887654 8999999999999999999999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhhhc
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLSQE  273 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~~~  273 (617)
                      +.++.+|++...||..+|.+|++++......
T Consensus       156 ~RlyRtSvked~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  156 KRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             hhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999998876544

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.89  E-value=7.7e-23  Score=198.01  Aligned_cols=159  Identities=20%  Similarity=0.282  Sum_probs=123.6

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .++||+++|+                      +|||||||++++..+.+.. +.||+|.++..  +..  ..+.+.+|||
T Consensus        16 ~~~kv~lvG~----------------------~~vGKTsli~~~~~~~~~~-~~~T~~~~~~~--~~~--~~~~~~l~D~   68 (182)
T PTZ00133         16 KEVRILMVGL----------------------DAAGKTTILYKLKLGEVVT-TIPTIGFNVET--VEY--KNLKFTMWDV   68 (182)
T ss_pred             CccEEEEEcC----------------------CCCCHHHHHHHHhcCCccc-cCCccccceEE--EEE--CCEEEEEEEC
Confidence            4578999999                      9999999999998887754 67888876543  322  5588999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHHH---
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHYS---  238 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~---  238 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+.+|+..+... ....+|++||+||.|+...  +..++.....   
T Consensus        69 ~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~l~~~  146 (182)
T PTZ00133         69 GGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA--MSTTEVTEKLGLH  146 (182)
T ss_pred             CCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC--CCHHHHHHHhCCC
Confidence            999999999999999999999999999999999988777766432 1234799999999998542  2223222211   


Q ss_pred             --HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         239 --KSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       239 --~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                        ....+.++++||++|.|++++|++|.+.+..+
T Consensus       147 ~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~~  180 (182)
T PTZ00133        147 SVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKS  180 (182)
T ss_pred             cccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHHh
Confidence              11123567999999999999999999877654

>cd01893 Miro1 Miro1 subfamily

Probab=99.89  E-value=2.9e-22  Score=190.58  Aligned_cols=151  Identities=23%  Similarity=0.374  Sum_probs=118.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|..+.+...+.++. .. ......+.+..+.+.+|||+|.+++...+..++..+|++++|||++++.+|
T Consensus         9 ~~vGKTsl~~~l~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~   86 (166)
T cd01893           9 EGVGKSSLIMSLVSEEFPENVPRVL-PE-ITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTL   86 (166)
T ss_pred             CCCCHHHHHHHHHhCcCCccCCCcc-cc-eEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHH
Confidence            9999999999999998866544332 22 234445667789999999999998888788888999999999999999999


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccccC--HHHHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSREVN--REEAFHYSKSIG--GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+. .|+..+..... .+|++||+||+|+.+.....  .++...++..+.  .+++++||++|.|++++|+.+.+.+.
T Consensus        87 ~~~~~~~~~~i~~~~~-~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~  164 (166)
T cd01893          87 ERIRTKWLPLIRRLGV-KVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAVL  164 (166)
T ss_pred             HHHHHHHHHHHHHhCC-CCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHhc
Confidence            9985 68888876654 58999999999997654321  233333333332  38999999999999999999887663

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.89  E-value=5.4e-22  Score=197.07  Aligned_cols=164  Identities=29%  Similarity=0.532  Sum_probs=143.1

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++++.+.+...+.+|++.++....+..+++.+.+.+|
T Consensus         6 ~~~~~kv~liG~----------------------~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~   63 (215)
T PTZ00132          6 EVPEFKLILVGD----------------------GGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVW   63 (215)
T ss_pred             CCCCceEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEE
Confidence            344578888888                      9999999999999888888999999999888888888889999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      ||+|++++..++..++.+++++|+|||+++..+|..+..|+..+.... ..+|+++|+||+|+.. +.+..+ ...+++.
T Consensus        64 Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~-~~~~~~-~~~~~~~  140 (215)
T PTZ00132         64 DTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKD-RQVKAR-QITFHRK  140 (215)
T ss_pred             ECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCcc-ccCCHH-HHHHHHH
Confidence            999999999999999999999999999999999999999999987765 4589999999999854 333333 3467777


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .++.++++||++|.|++++|.+|++.+..
T Consensus       141 ~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~  169 (215)
T PTZ00132        141 KNLQYYDISAKSNYNFEKPFLWLARRLTN  169 (215)
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            88899999999999999999999988764

>cd04154 Arl2 Arl2 subfamily

Probab=99.89  E-value=2.8e-22  Score=192.02  Aligned_cols=154  Identities=24%  Similarity=0.321  Sum_probs=123.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|.+..+ ..+.+|+|..+..  +.++  .+.+.+|||
T Consensus        13 ~~~kv~ivG~----------------------~~~GKTsL~~~l~~~~~-~~~~~t~g~~~~~--~~~~--~~~l~l~D~   65 (173)
T cd04154          13 REMRILILGL----------------------DNAGKTTILKKLLGEDI-DTISPTLGFQIKT--LEYE--GYKLNIWDV   65 (173)
T ss_pred             CccEEEEECC----------------------CCCCHHHHHHHHccCCC-CCcCCccccceEE--EEEC--CEEEEEEEC
Confidence            4468888888                      99999999999998754 5677888855433  3343  478999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHHHH--
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHYSK--  239 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~--  239 (617)
                      +|++.+..++..+++++|++++|||++++.+|..+..|+..+... ...++|++||+||+|+....  ..+++..++.  
T Consensus        66 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~  143 (173)
T cd04154          66 GGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELD  143 (173)
T ss_pred             CCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCcc
Confidence            999998888999999999999999999999999988888877543 22458999999999986532  3444544442  


Q ss_pred             ---hcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         240 ---SIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       240 ---~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                         ..+++++++||++|.|++++|++|+.
T Consensus       144 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         144 KISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             ccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence               23568999999999999999999864

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>cd04157 Arl6 Arl6 subfamily

Probab=99.88  E-value=1.9e-22  Score=189.91  Aligned_cols=147  Identities=18%  Similarity=0.263  Sum_probs=114.6

Q ss_pred             CCCCCCHHHHHHHHHcCC-CCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh
Q psy3029         113 FWLGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY  191 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~-~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~  191 (617)
                      |.+|||||||+++|++.. +...+.||+|..+...    ....+.+.+|||+|++++..++..+++++|++|+|+|++++
T Consensus         6 G~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~~----~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   81 (162)
T cd04157           6 GLDNSGKTTIINQLKPENAQSQIIVPTVGFNVESF----EKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDR   81 (162)
T ss_pred             CCCCCCHHHHHHHHcccCCCcceecCccccceEEE----EECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcH
Confidence            339999999999999875 3567889988664332    23467899999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcC---CCCCeEEEEEECCCCCCccccCHHHHHHHHH-----hcCCeEEEEcCCCCCCHHHHHHHH
Q psy3029         192 HSFAAIKTWVKELKRNV---DEPLVLCVVGNKTDLESSREVNREEAFHYSK-----SIGGTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       192 ~S~~~l~~~l~~i~~~~---~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~-----~~g~~~~evSAktg~gI~eLf~~I  263 (617)
                      .++..+..|+..+.+..   ..++|++||+||+|+.....  .++......     ...+.++++||++|.|++++|++|
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~--~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l  159 (162)
T cd04157          82 LRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALT--AVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWL  159 (162)
T ss_pred             HHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCC--HHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHH
Confidence            99988888888775532   24689999999999865321  222222211     122368999999999999999998


Q ss_pred             HH
Q psy3029         264 SK  265 (617)
Q Consensus       264 ~~  265 (617)
                      .+
T Consensus       160 ~~  161 (162)
T cd04157         160 QA  161 (162)
T ss_pred             hc
Confidence            64

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>PTZ00099 rab6; Provisional

Probab=99.88  E-value=1.4e-21  Score=188.07  Aligned_cols=142  Identities=36%  Similarity=0.644  Sum_probs=129.3

Q ss_pred             CCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC
Q psy3029         129 KMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV  208 (617)
Q Consensus       129 ~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~  208 (617)
                      +.|...+.||+|.++..+.+.+++..+.+.||||+|++++..++..|++++|++|+|||++++.+|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45677899999999988888999999999999999999999999999999999999999999999999999999987765


Q ss_pred             CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         209 DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       209 ~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ...+|++||+||+||...+.+..+++..++..+++.|+++||++|.||+++|++|++.+.+.
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~  144 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNL  144 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            55689999999999977677888888899998999999999999999999999999888653

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.88  E-value=7.8e-22  Score=216.13  Aligned_cols=212  Identities=21%  Similarity=0.208  Sum_probs=145.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc--------ccccccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ--------ERFRSMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~--------e~~~~~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++.+ .+.+.+.+|.++......+......+.+|||||.        +.+..+...+++++|++|+|+
T Consensus         8 ~nvGKStL~n~l~~~~-~~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vv   86 (429)
T TIGR03594         8 PNVGKSTLFNRLTGKR-DAIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVV   86 (429)
T ss_pred             CCCCHHHHHHHHhCCC-cceecCCCCcccCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEE
Confidence            9999999999999876 3344455566554444333333456999999996        334455667888999999999


Q ss_pred             eCCChhhHHH--HHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHH
Q psy3029         187 DITQYHSFAA--IKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       187 Dis~~~S~~~--l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I  263 (617)
                      |..++.+..+  +.+|+..      ..+|+++|+||+|+......    ..++ ..+++ +++++||++|.|++++++.+
T Consensus        87 D~~~~~~~~d~~i~~~l~~------~~~piilVvNK~D~~~~~~~----~~~~-~~lg~~~~~~vSa~~g~gv~~ll~~i  155 (429)
T TIGR03594        87 DGREGLTPEDEEIAKWLRK------SGKPVILVANKIDGKKEDAV----AAEF-YSLGFGEPIPISAEHGRGIGDLLDAI  155 (429)
T ss_pred             eCCCCCCHHHHHHHHHHHH------hCCCEEEEEECccCCccccc----HHHH-HhcCCCCeEEEeCCcCCChHHHHHHH
Confidence            9987654332  3344432      23699999999998653321    2223 35666 79999999999999999998


Q ss_pred             HHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeeccccc
Q psy3029         264 SKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGK  343 (617)
Q Consensus       264 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~~vGK  343 (617)
                      ...+......                                  ........+++++|++                ++||
T Consensus       156 ~~~l~~~~~~----------------------------------~~~~~~~~~v~ivG~~----------------~~GK  185 (429)
T TIGR03594       156 LELLPEEEEE----------------------------------EEEEDGPIKIAIIGRP----------------NVGK  185 (429)
T ss_pred             HHhcCccccc----------------------------------ccccCCceEEEEECCC----------------CCCH
Confidence            7765221000                                  0000123578888888                9999


Q ss_pred             ccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         344 TSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       344 ssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      |+++++++.... .....+++..+.....+..+++.+.|--++|+.
T Consensus       186 SsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~  231 (429)
T TIGR03594       186 STLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIR  231 (429)
T ss_pred             HHHHHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECCCcc
Confidence            999999997653 233345566677677888888888777676664

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.87  E-value=1.4e-21  Score=214.61  Aligned_cols=210  Identities=20%  Similarity=0.212  Sum_probs=143.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCccee--EEEEEEEECCeEEEEEEEecCCccc--------ccccchhhhccCCEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGAS--FFTAKINVGENKVKLQVWDTAGQER--------FRSMAPMYYRNANAALL  184 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~--~~~~~i~~~~~~~~l~i~Dt~G~e~--------~~~~~~~~~~~ad~iIl  184 (617)
                      +|||||||+|+|++.+. ..+...+|.+  +....+.+++  ..+.+|||+|.+.        +......++..+|++|+
T Consensus        10 ~~vGKStL~n~l~~~~~-~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~   86 (435)
T PRK00093         10 PNVGKSTLFNRLTGKRD-AIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILF   86 (435)
T ss_pred             CCCCHHHHHHHHhCCCc-eeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEE
Confidence            99999999999998763 2233344443  3333444444  7899999999876        23334567889999999


Q ss_pred             EEeCCChhhHH--HHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHH
Q psy3029         185 VFDITQYHSFA--AIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFL  261 (617)
Q Consensus       185 V~Dis~~~S~~--~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~  261 (617)
                      |+|++++.+..  .+.+|+...      ++|+++|+||+|+...    .+...++ ..+++ .++++||++|.|++++++
T Consensus        87 vvd~~~~~~~~~~~~~~~l~~~------~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~gv~~l~~  155 (435)
T PRK00093         87 VVDGRAGLTPADEEIAKILRKS------NKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGRGIGDLLD  155 (435)
T ss_pred             EEECCCCCCHHHHHHHHHHHHc------CCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCCCHHHHHH
Confidence            99998864432  234454432      4799999999997431    1222333 34566 489999999999999999


Q ss_pred             HHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeeccc
Q psy3029         262 NVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGV  341 (617)
Q Consensus       262 ~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~~v  341 (617)
                      .|........   .               .               ..  ....++++++|++                ++
T Consensus       156 ~I~~~~~~~~---~---------------~---------------~~--~~~~~~v~ivG~~----------------n~  184 (435)
T PRK00093        156 AILEELPEEE---E---------------E---------------DE--EDEPIKIAIIGRP----------------NV  184 (435)
T ss_pred             HHHhhCCccc---c---------------c---------------cc--cccceEEEEECCC----------------CC
Confidence            9876221000   0               0               00  1124778888888                99


Q ss_pred             ccccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecCCCc
Q psy3029         342 GKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTGLKV  389 (617)
Q Consensus       342 GKssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~  389 (617)
                      |||+++++++... ......+++..+.....+..++..+.|--++|+..
T Consensus       185 GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~  233 (435)
T PRK00093        185 GKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRR  233 (435)
T ss_pred             CHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCC
Confidence            9999999999654 34445566667777777888888888877777643

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.87  E-value=1.6e-21  Score=225.50  Aligned_cols=217  Identities=20%  Similarity=0.222  Sum_probs=148.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc--------ccccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER--------FRSMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~--------~~~~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++.+. +.+.+++|+++.............+.+|||+|.+.        +......++..+|++|+|+
T Consensus       284 ~nvGKSSL~n~l~~~~~-~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~Vv  362 (712)
T PRK09518        284 PNVGKSTLVNRILGRRE-AVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVV  362 (712)
T ss_pred             CCCCHHHHHHHHhCCCc-eeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEE
Confidence            99999999999998763 44556777776665544433346789999999763        2334456788999999999


Q ss_pred             eCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHH
Q psy3029         187 DITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       187 Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~  264 (617)
                      |+++...  ..+ .|+..+..   .++|+++|+||+|+....    .....+. .++. ..+++||++|.||++++++|+
T Consensus       363 Da~~~~~--~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~~~----~~~~~~~-~lg~~~~~~iSA~~g~GI~eLl~~i~  432 (712)
T PRK09518        363 DGQVGLT--STDERIVRMLRR---AGKPVVLAVNKIDDQASE----YDAAEFW-KLGLGEPYPISAMHGRGVGDLLDEAL  432 (712)
T ss_pred             ECCCCCC--HHHHHHHHHHHh---cCCCEEEEEECcccccch----hhHHHHH-HcCCCCeEEEECCCCCCchHHHHHHH
Confidence            9986432  222 34444443   347999999999985421    1222222 2333 467899999999999999998


Q ss_pred             HHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeecccccc
Q psy3029         265 KGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKT  344 (617)
Q Consensus       265 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKs  344 (617)
                      +.+......                   . ..  ..+          ....+++++|+|                ++|||
T Consensus       433 ~~l~~~~~~-------------------~-~a--~~~----------~~~~kI~ivG~~----------------nvGKS  464 (712)
T PRK09518        433 DSLKVAEKT-------------------S-GF--LTP----------SGLRRVALVGRP----------------NVGKS  464 (712)
T ss_pred             Hhccccccc-------------------c-cc--cCC----------CCCcEEEEECCC----------------CCCHH
Confidence            866321000                   0 00  000          012578888888                99999


Q ss_pred             cceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCCCce
Q psy3029         345 SMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGLKVS  390 (617)
Q Consensus       345 si~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~~  390 (617)
                      |++++++...+. ....|+++.++....+.+++..+.|--++|+..+
T Consensus       465 SLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~~~  511 (712)
T PRK09518        465 SLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIKRR  511 (712)
T ss_pred             HHHHHHhCccccccCCCCCCCcCcceeEEEECCCEEEEEECCCcccC
Confidence            999999987642 2234555677878888999998888777887543

>PLN00023 GTP-binding protein; Provisional

Probab=99.87  E-value=1.8e-21  Score=200.66  Aligned_cols=139  Identities=24%  Similarity=0.453  Sum_probs=121.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC----------
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE----------  152 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~----------  152 (617)
                      ..+||+|+|+                      .|||||||+++|+++.|...+.+|+|.++..+.+.+++          
T Consensus        20 ~~iKIVLLGd----------------------sGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~   77 (334)
T PLN00023         20 GQVRVLVVGD----------------------SGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKG   77 (334)
T ss_pred             cceEEEEECC----------------------CCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccc
Confidence            4479999999                      99999999999999999888999999998777776642          


Q ss_pred             ---eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC------------CCCeEEEE
Q psy3029         153 ---NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD------------EPLVLCVV  217 (617)
Q Consensus       153 ---~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~------------~~iPvIlV  217 (617)
                         ..+.++||||+|+++|..++..|+++++++|+|||++++.+|+.+.+|+..+.....            .++|++||
T Consensus        78 d~~k~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILV  157 (334)
T PLN00023         78 DSERDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVI  157 (334)
T ss_pred             cCCceEEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEE
Confidence               468899999999999999999999999999999999999999999999999987531            25899999


Q ss_pred             EECCCCCCcc---c---cCHHHHHHHHHhcCC
Q psy3029         218 GNKTDLESSR---E---VNREEAFHYSKSIGG  243 (617)
Q Consensus       218 gNK~DL~~~~---~---v~~~e~~~~~~~~g~  243 (617)
                      |||+||..++   .   +..+++++||+++++
T Consensus       158 GNK~DL~~~~~~r~~s~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        158 GNKADIAPKEGTRGSSGNLVDAARQWVEKQGL  189 (334)
T ss_pred             EECccccccccccccccccHHHHHHHHHHcCC
Confidence            9999996543   2   357889999999875

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.87  E-value=3e-21  Score=185.28  Aligned_cols=144  Identities=26%  Similarity=0.367  Sum_probs=113.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.+.+.. +.+|+|.++..  +.+  ..+.+.+||++|++++...+..+++++|++|+|||++++.++
T Consensus        24 ~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~~--~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~   98 (174)
T cd04153          24 DNAGKTTILYQFLLGEVVH-TSPTIGSNVEE--IVY--KNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERL   98 (174)
T ss_pred             CCCCHHHHHHHHccCCCCC-cCCccccceEE--EEE--CCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            9999999999999888764 67888876543  223  357899999999999998999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHH-HHH----HhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAF-HYS----KSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~-~~~----~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      ..+..|+..+.+.. ...+|++||+||+|+...  ...++.. .+.    ...+++++++||++|.||+++|++|.+
T Consensus        99 ~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153          99 PLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             HHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence            88888777765432 235799999999998642  2233322 221    234457999999999999999999864

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.87  E-value=1.7e-21  Score=183.34  Aligned_cols=147  Identities=20%  Similarity=0.329  Sum_probs=114.1

Q ss_pred             CCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh
Q psy3029         113 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH  192 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~  192 (617)
                      |.+|||||||+++|.++.+. .+.||++.++..  +.+ ...+.+.+||++|++++..++..++.++|++|+|+|++++.
T Consensus         6 G~~~~GKTsl~~~~~~~~~~-~~~~t~~~~~~~--~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~   81 (160)
T cd04156           6 GLDSAGKSTLLYKLKHAELV-TTIPTVGFNVEM--LQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEA   81 (160)
T ss_pred             cCCCCCHHHHHHHHhcCCcc-cccCccCcceEE--EEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHH
Confidence            33999999999999998875 456888765433  333 34578999999999999888999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHH------HHhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         193 SFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHY------SKSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       193 S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~------~~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      ++..+..|+..+.+.. ..++|++||+||+|+...  ...++....      +...+++++++||++|+||+++|++|.+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156          82 RLDESQKELKHILKNEHIKGVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             HHHHHHHHHHHHHhchhhcCCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence            9999988888875532 245899999999998532  122222222      2223457999999999999999999854

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.87  E-value=1.2e-21  Score=186.76  Aligned_cols=146  Identities=20%  Similarity=0.273  Sum_probs=116.1

Q ss_pred             CCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh
Q psy3029         113 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH  192 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~  192 (617)
                      |.+|||||||+++|.+. +...+.||+|....  .+..  ..+.+++||++|++++..++..|++++|++|+|||++++.
T Consensus         6 G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~   80 (167)
T cd04161           6 GLDNAGKTTLVSALQGE-IPKKVAPTVGFTPT--KLRL--DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDD   80 (167)
T ss_pred             CCCCCCHHHHHHHHhCC-CCccccCcccceEE--EEEE--CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchh
Confidence            33999999999999977 67788899987533  3333  4578999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHH------HHHHHhcC--CeEEEEcCCCC------CCHH
Q psy3029         193 SFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEA------FHYSKSIG--GTYYETSALQD------QGIE  257 (617)
Q Consensus       193 S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~------~~~~~~~g--~~~~evSAktg------~gI~  257 (617)
                      +|..+..|+..+..... ..+|++||+||+|+...+.  ..+.      ..++++.+  +.+++|||++|      .|++
T Consensus        81 s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~--~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~  158 (167)
T cd04161          81 RVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALL--GADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIV  158 (167)
T ss_pred             HHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCC--HHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHH
Confidence            99999999998876432 4579999999999965432  1111      22332233  46888999998      8999


Q ss_pred             HHHHHHHH
Q psy3029         258 DVFLNVSK  265 (617)
Q Consensus       258 eLf~~I~~  265 (617)
                      +.|+||..
T Consensus       159 ~~~~wl~~  166 (167)
T cd04161         159 EGLRWLLA  166 (167)
T ss_pred             HHHHHHhc
Confidence            99999864

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04151 Arl1 Arl1 subfamily

Probab=99.86  E-value=1.7e-21  Score=183.52  Aligned_cols=144  Identities=26%  Similarity=0.333  Sum_probs=109.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|..+.+. .+.+|++.++..  +.  ...+.+++|||+|++++..+++.+++.+|++|+|+|++++.++
T Consensus         8 ~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~~--~~--~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~   82 (158)
T cd04151           8 DNAGKTTILYRLQLGEVV-TTIPTIGFNVET--VT--YKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRL   82 (158)
T ss_pred             CCCCHHHHHHHHccCCCc-CcCCccCcCeEE--EE--ECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHH
Confidence            999999999999887764 456888776543  22  2457899999999999999999999999999999999998888


Q ss_pred             HHHHHHHHHHHh-cCCCCCeEEEEEECCCCCCccccCHHHHHHHH-----HhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEAFHYS-----KSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~-~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~-----~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      ....+|+..+.+ ....++|++||+||+|+....  ...+.....     ...+++++++||++|.|++++|++|++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151          83 GTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             HHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            777666655433 222357999999999986432  122222111     112347999999999999999999864

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>cd00879 Sar1 Sar1 subfamily

Probab=99.86  E-value=4.9e-21  Score=186.01  Aligned_cols=154  Identities=20%  Similarity=0.292  Sum_probs=123.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      +.||+++|+                      +|||||||+++|.++.+ ..+.+|.+....  .+.++  .+.+.+||++
T Consensus        19 ~~ki~ilG~----------------------~~~GKStLi~~l~~~~~-~~~~~T~~~~~~--~i~~~--~~~~~l~D~~   71 (190)
T cd00879          19 EAKILFLGL----------------------DNAGKTTLLHMLKDDRL-AQHVPTLHPTSE--ELTIG--NIKFKTFDLG   71 (190)
T ss_pred             CCEEEEECC----------------------CCCCHHHHHHHHhcCCC-cccCCccCcceE--EEEEC--CEEEEEEECC
Confidence            468889998                      99999999999998876 467778776543  34444  3678999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHh--
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKS--  240 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~--  240 (617)
                      |++++..++..+++.+|++++|+|+++..+|.....|+..+.+... .+.|++||+||+|+..  .+..++...+...  
T Consensus        72 G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~  149 (190)
T cd00879          72 GHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYG  149 (190)
T ss_pred             CCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCccc
Confidence            9999888889999999999999999999999888888888765432 4579999999999853  3455566555532  


Q ss_pred             --------------cCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         241 --------------IGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       241 --------------~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                                    ..+.+++|||++|+|++++|++|.+.
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         150 TTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             ccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence                          22468999999999999999999764

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.86  E-value=3.6e-21  Score=180.94  Aligned_cols=144  Identities=23%  Similarity=0.304  Sum_probs=115.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||++++++.. ...+.++.+.++....  +  ..+.+.+||++|++.+..++..+++.+|++++|||++++.++
T Consensus         8 ~~~GKssli~~~~~~~-~~~~~~t~~~~~~~~~--~--~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~   82 (158)
T cd00878           8 DGAGKTTILYKLKLGE-VVTTIPTIGFNVETVE--Y--KNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERI   82 (158)
T ss_pred             CCCCHHHHHHHHhcCC-CCCCCCCcCcceEEEE--E--CCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            9999999999999887 4567788887654433  2  357899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH-----hcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK-----SIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~-----~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      ..+..|+..+.... ....|+++|+||+|+....  ..++......     ...++++++||++|.|++++|++|..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878          83 EEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             HHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            99988888776643 2457999999999986543  2223333322     23458999999999999999999864

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.86  E-value=9.9e-21  Score=179.46  Aligned_cols=145  Identities=28%  Similarity=0.390  Sum_probs=113.4

Q ss_pred             CCCCHHHHHHHHHcCCC------CCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeC
Q psy3029         115 LGVGKTSMVVRYIGKMF------SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDI  188 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~------~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Di  188 (617)
                      +|||||||+++|++...      ...+.+|++.++...  .++  ...+.+|||+|++.+..++..+++.+|++++|+|+
T Consensus         8 ~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~--~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~   83 (167)
T cd04160           8 DNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTI--EVG--NARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDS   83 (167)
T ss_pred             CCCCHHHHHHHHhhhcccccCCcccccCCccccceEEE--EEC--CEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEEC
Confidence            99999999999976421      335567777765433  333  57899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHh-------cCCeEEEEcCCCCCCHHHHH
Q psy3029         189 TQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKS-------IGGTYYETSALQDQGIEDVF  260 (617)
Q Consensus       189 s~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-------~g~~~~evSAktg~gI~eLf  260 (617)
                      +++.++..+..|+..+.+.. ..++|++||+||+|+...  ...++...+...       .+++++++||++|.|+++++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~  161 (167)
T cd04160          84 TDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGI  161 (167)
T ss_pred             chHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHH
Confidence            99888988888888776542 245899999999998643  334444444432       23589999999999999999


Q ss_pred             HHHHH
Q psy3029         261 LNVSK  265 (617)
Q Consensus       261 ~~I~~  265 (617)
                      ++|.+
T Consensus       162 ~~l~~  166 (167)
T cd04160         162 EWLVE  166 (167)
T ss_pred             HHHhc
Confidence            99864

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.84  E-value=4e-20  Score=179.28  Aligned_cols=156  Identities=17%  Similarity=0.205  Sum_probs=121.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|.                      +|||||||+++|.++.+. .+.||.+.+...  +.+  ..+.+.+||
T Consensus        15 ~~~~~i~ivG~----------------------~~~GKTsli~~l~~~~~~-~~~~t~~~~~~~--~~~--~~~~~~~~D   67 (184)
T smart00178       15 NKHAKILFLGL----------------------DNAGKTTLLHMLKNDRLA-QHQPTQHPTSEE--LAI--GNIKFTTFD   67 (184)
T ss_pred             cccCEEEEECC----------------------CCCCHHHHHHHHhcCCCc-ccCCccccceEE--EEE--CCEEEEEEE
Confidence            34578999998                      999999999999988754 456777665433  223  347899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      ++|++++..++..++.++|++|+|+|++++.++.....|+..+.+.. ..++|++||+||+|+..  .+..+++.+....
T Consensus        68 ~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l  145 (184)
T smart00178       68 LGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRYALGL  145 (184)
T ss_pred             CCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHHHcCC
Confidence            99999998899999999999999999999999988888877765432 23579999999999853  3444544433211


Q ss_pred             ------------cCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         241 ------------IGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       241 ------------~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                                  ....+++|||++|.|+++++++|.++
T Consensus       146 ~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      146 TNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             CcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence                        12368999999999999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd01890 LepA LepA subfamily

Probab=99.84  E-value=5.1e-20  Score=176.72  Aligned_cols=147  Identities=20%  Similarity=0.240  Sum_probs=110.2

Q ss_pred             CCCCHHHHHHHHHcCC-------CCCccCC------CcceeEEEEEEEE-----CCeEEEEEEEecCCcccccccchhhh
Q psy3029         115 LGVGKTSMVVRYIGKM-------FSHHISP------TIGASFFTAKINV-----GENKVKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~-------~~~~~~~------t~g~~~~~~~i~~-----~~~~~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      ++||||||+++|++..       +...+.+      +.|.++....+.+     ++..+.+.||||+|++++..++..++
T Consensus         9 ~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   88 (179)
T cd01890           9 IDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFSYEVSRSL   88 (179)
T ss_pred             cCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhHHHHHHHH
Confidence            9999999999998632       2223333      3355555444333     56778999999999999999999999


Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC---eEEEEcCCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG---TYYETSALQD  253 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~---~~~evSAktg  253 (617)
                      +.+|++|+|||+++..++..+..|.... .   .++|+++|+||+|+....  ..+...++++.+++   .++++||++|
T Consensus        89 ~~ad~~i~v~D~~~~~~~~~~~~~~~~~-~---~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g  162 (179)
T cd01890          89 AACEGALLLVDATQGVEAQTLANFYLAL-E---NNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAILVSAKTG  162 (179)
T ss_pred             HhcCeEEEEEECCCCccHhhHHHHHHHH-H---cCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEEEeeccCC
Confidence            9999999999999877777666664332 2   347999999999986432  12223456666666   4899999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGL  267 (617)
Q Consensus       254 ~gI~eLf~~I~~~l  267 (617)
                      .|++++|++|.+.+
T Consensus       163 ~gi~~l~~~l~~~~  176 (179)
T cd01890         163 LGVEDLLEAIVERI  176 (179)
T ss_pred             CCHHHHHHHHHhhC
Confidence            99999999998754

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.84  E-value=3.2e-20  Score=172.91  Aligned_cols=148  Identities=30%  Similarity=0.381  Sum_probs=116.4

Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY  191 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~  191 (617)
                      +|++|||||||+++|.+..+...+.++.+.++..  +..  ..+.+.+||++|++++..++..++..+|++++|+|++++
T Consensus         5 ~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~--~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~   80 (159)
T cd04159           5 VGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTK--GNVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADR   80 (159)
T ss_pred             EcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEE--CCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCH
Confidence            3339999999999999999988899999877643  333  237899999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH-----HhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         192 HSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS-----KSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       192 ~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~-----~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      .++..+..|+..+.... ...+|+++|+||+|+.....  .++.....     ....++++++||++|.|+++++++|.+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159          81 TALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             HHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            88888877777765432 24579999999999865432  22222111     122357899999999999999999864

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.82  E-value=3.1e-19  Score=171.71  Aligned_cols=157  Identities=25%  Similarity=0.377  Sum_probs=125.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|.                      .|+|||||++++..+.+ ..+.||.|.+....  .+  ..+.+.+||
T Consensus        12 ~~~~~ililGl----------------------~~sGKTtll~~l~~~~~-~~~~pT~g~~~~~i--~~--~~~~~~~~d   64 (175)
T PF00025_consen   12 KKEIKILILGL----------------------DGSGKTTLLNRLKNGEI-SETIPTIGFNIEEI--KY--KGYSLTIWD   64 (175)
T ss_dssp             TSEEEEEEEES----------------------TTSSHHHHHHHHHSSSE-EEEEEESSEEEEEE--EE--TTEEEEEEE
T ss_pred             CcEEEEEEECC----------------------CccchHHHHHHhhhccc-cccCccccccccee--ee--CcEEEEEEe
Confidence            45678999998                      99999999999998764 35778988765443  33  447799999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH-
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK-  239 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~-  239 (617)
                      .+|+..+..+++.|+.++|++|||+|.++...+.+..+.+..+.... ...+|++|++||+|+...  ...+++..... 
T Consensus        65 ~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~--~~~~~i~~~l~l  142 (175)
T PF00025_consen   65 LGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA--MSEEEIKEYLGL  142 (175)
T ss_dssp             ESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS--STHHHHHHHTTG
T ss_pred             ccccccccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc--chhhHHHhhhhh
Confidence            99999999999999999999999999999988888887777765532 246899999999998643  34444443332 


Q ss_pred             -----hcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         240 -----SIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       240 -----~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                           ...+.++.|||.+|+|+.+.++||.+.+
T Consensus       143 ~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  143 EKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             GGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             hhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence                 2234789999999999999999998764

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.82  E-value=2.3e-19  Score=170.24  Aligned_cols=148  Identities=19%  Similarity=0.117  Sum_probs=100.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccccc---------chhhhccCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSM---------APMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~---------~~~~~~~ad~iIlV  185 (617)
                      +|||||||+++|++..+.....  .+.+.......+....+.+.||||+|+......         .......+|++|+|
T Consensus         9 ~~~GKssli~~l~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l~v   86 (168)
T cd01897           9 PNVGKSSLVNKLTRAKPEVAPY--PFTTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVLFL   86 (168)
T ss_pred             CCCCHHHHHHHHhcCCCccCCC--CCcccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEEEE
Confidence            9999999999999887632211  111111111122334578999999998421110         11111236899999


Q ss_pred             EeCCChhhH--HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHH
Q psy3029         186 FDITQYHSF--AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       186 ~Dis~~~S~--~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I  263 (617)
                      +|++++.++  .....|+..+.... .++|+++|+||+|+.....+..  ..++....+.+++++||++|.|+++++++|
T Consensus        87 ~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  163 (168)
T cd01897          87 FDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEGVDEVKNKA  163 (168)
T ss_pred             EeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCCHHHHHHHH
Confidence            999987653  55567888876644 3579999999999975444322  445555566789999999999999999999


Q ss_pred             HHHH
Q psy3029         264 SKGL  267 (617)
Q Consensus       264 ~~~l  267 (617)
                      .+.+
T Consensus       164 ~~~~  167 (168)
T cd01897         164 CELL  167 (168)
T ss_pred             HHHh
Confidence            8765

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.82  E-value=7.9e-19  Score=162.47  Aligned_cols=149  Identities=29%  Similarity=0.470  Sum_probs=120.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh-hh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY-HS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~-~S  193 (617)
                      +|+|||||+++|....+...+.++.+.++....+..++..+.+.+||++|+.++..++..++.+++.+++++|+... .+
T Consensus        10 ~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~   89 (161)
T TIGR00231        10 PNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLD   89 (161)
T ss_pred             CCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehh
Confidence            99999999999999887777778888887776677777668999999999999988888899999999999999887 66


Q ss_pred             HHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         194 FAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       194 ~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                      +.... .|+..+........|+++|+||+|+.... ...+....+......+++++||+++.|+++++++|.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231        90 VEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             hhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHhh
Confidence            76655 67777766554468999999999996543 223333333344456899999999999999998863

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>KOG3905|consensus

Probab=99.81  E-value=4.6e-20  Score=184.37  Aligned_cols=256  Identities=16%  Similarity=0.277  Sum_probs=198.2

Q ss_pred             EEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC--eEEEEEEEecC
Q psy3029          86 KVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE--NKVKLQVWDTA  163 (617)
Q Consensus        86 kV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~--~~~~l~i~Dt~  163 (617)
                      .|+++|+                      .++||||||.+|.+.   +.+.+..|..|....++.+.  ...++.+|-..
T Consensus        54 ~VlvlGd----------------------n~sGKtsLi~klqg~---e~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLD  108 (473)
T KOG3905|consen   54 NVLVLGD----------------------NGSGKTSLISKLQGS---ETVKKGSGLEYLYLHVHDEDRDDLTRCNVWILD  108 (473)
T ss_pred             eEEEEcc----------------------CCCchhHHHHHhhcc---cccCCCCCcceEEEecccccchhhhhcceEEec
Confidence            7999999                      999999999999874   46777778877666655433  34678899888


Q ss_pred             Ccccccccchhhhcc----CCEEEEEEeCCChhh-HHHHHHHHHHHHhcCCC----------------------------
Q psy3029         164 GQERFRSMAPMYYRN----ANAALLVFDITQYHS-FAAIKTWVKELKRNVDE----------------------------  210 (617)
Q Consensus       164 G~e~~~~~~~~~~~~----ad~iIlV~Dis~~~S-~~~l~~~l~~i~~~~~~----------------------------  210 (617)
                      |......+...++..    -.++||+.|+++|+. ++.+.+|..-+.++..+                            
T Consensus       109 Gd~~h~~LLk~al~ats~aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~  188 (473)
T KOG3905|consen  109 GDLYHKGLLKFALPATSLAETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGED  188 (473)
T ss_pred             CchhhhhHHhhcccccCccceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCcccc
Confidence            887666666666543    257899999999975 67788887655432210                            


Q ss_pred             ---------------------------------CCeEEEEEECCCCC----Cccc-------cCHHHHHHHHHhcCCeEE
Q psy3029         211 ---------------------------------PLVLCVVGNKTDLE----SSRE-------VNREEAFHYSKSIGGTYY  246 (617)
Q Consensus       211 ---------------------------------~iPvIlVgNK~DL~----~~~~-------v~~~e~~~~~~~~g~~~~  246 (617)
                                                       .+|++||+||||+.    .+.+       .....+++||..+|...|
T Consensus       189 ~pgsp~~r~t~~~~~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLi  268 (473)
T KOG3905|consen  189 QPGSPQRRTTVVGSSADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALI  268 (473)
T ss_pred             CCCCcccccccccCccccccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeE
Confidence                                             08999999999982    2222       123456789999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCC
Q psy3029         247 ETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINS  326 (617)
Q Consensus       247 evSAktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s  326 (617)
                      .+|+|...||+-|+.+|.+.++.....                                 +|++..+...|+|.+     
T Consensus       269 yTSvKE~KNidllyKYivhr~yG~~ft---------------------------------tpAlVVEkdaVfIPA-----  310 (473)
T KOG3905|consen  269 YTSVKETKNIDLLYKYIVHRSYGFPFT---------------------------------TPALVVEKDAVFIPA-----  310 (473)
T ss_pred             EeecccccchHHHHHHHHHHhcCcccC---------------------------------CcceEeecceeEecc-----
Confidence            999999999999999999988765421                                 344455555677766     


Q ss_pred             CCCcceeeeeeecccccccceecccc-----CcccCcc-CCccceeeEEEEEEECCEEEEEEeecCCCceeeeccC-CCC
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIG-----KMFSHHI-SPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPT-RNR  399 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~-----~~f~~~~-~pTIg~df~~k~v~~d~~~v~LqI~~~~~~~~~~~~~-r~~  399 (617)
                                ||++..|..|++..+.     +.|.+.+ .|.+..-.+.+.|+.++.++.|+-++.++++++++++ |+.
T Consensus       311 ----------GWD~eKKI~Il~En~~~vkaed~y~d~itkpp~Rk~v~ekei~aEddQaFL~k~q~iLak~~~t~a~rp~  380 (473)
T KOG3905|consen  311 ----------GWDNEKKIDILHENFPTVKAEDNYEDIITKPPVRKVVHEKEIEAEDDQAFLMKLQSILAKQPTTAAPRPR  380 (473)
T ss_pred             ----------CCCccccchhhhhcCCCCCccccccccccCCcchhhhhhhhhhcchHHHHHHHHHHHHhcCCCCCCCCcc
Confidence                      9999999999998874     3444433 4777777778999999999999999999999999999 999


Q ss_pred             CCCCCCCCCCCCCCC
Q psy3029         400 EGATTGRITEPDTMN  414 (617)
Q Consensus       400 ~g~~~~~~~~~~~~~  414 (617)
                      ...++++.++|++..
T Consensus       381 ~sq~~~~~ksprtpg  395 (473)
T KOG3905|consen  381 TSQERGPDKSPRTPG  395 (473)
T ss_pred             cccCCCCCCCCCCCC
Confidence            999999999988864

>KOG1673|consensus

Probab=99.81  E-value=8e-20  Score=164.52  Aligned_cols=165  Identities=27%  Similarity=0.532  Sum_probs=146.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      -.+||.++|+                      +.+|||||+-++.++.+.+.+..+.|+.+..+.+.+.+..+.+.|||.
T Consensus        19 Vslkv~llGD----------------------~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdl   76 (205)
T KOG1673|consen   19 VSLKVGLLGD----------------------AQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDL   76 (205)
T ss_pred             eEEEEEeecc----------------------cccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEec
Confidence            3579999999                      999999999999999988889999999999999999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc-----cccCHHHHHHH
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS-----REVNREEAFHY  237 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~-----~~v~~~e~~~~  237 (617)
                      +|++++..+++.+.+.+-+++|+||++.+.++..+.+|+.+........+|+ +||+|.|+.-.     .+-...+++.+
T Consensus        77 gG~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiPi-lvGTKyD~fi~lp~e~Q~~I~~qar~Y  155 (205)
T KOG1673|consen   77 GGQREFINMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIPI-LVGTKYDLFIDLPPELQETISRQARKY  155 (205)
T ss_pred             CCcHhhhccCceeecCcEEEEEEEecCchHHHHHHHHHHHHHhccCCccceE-EeccchHhhhcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988877666775 89999997311     11112356788


Q ss_pred             HHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         238 SKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       238 ~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++.++...|.||+.++.||..+|..+..++...
T Consensus       156 Ak~mnAsL~F~Sts~sINv~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  156 AKVMNASLFFCSTSHSINVQKIFKIVLAKLFNL  188 (205)
T ss_pred             HHHhCCcEEEeeccccccHHHHHHHHHHHHhCC
Confidence            999999999999999999999999998887654

>cd01898 Obg Obg subfamily

Probab=99.81  E-value=2.5e-19  Score=170.24  Aligned_cols=152  Identities=19%  Similarity=0.148  Sum_probs=104.8

Q ss_pred             CCCCCCCCHHHHHHHHHcCCCCCcc--CCCcceeEEEEEEEECCeEEEEEEEecCCcc----cccccchhhhc---cCCE
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMFSHHI--SPTIGASFFTAKINVGENKVKLQVWDTAGQE----RFRSMAPMYYR---NANA  181 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~~~~~--~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e----~~~~~~~~~~~---~ad~  181 (617)
                      |+|.+|||||||+++|.+.......  ..|....+  ..+...+ ...+.+|||||+.    .+..+...+++   .+|+
T Consensus         5 ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~--~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~   81 (170)
T cd01898           5 LVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNL--GVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRL   81 (170)
T ss_pred             EECCCCCCHHHHHHHHhcCCccccCCCccccCCcc--eEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCCE
Confidence            3333999999999999976532111  11211111  1122222 2479999999973    22234444444   5999


Q ss_pred             EEEEEeCCCh-hhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHh-cCCeEEEEcCCCCCCHH
Q psy3029         182 ALLVFDITQY-HSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKS-IGGTYYETSALQDQGIE  257 (617)
Q Consensus       182 iIlV~Dis~~-~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-~g~~~~evSAktg~gI~  257 (617)
                      +++|+|++++ .+++.+..|+..+.....  ..+|+++|+||+|+...... .+....+... .+.+++++||+++.|++
T Consensus        82 vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  160 (170)
T cd01898          82 LLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGLD  160 (170)
T ss_pred             EEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCHH
Confidence            9999999999 789999999888876542  35799999999998654443 2334445555 36789999999999999


Q ss_pred             HHHHHHHHH
Q psy3029         258 DVFLNVSKG  266 (617)
Q Consensus       258 eLf~~I~~~  266 (617)
                      ++|++|.+.
T Consensus       161 ~l~~~i~~~  169 (170)
T cd01898         161 ELLRKLAEL  169 (170)
T ss_pred             HHHHHHHhh
Confidence            999998764

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.81  E-value=9e-20  Score=168.51  Aligned_cols=127  Identities=20%  Similarity=0.247  Sum_probs=94.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc-----cccccchhhhccCCEEEEEEeCC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE-----RFRSMAPMYYRNANAALLVFDIT  189 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e-----~~~~~~~~~~~~ad~iIlV~Dis  189 (617)
                      +|||||||+++|++..+  .+.+|.+.++.            -.+|||+|+.     .+..+. .+++++|++|+|||++
T Consensus         9 ~~vGKSsL~~~l~~~~~--~~~~t~~~~~~------------~~~iDt~G~~~~~~~~~~~~~-~~~~~ad~vilv~d~~   73 (142)
T TIGR02528         9 VGCGKTTLTQALQGEEI--LYKKTQAVEYN------------DGAIDTPGEYVENRRLYSALI-VTAADADVIALVQSAT   73 (142)
T ss_pred             CCCCHHHHHHHHcCCcc--ccccceeEEEc------------CeeecCchhhhhhHHHHHHHH-HHhhcCCEEEEEecCC
Confidence            99999999999998765  34455443321            1689999972     233333 3578999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHH
Q psy3029         190 QYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       190 ~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~  264 (617)
                      ++.++.. ..|+..+    .  .|+++|+||+|+.+ +....++..++++..+. +++++||++|.|++++|++|.
T Consensus        74 ~~~s~~~-~~~~~~~----~--~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528        74 DPESRFP-PGFASIF----V--KPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             CCCcCCC-hhHHHhc----c--CCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            9988754 3454322    1  38999999999864 33455666777877776 899999999999999998874

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>cd04155 Arl3 Arl3 subfamily

Probab=99.81  E-value=6.1e-19  Score=168.27  Aligned_cols=150  Identities=23%  Similarity=0.328  Sum_probs=115.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .++|+++|.                      +|||||||+++|.+..+ ..+.++.|.++.  .+...  ...+.+||++
T Consensus        14 ~~~v~i~G~----------------------~g~GKStLl~~l~~~~~-~~~~~t~g~~~~--~i~~~--~~~~~~~D~~   66 (173)
T cd04155          14 EPRILILGL----------------------DNAGKTTILKQLASEDI-SHITPTQGFNIK--TVQSD--GFKLNVWDIG   66 (173)
T ss_pred             ccEEEEEcc----------------------CCCCHHHHHHHHhcCCC-cccCCCCCcceE--EEEEC--CEEEEEEECC
Confidence            568888888                      99999999999998765 356778886543  33333  3678999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      |+.++...+..+++++|++++|+|+++..++.....|+..+.... ...+|+++|+||+|+.....  .++   +...++
T Consensus        67 G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~---i~~~l~  141 (173)
T cd04155          67 GQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAP--AEE---IAEALN  141 (173)
T ss_pred             CCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCC--HHH---HHHHcC
Confidence            998888888889999999999999999888888877776654432 24589999999999864322  222   223333


Q ss_pred             C--------eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         243 G--------TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       243 ~--------~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +        +++++||++|.|++++|++|++
T Consensus       142 ~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         142 LHDLRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             CcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            2        4789999999999999999865

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd04171 SelB SelB subfamily

Probab=99.81  E-value=5.5e-19  Score=166.35  Aligned_cols=144  Identities=19%  Similarity=0.162  Sum_probs=97.5

Q ss_pred             CCCCHHHHHHHHHcCC---CCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCC-
Q psy3029         115 LGVGKTSMVVRYIGKM---FSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ-  190 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~---~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~-  190 (617)
                      +|||||||+++|++..   +...+.++...+.....+.+.. ...+.+|||+|+++|......++.++|++|+|+|+++ 
T Consensus         9 ~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~   87 (164)
T cd04171           9 IDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEG   87 (164)
T ss_pred             CCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCC
Confidence            9999999999999642   2222333333333333344432 4579999999999887767778889999999999987 


Q ss_pred             --hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc--cCHHHHHHHHHh---cCCeEEEEcCCCCCCHHHHHHHH
Q psy3029         191 --YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE--VNREEAFHYSKS---IGGTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       191 --~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--v~~~e~~~~~~~---~g~~~~evSAktg~gI~eLf~~I  263 (617)
                        +.++..+    ..+... . ..|+++|+||+|+.....  ...++..++++.   .+.+++++||+++.|++++++.|
T Consensus        88 ~~~~~~~~~----~~~~~~-~-~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  161 (164)
T cd04171          88 IMPQTREHL----EILELL-G-IKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGIEELKEYL  161 (164)
T ss_pred             ccHhHHHHH----HHHHHh-C-CCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHH
Confidence              3333322    222221 1 138999999999965421  112333444444   35799999999999999999887


Q ss_pred             HH
Q psy3029         264 SK  265 (617)
Q Consensus       264 ~~  265 (617)
                      .+
T Consensus       162 ~~  163 (164)
T cd04171         162 DE  163 (164)
T ss_pred             hh
Confidence            53

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.80  E-value=1.5e-18  Score=172.37  Aligned_cols=164  Identities=34%  Similarity=0.495  Sum_probs=135.3

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+++|.++.+...+.+|++..+...........+++.+|||+|
T Consensus         6 ~kivv~G~----------------------~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~g   63 (219)
T COG1100           6 FKIVVLGD----------------------GGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAG   63 (219)
T ss_pred             EEEEEEcC----------------------CCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCC
Confidence            68888888                      99999999999999999999999999888777777666688999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc------------ccCH
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR------------EVNR  231 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~------------~v~~  231 (617)
                      +++|..++..|+..++++++|||..+.. +++....|+..+........|+++|+||+|+....            ....
T Consensus        64 q~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~  143 (219)
T COG1100          64 QEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVL  143 (219)
T ss_pred             HHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcch
Confidence            9999999999999999999999999955 55666789999888776568999999999997653            2222


Q ss_pred             HHHHHHHHhc---CCeEEEEcCC--CCCCHHHHHHHHHHHHHHh
Q psy3029         232 EEAFHYSKSI---GGTYYETSAL--QDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       232 ~e~~~~~~~~---g~~~~evSAk--tg~gI~eLf~~I~~~l~~~  270 (617)
                      ..........   ...++++|++  ++.+|.++|..+...+...
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~~  187 (219)
T COG1100         144 LVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEE  187 (219)
T ss_pred             hhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHHh
Confidence            2222222222   3358999999  9999999999999888654

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.80  E-value=8.2e-19  Score=184.85  Aligned_cols=159  Identities=16%  Similarity=0.119  Sum_probs=114.3

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCCCC-cc-CCCcceeEEEEEEEECCeEEEEEEEecCCcccc----cccchh---hhcc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMFSH-HI-SPTIGASFFTAKINVGENKVKLQVWDTAGQERF----RSMAPM---YYRN  178 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~~~-~~-~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~----~~~~~~---~~~~  178 (617)
                      -++|+|+||||||||+++|++.+... .| ..|.....  -.+.+. ....|.+||+||..+-    ..+...   +++.
T Consensus       160 dVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~--G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~  236 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNL--GVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIER  236 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceE--EEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhh
Confidence            46777889999999999999765321 11 12222221  122222 3356899999997421    123333   4557


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCH
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGI  256 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI  256 (617)
                      ++++|+|+|+++.++++.+..|+.++..+.+  .++|++||+||+|+.....+..+....++...+.+++++||+++.||
T Consensus       237 a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI  316 (335)
T PRK12299        237 TRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGL  316 (335)
T ss_pred             cCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCH
Confidence            9999999999988889999999998877643  35799999999999765444434444555666789999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy3029         257 EDVFLNVSKGLIC  269 (617)
Q Consensus       257 ~eLf~~I~~~l~~  269 (617)
                      ++++++|.+.+..
T Consensus       317 ~eL~~~L~~~l~~  329 (335)
T PRK12299        317 DELLRALWELLEE  329 (335)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887754

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.80  E-value=1.9e-18  Score=161.75  Aligned_cols=147  Identities=18%  Similarity=0.139  Sum_probs=109.1

Q ss_pred             CCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc------cchhhhc--cCCEE
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS------MAPMYYR--NANAA  182 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~------~~~~~~~--~ad~i  182 (617)
                      ++|.+|||||||+++|++..+.....++.+.+.....+.+++  ..+.+|||||++.+..      +...++.  ++|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            467799999999999998765444445555555555565554  5789999999987664      3456665  99999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~  262 (617)
                      |+|+|++++....   .|+..+..   .++|+++|+||+|+.....+..+ ...++..++++++++||+++.|+++++++
T Consensus        79 i~v~d~~~~~~~~---~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~~~-~~~~~~~~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879          79 VNVVDATNLERNL---YLTLQLLE---LGLPVVVALNMIDEAEKRGIKID-LDKLSELLGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             EEEeeCCcchhHH---HHHHHHHH---cCCCEEEEEehhhhcccccchhh-HHHHHHhhCCCeEEEEccCCCCHHHHHHH
Confidence            9999998865432   34444433   24799999999999765444333 45677778899999999999999999999


Q ss_pred             HHHH
Q psy3029         263 VSKG  266 (617)
Q Consensus       263 I~~~  266 (617)
                      |...
T Consensus       152 l~~~  155 (158)
T cd01879         152 IAEL  155 (158)
T ss_pred             HHHH
Confidence            8765

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>cd01878 HflX HflX subfamily

Probab=99.79  E-value=9.7e-19  Score=172.10  Aligned_cols=151  Identities=21%  Similarity=0.157  Sum_probs=109.6

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCc--cCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHH--ISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~--~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ++|+|+|+                      +|||||||+++|++..+...  +.+|..  .....+.+.+. ..+.+|||
T Consensus        42 ~~I~iiG~----------------------~g~GKStLl~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~~-~~~~i~Dt   96 (204)
T cd01878          42 PTVALVGY----------------------TNAGKSTLFNALTGADVYAEDQLFATLD--PTTRRLRLPDG-REVLLTDT   96 (204)
T ss_pred             CeEEEECC----------------------CCCCHHHHHHHHhcchhccCCccceecc--ceeEEEEecCC-ceEEEeCC
Confidence            58999999                      99999999999998764322  223332  23333444332 37899999


Q ss_pred             CCcccc---------cccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH
Q psy3029         163 AGQERF---------RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE  233 (617)
Q Consensus       163 ~G~e~~---------~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e  233 (617)
                      +|..+.         ...+ ..+.++|++++|+|++++.++..+..|...+......++|+++|+||+|+......    
T Consensus        97 ~G~~~~~~~~~~~~~~~~~-~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~----  171 (204)
T cd01878          97 VGFIRDLPHQLVEAFRSTL-EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEEL----  171 (204)
T ss_pred             CccccCCCHHHHHHHHHHH-HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHH----
Confidence            997321         1111 23568999999999999888888777777776655455899999999998654321    


Q ss_pred             HHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       234 ~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                       ..++...+.+++++||+++.|+++++++|...
T Consensus       172 -~~~~~~~~~~~~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         172 -EERLEAGRPDAVFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             -HHHhhcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence             13445556789999999999999999998764

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.78  E-value=6.1e-18  Score=154.57  Aligned_cols=153  Identities=42%  Similarity=0.682  Sum_probs=120.3

Q ss_pred             CCCCCCCCHHHHHHHHHcCCC-CCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCC
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDIT  189 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~-~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis  189 (617)
                      ++|.+|+|||||+++|++... .....++. .++.............+.+||++|...+......++..+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            467799999999999998776 45555665 7777777777777899999999999888777788899999999999999


Q ss_pred             ChhhHHHHHHHH-HHHHhcCCCCCeEEEEEECCCCCCccccCHHH-HHHHHHhcCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         190 QYHSFAAIKTWV-KELKRNVDEPLVLCVVGNKTDLESSREVNREE-AFHYSKSIGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       190 ~~~S~~~l~~~l-~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e-~~~~~~~~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                      ++.++..+..|+ ..+.......+|+++|+||+|+.......... ..........+++++|++++.|+++++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            999988888772 22233334558999999999986544332222 3344555667999999999999999999875

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1

Probab=99.78  E-value=1.3e-19  Score=150.03  Aligned_cols=72  Identities=25%  Similarity=0.425  Sum_probs=50.4

Q ss_pred             chHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecC---CceEEEEeeeecCCCCC--CCCCCCcccceeeeecCceeE
Q psy3029         450 ARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSK---QFELVISMTHQVDPENP--QCIDPNTVVDMKIFKLDDIVR  521 (617)
Q Consensus       450 ~r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~---~~~~~l~~~~~~~~~~~--~~~~~~~~~~~l~~~~~d~v~  521 (617)
                      |||+|+++++||++|+||+|||++|||||+++++   +++|+|+|||++..+..  ..+...++.++|+|+++|||+
T Consensus         1 dRl~~l~~~lvG~~V~V~~~~G~~yeGif~s~s~~~~~~~vvLk~a~~~~~~~~~~~~~~~~~~~~tlii~~~dvv~   77 (77)
T PF14438_consen    1 DRLVYLLTNLVGQTVEVTTKNGSVYEGIFHSASPESNEFDVVLKMARKVPKSDQSNSDPLSSEIVETLIIPAKDVVQ   77 (77)
T ss_dssp             ---HHHHHTTTTSEEEEEETTS-EEEEEEEEE-T---T--EEEEEEEETTS------EEEEEEE-GGGEEE------
T ss_pred             ChHHHHHHhCcCCEEEEEECCCCEEEEEEEeCCCcccceeEEEEeeeeccccccccCCccCCCCCceEEEeccccCC
Confidence            7999999999999999999999999999999998   99999999999976543  344557899999999999986

>KOG0073|consensus

Probab=99.78  E-value=3.6e-18  Score=155.71  Aligned_cols=161  Identities=23%  Similarity=0.321  Sum_probs=127.2

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      +..++|.|+|-                      .|+|||||+++|.+.. .+...||.|.++.+..+    +.+.+++||
T Consensus        14 erE~riLiLGL----------------------dNsGKTti~~kl~~~~-~~~i~pt~gf~Iktl~~----~~~~L~iwD   66 (185)
T KOG0073|consen   14 EREVRILILGL----------------------DNSGKTTIVKKLLGED-TDTISPTLGFQIKTLEY----KGYTLNIWD   66 (185)
T ss_pred             hheeEEEEEec----------------------CCCCchhHHHHhcCCC-ccccCCccceeeEEEEe----cceEEEEEE
Confidence            44577888887                      9999999999999877 67788999977665544    678999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHh-cCCCCCeEEEEEECCCCCCc---cccCH-HHHHH
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESS---REVNR-EEAFH  236 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~-~~~~~iPvIlVgNK~DL~~~---~~v~~-~e~~~  236 (617)
                      .+|+...+..|+.||+.+|++|+|+|.+++..+++....+..+.. ..--..|++|++||.|+...   +.+.. -+...
T Consensus        67 vGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~  146 (185)
T KOG0073|consen   67 VGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEE  146 (185)
T ss_pred             cCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHH
Confidence            999999999999999999999999999999888876655555432 11123699999999999632   11111 12334


Q ss_pred             HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       237 ~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++...++++-|||.+|+++.+-++||+..+..
T Consensus       147 l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  147 LAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMS  179 (185)
T ss_pred             hccccCceEEEEeccccccHHHHHHHHHHHHHH
Confidence            557778899999999999999999999998865

>PRK04213 GTP-binding protein; Provisional

Probab=99.78  E-value=5.5e-19  Score=173.34  Aligned_cols=150  Identities=25%  Similarity=0.285  Sum_probs=102.5

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|+                      +|||||||+|+|++..+...+.+  |.++....+...    .+.+|||
T Consensus         8 ~~~~i~i~G~----------------------~~~GKSsLin~l~~~~~~~~~~~--~~t~~~~~~~~~----~~~l~Dt   59 (201)
T PRK04213          8 RKPEIVFVGR----------------------SNVGKSTLVRELTGKKVRVGKRP--GVTRKPNHYDWG----DFILTDL   59 (201)
T ss_pred             CCCEEEEECC----------------------CCCCHHHHHHHHhCCCCccCCCC--ceeeCceEEeec----ceEEEeC
Confidence            4468888888                      99999999999998876544444  555554444332    5899999


Q ss_pred             CC-----------cccccccchhhhc----cCCEEEEEEeCCChhhHHHHHHH------------HHHHHhcCCCCCeEE
Q psy3029         163 AG-----------QERFRSMAPMYYR----NANAALLVFDITQYHSFAAIKTW------------VKELKRNVDEPLVLC  215 (617)
Q Consensus       163 ~G-----------~e~~~~~~~~~~~----~ad~iIlV~Dis~~~S~~~l~~~------------l~~i~~~~~~~iPvI  215 (617)
                      +|           ++++..++..|+.    .++++++|+|.++...+  +.+|            +..+..   .++|++
T Consensus        60 ~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~---~~~p~i  134 (201)
T PRK04213         60 PGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEI--IERWEGRGEIPIDVEMFDFLRE---LGIPPI  134 (201)
T ss_pred             CccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCcccccc--ccccccCCCcHHHHHHHHHHHH---cCCCeE
Confidence            99           4566665555654    35788888887543221  0122            222222   357999


Q ss_pred             EEEECCCCCCccccCHHHHHHHHHhcCC---------eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         216 VVGNKTDLESSREVNREEAFHYSKSIGG---------TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       216 lVgNK~DL~~~~~v~~~e~~~~~~~~g~---------~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ||+||+|+....   .+...+++..+++         +++++||++| ||++++++|.+.+..
T Consensus       135 iv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        135 VAVNKMDKIKNR---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             EEEECccccCcH---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence            999999986433   2344555666654         5899999999 999999999887643

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.77  E-value=3.2e-18  Score=167.20  Aligned_cols=141  Identities=19%  Similarity=0.185  Sum_probs=102.9

Q ss_pred             CCCCHHHHHHHHHc--CCCCCcc------------CCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIG--KMFSHHI------------SPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~--~~~~~~~------------~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      +|||||||+++|+.  +.+...+            ..+.|.++......+..+.+.+.+|||+|+++|..++..+++++|
T Consensus        11 ~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d   90 (194)
T cd01891          11 VDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVD   90 (194)
T ss_pred             CCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcC
Confidence            99999999999996  4443332            234666666666666667789999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc-cCHHHHHHHHH-------hcCCeEEEEcCCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE-VNREEAFHYSK-------SIGGTYYETSALQ  252 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~-v~~~e~~~~~~-------~~g~~~~evSAkt  252 (617)
                      ++++|||+++.. +.....|+..+..   ..+|++||+||+|+...+. ...+++.+++.       ..+++++++||++
T Consensus        91 ~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~  166 (194)
T cd01891          91 GVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKN  166 (194)
T ss_pred             EEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhc
Confidence            999999998742 2333344444433   3479999999999964322 12334444442       2367899999999


Q ss_pred             CCCHHHH
Q psy3029         253 DQGIEDV  259 (617)
Q Consensus       253 g~gI~eL  259 (617)
                      |.|+.++
T Consensus       167 g~~~~~~  173 (194)
T cd01891         167 GWASLNL  173 (194)
T ss_pred             ccccccc
Confidence            9888555

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.76  E-value=5.1e-18  Score=161.82  Aligned_cols=153  Identities=20%  Similarity=0.173  Sum_probs=104.7

Q ss_pred             CCCCCCCCHHHHHHHHHcCCCC-Ccc-CCCcceeEEEEEEEECCeEEEEEEEecCCccc----ccccc---hhhhccCCE
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMFS-HHI-SPTIGASFFTAKINVGENKVKLQVWDTAGQER----FRSMA---PMYYRNANA  181 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~~-~~~-~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~----~~~~~---~~~~~~ad~  181 (617)
                      |+|.+|||||||+++|++..+. ..+ ..|....  ...+.+. ....+.+|||||...    ...+.   ..++..+|+
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~--~~~~~~~-~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~   77 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPN--LGVVEVP-DGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADA   77 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCc--ceEEEcC-CCCeEEEEeccccchhhhcCCCccHHHHHHHhccCE
Confidence            4677999999999999987641 122 1222222  2223333 145789999999732    22222   234678999


Q ss_pred             EEEEEeCCCh------hhHHHHHHHHHHHHhcCC-------CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEE
Q psy3029         182 ALLVFDITQY------HSFAAIKTWVKELKRNVD-------EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYET  248 (617)
Q Consensus       182 iIlV~Dis~~------~S~~~l~~~l~~i~~~~~-------~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~ev  248 (617)
                      +++|+|++++      .++..+..|...+.....       ..+|+++|+||+|+..................+..++++
T Consensus        78 ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  157 (176)
T cd01881          78 ILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPI  157 (176)
T ss_pred             EEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEE
Confidence            9999999988      467777777777765432       257999999999997554433222233444456789999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q psy3029         249 SALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       249 SAktg~gI~eLf~~I~~~  266 (617)
                      ||+++.|+++++++|...
T Consensus       158 Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         158 SAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             ehhhhcCHHHHHHHHHhh
Confidence            999999999999998653

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.75  E-value=1.6e-17  Score=157.34  Aligned_cols=149  Identities=18%  Similarity=0.106  Sum_probs=100.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+...+.....++...++....+... +....+.+|||+|++.|..++..++..+|++++|+|+++...
T Consensus         9 ~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~   88 (168)
T cd01887           9 VDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVM   88 (168)
T ss_pred             CCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCcc
Confidence            9999999999999887765443333333322233322 135789999999999888888888999999999999987532


Q ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC-HHHHHHHHH------hcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         194 FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN-REEAFHYSK------SIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~-~~e~~~~~~------~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      .... ..+..+..   ..+|+++|+||+|+....... .+....+..      ...++++++||++|.|+++++++|.+.
T Consensus        89 ~~~~-~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~  164 (168)
T cd01887          89 PQTI-EAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLL  164 (168)
T ss_pred             HHHH-HHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHh
Confidence            2111 11222222   347999999999986432111 111111111      113589999999999999999999775


Q ss_pred             H
Q psy3029         267 L  267 (617)
Q Consensus       267 l  267 (617)
                      .
T Consensus       165 ~  165 (168)
T cd01887         165 A  165 (168)
T ss_pred             h
Confidence            4

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.75  E-value=2.1e-17  Score=175.48  Aligned_cols=152  Identities=19%  Similarity=0.111  Sum_probs=107.5

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      ++|+++|.                      +|||||||+|+|++..+.....+....+.....+.+.+ ...+.||||+|
T Consensus       190 ~~ValvG~----------------------~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~-~~~i~l~DT~G  246 (351)
T TIGR03156       190 PTVALVGY----------------------TNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPD-GGEVLLTDTVG  246 (351)
T ss_pred             cEEEEECC----------------------CCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCC-CceEEEEecCc
Confidence            58999999                      99999999999998764322222222334455555543 24789999999


Q ss_pred             ccc---------ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH
Q psy3029         165 QER---------FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF  235 (617)
Q Consensus       165 ~e~---------~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~  235 (617)
                      ..+         |... ...+.++|++|+|+|++++.++..+..|...+......++|+++|+||+|+.....     ..
T Consensus       247 ~~~~l~~~lie~f~~t-le~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~  320 (351)
T TIGR03156       247 FIRDLPHELVAAFRAT-LEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IE  320 (351)
T ss_pred             ccccCCHHHHHHHHHH-HHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HH
Confidence            722         2222 22477999999999999998888777676666554434579999999999864322     11


Q ss_pred             HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       236 ~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      .+. ....+++++||++|.|++++++.|.+.
T Consensus       321 ~~~-~~~~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       321 RLE-EGYPEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             HHH-hCCCCEEEEEccCCCCHHHHHHHHHhh
Confidence            111 222468999999999999999998753

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>TIGR00436 era GTP-binding protein Era

Probab=99.74  E-value=2e-17  Score=170.18  Aligned_cols=152  Identities=17%  Similarity=0.054  Sum_probs=101.1

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc-c-------cchhhhccCC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-S-------MAPMYYRNAN  180 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~-~-------~~~~~~~~ad  180 (617)
                      ++++|.+|||||||+|+|++.++. ...+.++.+..............+.||||||..... .       ....++..+|
T Consensus         3 V~liG~pnvGKSTLln~L~~~~~~-~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aD   81 (270)
T TIGR00436         3 VAILGRPNVGKSTLLNQLHGQKIS-ITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVD   81 (270)
T ss_pred             EEEECCCCCCHHHHHHHHhCCcEe-ecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCC
Confidence            444445999999999999998743 233333333222211122223568999999975421 1       1345678999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHH
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDV  259 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eL  259 (617)
                      ++++|+|+++..+..  ..++..+..   .+.|+++|+||+|+..... ..+....++...+. +++++||++|.|++++
T Consensus        82 vvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L  155 (270)
T TIGR00436        82 LILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDK-LLPLIDKYAILEDFKDIVPISALTGDNTSFL  155 (270)
T ss_pred             EEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHH-HHHHHHHHHhhcCCCceEEEecCCCCCHHHH
Confidence            999999999876654  334444433   3479999999999864322 12333444444444 8999999999999999


Q ss_pred             HHHHHHHH
Q psy3029         260 FLNVSKGL  267 (617)
Q Consensus       260 f~~I~~~l  267 (617)
                      ++.|.+.+
T Consensus       156 ~~~l~~~l  163 (270)
T TIGR00436       156 AAFIEVHL  163 (270)
T ss_pred             HHHHHHhC
Confidence            99998765

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd01894 EngA1 EngA1 subfamily

Probab=99.74  E-value=1.7e-17  Score=154.76  Aligned_cols=145  Identities=21%  Similarity=0.125  Sum_probs=97.7

Q ss_pred             cCCCCCCCCHHHHHHHHHcCCC--CCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc--------cchhhhccC
Q psy3029         110 ANWFWLGVGKTSMVVRYIGKMF--SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS--------MAPMYYRNA  179 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~~~--~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~--------~~~~~~~~a  179 (617)
                      +++|.+|||||||+++|++...  .... +....+........  ....+.+|||||...+..        ....+++.+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~-~~~t~~~~~~~~~~--~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~   77 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDT-PGVTRDRIYGEAEW--GGREFILIDTGGIEPDDEGISKEIREQAELAIEEA   77 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCC-CCceeCceeEEEEE--CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhC
Confidence            4567799999999999998652  2222 22222223333333  336799999999877543        334567899


Q ss_pred             CEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHH
Q psy3029         180 NAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIED  258 (617)
Q Consensus       180 d~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~e  258 (617)
                      |++++|+|..++.+.... .++..+..   ...|+++|+||+|+......     ......+++ +++++||+++.|+++
T Consensus        78 d~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~  148 (157)
T cd01894          78 DVILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGD  148 (157)
T ss_pred             CEEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHH
Confidence            999999999876544332 12222222   23799999999998654321     223334566 789999999999999


Q ss_pred             HHHHHHHH
Q psy3029         259 VFLNVSKG  266 (617)
Q Consensus       259 Lf~~I~~~  266 (617)
                      ++++|.+.
T Consensus       149 l~~~l~~~  156 (157)
T cd01894         149 LLDAILEL  156 (157)
T ss_pred             HHHHHHhh
Confidence            99999864

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>KOG0070|consensus

Probab=99.74  E-value=1.3e-17  Score=156.22  Aligned_cols=160  Identities=21%  Similarity=0.289  Sum_probs=127.6

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ..+.++|+++|-                      -|+||||++.+|..+++.. ..||+|.......+    +++.|.+|
T Consensus        14 ~~~e~~IlmlGL----------------------D~AGKTTILykLk~~E~vt-tvPTiGfnVE~v~y----kn~~f~vW   66 (181)
T KOG0070|consen   14 GKKEMRILMVGL----------------------DAAGKTTILYKLKLGEIVT-TVPTIGFNVETVEY----KNISFTVW   66 (181)
T ss_pred             CcceEEEEEEec----------------------cCCCceeeeEeeccCCccc-CCCccccceeEEEE----cceEEEEE
Confidence            345578888887                      9999999999998887554 48999987666555    47899999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSK  239 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~  239 (617)
                      |.+|+++++.+++.|+.+.+++|||+|.+|++-+.+..+.+..+..... ...|+++.+||.|+...  .+..++.+...
T Consensus        67 DvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~a--ls~~ei~~~L~  144 (181)
T KOG0070|consen   67 DVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGA--LSAAEITNKLG  144 (181)
T ss_pred             ecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhcccc--CCHHHHHhHhh
Confidence            9999999999999999999999999999999988888776666655443 56899999999998643  22333322222


Q ss_pred             -----hcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         240 -----SIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       240 -----~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                           .....+..|+|.+|+|+.+.+++|.+.+..
T Consensus       145 l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~~  179 (181)
T KOG0070|consen  145 LHSLRSRNWHIQSTCAISGEGLYEGLDWLSNNLKK  179 (181)
T ss_pred             hhccCCCCcEEeeccccccccHHHHHHHHHHHHhc
Confidence                 223367889999999999999999887743

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.74  E-value=1.4e-17  Score=155.89  Aligned_cols=140  Identities=18%  Similarity=0.185  Sum_probs=93.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc------ccchhhh--ccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR------SMAPMYY--RNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~------~~~~~~~--~~ad~iIlV~  186 (617)
                      ||||||||+|+|++.+..  ....+|.+...+...+......+.++|+||.....      .....|+  ...|++|+|+
T Consensus         9 PNvGKStLfN~Ltg~~~~--v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~Vv   86 (156)
T PF02421_consen    9 PNVGKSTLFNALTGAKQK--VGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVV   86 (156)
T ss_dssp             TTSSHHHHHHHHHTTSEE--EEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEE
T ss_pred             CCCCHHHHHHHHHCCCce--ecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEEC
Confidence            999999999999998743  33444555544444333233678999999953222      2334444  4899999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I  263 (617)
                      |+++.+.-.   ..+.++.+   ..+|+++|+||+|+...+.+.. ....+.+.+|++++.+||++++|+++|++.|
T Consensus        87 Da~~l~r~l---~l~~ql~e---~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen   87 DATNLERNL---YLTLQLLE---LGIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             EGGGHHHHH---HHHHHHHH---TTSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred             CCCCHHHHH---HHHHHHHH---cCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence            998754222   23333433   3479999999999865444332 2456778889999999999999999999875

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.74  E-value=4.5e-17  Score=145.76  Aligned_cols=107  Identities=32%  Similarity=0.563  Sum_probs=84.2

Q ss_pred             CCCCHHHHHHHHHcCCCC--CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh
Q psy3029         115 LGVGKTSMVVRYIGKMFS--HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH  192 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~--~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~  192 (617)
                      +|||||||+++|++..+.  ..+.++.+.++.............+.+||++|++.+...+..++.++|++|+|||++++.
T Consensus         8 ~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~   87 (119)
T PF08477_consen    8 SGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPE   87 (119)
T ss_dssp             TTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHH
T ss_pred             CCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChH
Confidence            999999999999988765  233445555555556667777777999999999999888888899999999999999999


Q ss_pred             hHHHHH---HHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         193 SFAAIK---TWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       193 S~~~l~---~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      ||..+.   +|+..+...... +|++||+||.|
T Consensus        88 s~~~~~~~~~~l~~~~~~~~~-~piilv~nK~D  119 (119)
T PF08477_consen   88 SLEYLSQLLKWLKNIRKRDKN-IPIILVGNKSD  119 (119)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSC-SEEEEEEE-TC
T ss_pred             HHHHHHHHHHHHHHHHccCCC-CCEEEEEeccC
Confidence            998874   466666655444 89999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PRK15494 era GTPase Era; Provisional

Probab=99.74  E-value=3.5e-17  Score=173.48  Aligned_cols=154  Identities=21%  Similarity=0.317  Sum_probs=106.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeE--EEEEEEECCeEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQV  159 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~--~~~~i~~~~~~~~l~i  159 (617)
                      ...++|+++|+                      +|||||||+|+|++.++. .+.+.++.++  ....+..+  ...+.|
T Consensus        50 ~k~~kV~ivG~----------------------~nvGKSTLin~l~~~k~~-ivs~k~~tTr~~~~~~~~~~--~~qi~~  104 (339)
T PRK15494         50 QKTVSVCIIGR----------------------PNSGKSTLLNRIIGEKLS-IVTPKVQTTRSIITGIITLK--DTQVIL  104 (339)
T ss_pred             cceeEEEEEcC----------------------CCCCHHHHHHHHhCCcee-eccCCCCCccCcEEEEEEeC--CeEEEE
Confidence            34567888888                      999999999999988763 3334444333  22333333  356899


Q ss_pred             EecCCccc-ccccch-------hhhccCCEEEEEEeCCChhhHHHHHH-HHHHHHhcCCCCCeEEEEEECCCCCCccccC
Q psy3029         160 WDTAGQER-FRSMAP-------MYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSREVN  230 (617)
Q Consensus       160 ~Dt~G~e~-~~~~~~-------~~~~~ad~iIlV~Dis~~~S~~~l~~-~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~  230 (617)
                      |||||+.+ +..+..       .++..+|++|+|+|..+  ++..+.. |+..+...   ..|+++|+||+|+...   .
T Consensus       105 ~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~---~  176 (339)
T PRK15494        105 YDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLK--SFDDITHNILDKLRSL---NIVPIFLLNKIDIESK---Y  176 (339)
T ss_pred             EECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc---c
Confidence            99999843 322222       34679999999999765  4555543 55555432   3477889999998643   2


Q ss_pred             HHHHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         231 REEAFHYSKSIG--GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       231 ~~e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..++.+++...+  ..++++||++|.|+++++++|...+.
T Consensus       177 ~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~~l~  216 (339)
T PRK15494        177 LNDIKAFLTENHPDSLLFPISALSGKNIDGLLEYITSKAK  216 (339)
T ss_pred             HHHHHHHHHhcCCCcEEEEEeccCccCHHHHHHHHHHhCC
Confidence            344555655544  57999999999999999999987664

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.73  E-value=5.4e-17  Score=170.91  Aligned_cols=155  Identities=17%  Similarity=0.186  Sum_probs=108.0

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCC-Ccc-CCCcceeEEEEEEEECCeEEEEEEEecCCcccc----cccchhhh---ccC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFS-HHI-SPTIGASFFTAKINVGENKVKLQVWDTAGQERF----RSMAPMYY---RNA  179 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~-~~~-~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~----~~~~~~~~---~~a  179 (617)
                      ++|+|+||||||||+++|++.+.. +.| ..|.....  -.+.+++ ...+.|||+||..+.    ..+...|+   +.+
T Consensus       160 V~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~i--g~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhiera  236 (329)
T TIGR02729       160 VGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNL--GVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERT  236 (329)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEE--EEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhh
Confidence            445555999999999999986532 122 12222222  1223322 367899999997432    23444444   479


Q ss_pred             CEEEEEEeCCCh---hhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCC
Q psy3029         180 NAALLVFDITQY---HSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQ  254 (617)
Q Consensus       180 d~iIlV~Dis~~---~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~  254 (617)
                      +++|+|+|+++.   .+++.+..|..++..+..  ...|++||+||+|+..... ..+....++..++.+++++||+++.
T Consensus       237 d~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~  315 (329)
T TIGR02729       237 RVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGE  315 (329)
T ss_pred             CEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCc
Confidence            999999999986   577888888887766532  3479999999999975433 2334445666677899999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy3029         255 GIEDVFLNVSKGL  267 (617)
Q Consensus       255 gI~eLf~~I~~~l  267 (617)
                      ||++++++|.+.+
T Consensus       316 GI~eL~~~I~~~l  328 (329)
T TIGR02729       316 GLDELLYALAELL  328 (329)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998754

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>COG1159 Era GTPase [General function prediction only]

Probab=99.73  E-value=8.3e-18  Score=169.08  Aligned_cols=162  Identities=17%  Similarity=0.144  Sum_probs=114.5

Q ss_pred             CCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc--------ccccchh
Q psy3029         103 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER--------FRSMAPM  174 (617)
Q Consensus       103 ~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~--------~~~~~~~  174 (617)
                      .|.+.|+||+|+||||||||+|++++.+ .+.+++.+..++......+..+...+.|+||||..+        +......
T Consensus         3 ~~ksGfVaIiGrPNvGKSTLlN~l~G~K-isIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~   81 (298)
T COG1159           3 KFKSGFVAIIGRPNVGKSTLLNALVGQK-ISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARS   81 (298)
T ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhcCc-eEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHH
Confidence            3567788888889999999999999998 456666666666665555555678899999999743        2233445


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCC
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQD  253 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg  253 (617)
                      .+..+|+++||+|+.+...  .-++|+-+..+.  .+.|+++++||+|.........+....+...... .++++||++|
T Consensus        82 sl~dvDlilfvvd~~~~~~--~~d~~il~~lk~--~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g  157 (298)
T COG1159          82 ALKDVDLILFVVDADEGWG--PGDEFILEQLKK--TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKG  157 (298)
T ss_pred             HhccCcEEEEEEeccccCC--ccHHHHHHHHhh--cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeecccc
Confidence            5779999999999987543  233443333222  3469999999999876544212222222222222 8999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGLIC  269 (617)
Q Consensus       254 ~gI~eLf~~I~~~l~~  269 (617)
                      .|++.|.+.+...+.+
T Consensus       158 ~n~~~L~~~i~~~Lpe  173 (298)
T COG1159         158 DNVDTLLEIIKEYLPE  173 (298)
T ss_pred             CCHHHHHHHHHHhCCC
Confidence            9999999999887754

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.73  E-value=4.9e-17  Score=177.55  Aligned_cols=152  Identities=16%  Similarity=0.163  Sum_probs=112.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ..+||+++|+                      +|||||||+|+|++.... ....+..+.++....+.+++  +.+.+||
T Consensus       202 ~g~kVvIvG~----------------------~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~D  257 (442)
T TIGR00450       202 DGFKLAIVGS----------------------PNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLD  257 (442)
T ss_pred             cCCEEEEECC----------------------CCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEee
Confidence            3478999999                      999999999999986531 11223333444445555554  5578999


Q ss_pred             cCCccccccc--------chhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH
Q psy3029         162 TAGQERFRSM--------APMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE  233 (617)
Q Consensus       162 t~G~e~~~~~--------~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e  233 (617)
                      |+|+.++...        ...+++++|++|+|||++++.+++..  |+..+..   .++|+++|+||+|+...      +
T Consensus       258 TaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~------~  326 (442)
T TIGR00450       258 TAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN------S  326 (442)
T ss_pred             CCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc------c
Confidence            9998654432        24578899999999999998887765  7666543   34699999999998543      1


Q ss_pred             HHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       234 ~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ...++..++++++++||++ .||+++|+.|.+.+...
T Consensus       327 ~~~~~~~~~~~~~~vSak~-~gI~~~~~~L~~~i~~~  362 (442)
T TIGR00450       327 LEFFVSSKVLNSSNLSAKQ-LKIKALVDLLTQKINAF  362 (442)
T ss_pred             hhhhhhhcCCceEEEEEec-CCHHHHHHHHHHHHHHH
Confidence            2345666778899999998 69999999999888654

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.73  E-value=6.4e-17  Score=150.76  Aligned_cols=138  Identities=20%  Similarity=0.197  Sum_probs=96.8

Q ss_pred             CCCCHHHHHHHHHcCCCCC-ccCCCcceeEEEEEEEECCeEEEEEEEecCCccccccc--------chhhhccCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSM--------APMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~-~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~--------~~~~~~~ad~iIlV  185 (617)
                      +|+|||||++++++..... ...+....++....+...  ...+.+|||+|...+...        ...++.++|++++|
T Consensus        10 ~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v   87 (157)
T cd04164          10 PNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIG--GIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFV   87 (157)
T ss_pred             CCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeC--CEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEE
Confidence            9999999999999876321 112222223333333333  467899999998655322        23466799999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         186 FDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       186 ~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +|++++.+......|..      ...+|+++|+||+|+......       .....+.+++++||+++.|+++++++|..
T Consensus        88 ~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  154 (157)
T cd04164          88 IDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLDELKEALLE  154 (157)
T ss_pred             EECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            99998777666543322      234799999999998654332       33445678999999999999999999876


Q ss_pred             HH
Q psy3029         266 GL  267 (617)
Q Consensus       266 ~l  267 (617)
                      .+
T Consensus       155 ~~  156 (157)
T cd04164         155 LA  156 (157)
T ss_pred             hh
Confidence            53

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>KOG0075|consensus

Probab=99.73  E-value=4.9e-18  Score=151.80  Aligned_cols=144  Identities=24%  Similarity=0.364  Sum_probs=117.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      .++|||||+|.+..+.+.+...||+|...+.    +..+.+.+.+||.+|+.+|..+++.|++.++++++|+|+.+++.+
T Consensus        29 q~sGKtt~Vn~ia~g~~~edmiptvGfnmrk----~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~  104 (186)
T KOG0075|consen   29 QNSGKTTLVNVIARGQYLEDMIPTVGFNMRK----VTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKL  104 (186)
T ss_pred             ccCCcceEEEEEeeccchhhhcccccceeEE----eccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccc
Confidence            9999999999999989999999999976433    445789999999999999999999999999999999999998877


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC--------CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG--------GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--------~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      .....-+..+.... -..+|+++.|||.|+...  ...   ..+..++|        +.+|.+|+++..||+.+.+||++
T Consensus       105 ~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A--L~~---~~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~  179 (186)
T KOG0075|consen  105 EASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA--LSK---IALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIE  179 (186)
T ss_pred             hhhHHHHHHHhcchhhcCCcEEEecccccCccc--ccH---HHHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHH
Confidence            76655555554432 256899999999998643  222   13334444        36899999999999999999987


Q ss_pred             HH
Q psy3029         266 GL  267 (617)
Q Consensus       266 ~l  267 (617)
                      +-
T Consensus       180 hs  181 (186)
T KOG0075|consen  180 HS  181 (186)
T ss_pred             Hh
Confidence            65

>KOG3883|consensus

Probab=99.73  E-value=9.5e-17  Score=144.50  Aligned_cols=165  Identities=22%  Similarity=0.319  Sum_probs=131.9

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCCC--CCccCCCcceeEEEEEEE-ECCeEEEEEEEecCCcccc-cccchhhhccCCEE
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKMF--SHHISPTIGASFFTAKIN-VGENKVKLQVWDTAGQERF-RSMAPMYYRNANAA  182 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~~--~~~~~~t~g~~~~~~~i~-~~~~~~~l~i~Dt~G~e~~-~~~~~~~~~~ad~i  182 (617)
                      |+++++|..+||||+|+.+++-+..  ...+.||+...| ...+. -.+-.-.+.|+||+|...+ .++-+.|+.-+|++
T Consensus        10 ~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY-~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDaf   88 (198)
T KOG3883|consen   10 CKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIY-VASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAF   88 (198)
T ss_pred             eEEEEECCccccHHHHHHHHHhccCCCCCccccchhhhe-eEeeecCCChhheEEEeecccccCchhhhhHhHhccCceE
Confidence            5555555599999999999985543  345667876543 33333 3444567999999998777 57778999999999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~  261 (617)
                      ++|||..+++||+.++..-..|.++. .+.+||++++||+|+.+++++..+-+..||+.-.+..++++|.....+-+.|.
T Consensus        89 VLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf~  168 (198)
T KOG3883|consen   89 VLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPFT  168 (198)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHHH
Confidence            99999999999988765444554443 35699999999999998899999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhh
Q psy3029         262 NVSKGLICLSQ  272 (617)
Q Consensus       262 ~I~~~l~~~~~  272 (617)
                      .+...+.....
T Consensus       169 ~l~~rl~~pqs  179 (198)
T KOG3883|consen  169 YLASRLHQPQS  179 (198)
T ss_pred             HHHHhccCCcc
Confidence            99988765543

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.72  E-value=4.7e-17  Score=180.14  Aligned_cols=149  Identities=17%  Similarity=0.137  Sum_probs=101.6

Q ss_pred             CCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCcc----------cccccc-hhhhccCCEE
Q psy3029         115 LGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQE----------RFRSMA-PMYYRNANAA  182 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e----------~~~~~~-~~~~~~ad~i  182 (617)
                      +|||||||+|+|++..+. ....++.+.+.....+..++.  .+.+|||+|..          .|..+. ..+++++|++
T Consensus       220 ~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~v  297 (472)
T PRK03003        220 PNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVA  297 (472)
T ss_pred             CCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEE
Confidence            999999999999987642 223334444444455555554  46799999963          222222 2457899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc--CHHHHH-HHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV--NREEAF-HYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v--~~~e~~-~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                      |+|+|++++.++.++. ++..+..   ..+|+|||+||+|+......  ..++.. .+.....++++++||++|.||+++
T Consensus       298 ilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~l  373 (472)
T PRK03003        298 VVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKL  373 (472)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHH
Confidence            9999999988887764 4454443   34799999999999643211  111121 122223468999999999999999


Q ss_pred             HHHHHHHHHH
Q psy3029         260 FLNVSKGLIC  269 (617)
Q Consensus       260 f~~I~~~l~~  269 (617)
                      |+.|.+.+..
T Consensus       374 f~~i~~~~~~  383 (472)
T PRK03003        374 VPALETALES  383 (472)
T ss_pred             HHHHHHHHHH
Confidence            9999887654

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.71  E-value=4.6e-17  Score=153.99  Aligned_cols=133  Identities=14%  Similarity=0.117  Sum_probs=93.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc----ccccchhhhccCCEEEEEEeCCC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER----FRSMAPMYYRNANAALLVFDITQ  190 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~----~~~~~~~~~~~ad~iIlV~Dis~  190 (617)
                      +|||||||+|+|.+.. . ...++.++       .+...    .+|||||+..    +.......+.++|++|+|+|+++
T Consensus        10 ~~~GKstl~~~l~~~~-~-~~~~~~~v-------~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~   76 (158)
T PRK15467         10 VGAGKTTLFNALQGNY-T-LARKTQAV-------EFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGAND   76 (158)
T ss_pred             CCCCHHHHHHHHcCCC-c-cCccceEE-------EECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCC
Confidence            9999999999987653 1 11223222       22222    2699999732    22222234789999999999998


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC--eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         191 YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG--TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       191 ~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~--~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..++  +..|+..+.    ...|+++|+||+|+..   ...+...+++.+.++  +++++||++|.||+++|+.|.+.+.
T Consensus        77 ~~s~--~~~~~~~~~----~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~  147 (158)
T PRK15467         77 PESR--LPAGLLDIG----VSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTK  147 (158)
T ss_pred             cccc--cCHHHHhcc----CCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhch
Confidence            8765  334554431    2468999999999854   234556677777775  8999999999999999999987664


Q ss_pred             H
Q psy3029         269 C  269 (617)
Q Consensus       269 ~  269 (617)
                      .
T Consensus       148 ~  148 (158)
T PRK15467        148 Q  148 (158)
T ss_pred             h
Confidence            3

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.71  E-value=3.4e-17  Score=178.27  Aligned_cols=289  Identities=16%  Similarity=0.271  Sum_probs=185.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC--eEEEEEEEecCCcccccccchhhhc----cCCEEEEEEeC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE--NKVKLQVWDTAGQERFRSMAPMYYR----NANAALLVFDI  188 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~--~~~~l~i~Dt~G~e~~~~~~~~~~~----~ad~iIlV~Di  188 (617)
                      .++|||||+.+|.+.   +.+.++.|.+|....+.-++  ...++.+|-..|...+..+++..+.    .--+||+|+|+
T Consensus        34 ~~~GKttli~~L~~~---e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDl  110 (472)
T PF05783_consen   34 KGSGKTTLIARLQGI---EDPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDL  110 (472)
T ss_pred             CCCchHHHHHHhhcc---CCCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecC
Confidence            999999999999764   35667888887666554432  3357899999887777777776665    23588999999


Q ss_pred             CChhhH-HHHHHHHHHHHhcCC----------------------------------------------------------
Q psy3029         189 TQYHSF-AAIKTWVKELKRNVD----------------------------------------------------------  209 (617)
Q Consensus       189 s~~~S~-~~l~~~l~~i~~~~~----------------------------------------------------------  209 (617)
                      +.|+.+ +.+.+|+..+.++..                                                          
T Consensus       111 S~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~~~lpl~~g~  190 (472)
T PF05783_consen  111 SKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDESVLLPLGEGV  190 (472)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccccccCCCCCcc
Confidence            999864 566666643321100                                                          


Q ss_pred             ----CCCeEEEEEECCCCCC----cc-------ccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhhhcc
Q psy3029         210 ----EPLVLCVVGNKTDLES----SR-------EVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQES  274 (617)
Q Consensus       210 ----~~iPvIlVgNK~DL~~----~~-------~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~~~~  274 (617)
                          -.+|++||++|+|...    +.       .+..+.++.||..+|+.+|++|++...+++.|+.+|.+.+...... 
T Consensus       191 l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~~f~-  269 (472)
T PF05783_consen  191 LTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGFPFK-  269 (472)
T ss_pred             cccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccCCCC-
Confidence                0189999999999732    11       1223446788889999999999999999999999988877543311 


Q ss_pred             cccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeecccccccceeccc---
Q psy3029         275 LHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYI---  351 (617)
Q Consensus       275 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~---  351 (617)
                                                      .++......+++|..               ||++.+|..++..-+   
T Consensus       270 --------------------------------~~~~vv~~d~ifIP~---------------GwDs~~kI~il~e~f~~~  302 (472)
T PF05783_consen  270 --------------------------------TPAQVVERDAIFIPA---------------GWDSWGKIRILRENFDTE  302 (472)
T ss_pred             --------------------------------CCceeecccccccCC---------------CCCCHHhcCccccccccc
Confidence                                            112222223344433               899999987776543   


Q ss_pred             --cCcccCcc-CCccceeeEEEEE--EECCEEEEEEeecCCCceeeeccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy3029         352 --GKMFSHHI-SPTIGASFFTAKI--NVGENKVKLQLRTGLKVSKIPVPTRNREGATTGRITEPDTMNNNNKKKNRVATT  426 (617)
Q Consensus       352 --~~~f~~~~-~pTIg~df~~k~v--~~d~~~v~LqI~~~~~~~~~~~~~r~~~g~~~~~~~~~~~~~~~~~~~~~~~~~  426 (617)
                        .+.|.... .|++..-...+.+  ..++.++.|+-++.++.+.++.++|+ +++.+..++++++...+........++
T Consensus       303 ~~~~~~~~~i~~p~~~~~~~~~e~~~~aedeQ~fL~~~~~~L~~~~~~~~r~-~s~~r~~sgSp~t~~~s~~~~~~s~~~  381 (472)
T PF05783_consen  303 KPEDPYEDIIPKPPVRKFVHEKEIEVEAEDEQEFLMKQQSLLSKAPPAPGRG-ESPPRSQSGSPRTPGKSSPANVGSASP  381 (472)
T ss_pred             cCCCcccccccCCCcccccccccchhhhhHHHHHHHHHHHHHhcccccccCC-CCCCCCccccccccCCCCCCCccccCc
Confidence              23444433 4555433334445  66778889998999999999988887 656666677766654444444443333


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCchHhHHhHhhc
Q psy3029         427 GRPVRSRGGPDRLAINPEGVYCNARFMQAITLHI  460 (617)
Q Consensus       427 ~r~~~~~~~~~~~~~~~~gv~~n~r~~~~~~~~i  460 (617)
                      +.++.+..++..+....+||.+|     ++.+|.
T Consensus       382 ~~~~kk~d~~~~~~~~segVLAn-----FFNSLL  410 (472)
T PF05783_consen  382 QSSSKKPDPNVKGGSPSEGVLAN-----FFNSLL  410 (472)
T ss_pred             cccccCCCCCCCCCccchHHHHH-----HHHHHh
Confidence            33333333333222233444333     455554

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.71  E-value=7.1e-17  Score=177.19  Aligned_cols=148  Identities=20%  Similarity=0.202  Sum_probs=107.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .++|+++|.                      +|||||||+|+|++.... ....+....++....+.+++  ..+.+|||
T Consensus       215 ~~kV~ivG~----------------------~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT  270 (449)
T PRK05291        215 GLKVVIAGR----------------------PNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDT  270 (449)
T ss_pred             CCEEEEECC----------------------CCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeC
Confidence            468999999                      999999999999987631 12222223334444555544  56899999


Q ss_pred             CCccccccc--------chhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         163 AGQERFRSM--------APMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       163 ~G~e~~~~~--------~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      +|..++...        ...++.++|++|+|||++++.++.....|..      ...+|+++|+||+|+.......    
T Consensus       271 ~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~----  340 (449)
T PRK05291        271 AGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE----  340 (449)
T ss_pred             CCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh----
Confidence            998655432        2346789999999999999888776544433      2347999999999996533211    


Q ss_pred             HHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       235 ~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                          ...+.+++++||++|.|+++++++|.+.+..
T Consensus       341 ----~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        341 ----EENGKPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             ----hccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence                3345689999999999999999999887753

>PRK00089 era GTPase Era; Reviewed

Probab=99.70  E-value=8.2e-17  Score=167.55  Aligned_cols=160  Identities=19%  Similarity=0.179  Sum_probs=104.6

Q ss_pred             CCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc--------ccchhh
Q psy3029         104 VPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR--------SMAPMY  175 (617)
Q Consensus       104 ~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~--------~~~~~~  175 (617)
                      +++++++++|.+|||||||+|+|++.+.. ...+.+..+..............+.+|||||.....        ......
T Consensus         3 ~~~g~V~iiG~pn~GKSTLin~L~g~~~~-~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~   81 (292)
T PRK00089          3 FKSGFVAIVGRPNVGKSTLLNALVGQKIS-IVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSS   81 (292)
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHhCCcee-ecCCCCCcccccEEEEEEcCCceEEEEECCCCCCchhHHHHHHHHHHHHH
Confidence            45666777777999999999999988753 233333333222222222234789999999974432        223345


Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-CeEEEEcCCCCC
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-GTYYETSALQDQ  254 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-~~~~evSAktg~  254 (617)
                      +..+|++++|+|+++..+  ....++.....  ....|+++|+||+|+........+....+....+ .+++++||+++.
T Consensus        82 ~~~~D~il~vvd~~~~~~--~~~~~i~~~l~--~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~  157 (292)
T PRK00089         82 LKDVDLVLFVVDADEKIG--PGDEFILEKLK--KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGD  157 (292)
T ss_pred             HhcCCEEEEEEeCCCCCC--hhHHHHHHHHh--hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCC
Confidence            779999999999988322  22223222222  2246999999999997432222333444544444 489999999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy3029         255 GIEDVFLNVSKGLI  268 (617)
Q Consensus       255 gI~eLf~~I~~~l~  268 (617)
                      |+++++++|...+.
T Consensus       158 gv~~L~~~L~~~l~  171 (292)
T PRK00089        158 NVDELLDVIAKYLP  171 (292)
T ss_pred             CHHHHHHHHHHhCC
Confidence            99999999988763

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.70  E-value=3.7e-16  Score=152.28  Aligned_cols=155  Identities=20%  Similarity=0.236  Sum_probs=109.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|.                      +|||||||+++|++.++...+.+++|.+........   ...+.|||
T Consensus        22 ~~~~~v~ivG~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~D   76 (196)
T PRK00454         22 DDGPEIAFAGR----------------------SNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVD   76 (196)
T ss_pred             CCCCEEEEEcC----------------------CCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeC
Confidence            34568999999                      999999999999998777777788886654433332   36799999


Q ss_pred             cCCc----------ccccccchhhhccC---CEEEEEEeCCChhhHHH--HHHHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         162 TAGQ----------ERFRSMAPMYYRNA---NAALLVFDITQYHSFAA--IKTWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       162 t~G~----------e~~~~~~~~~~~~a---d~iIlV~Dis~~~S~~~--l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      |+|.          +++..+...+++.+   +++++|+|.+++.+...  +.+|+   ..   ..+|+++|+||+|+...
T Consensus        77 tpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l---~~---~~~~~iiv~nK~Dl~~~  150 (196)
T PRK00454         77 LPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWL---KE---YGIPVLIVLTKADKLKK  150 (196)
T ss_pred             CCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHHHHHHHH---HH---cCCcEEEEEECcccCCH
Confidence            9995          33444555666644   67888999877644332  22333   22   24689999999998654


Q ss_pred             cccC--HHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         227 REVN--REEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       227 ~~v~--~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .+..  .+++..+......+++++||+++.|++++++.|.+.+
T Consensus       151 ~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  193 (196)
T PRK00454        151 GERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRAAIAKWL  193 (196)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            3211  1223344443457899999999999999999987765

>cd01889 SelB_euk SelB subfamily

Probab=99.70  E-value=1.4e-16  Score=155.30  Aligned_cols=150  Identities=19%  Similarity=0.139  Sum_probs=95.2

Q ss_pred             CCCCHHHHHHHHHcC----CCCCcc-----CCCcceeEEEEEEE----------ECCeEEEEEEEecCCcccccccchhh
Q psy3029         115 LGVGKTSMVVRYIGK----MFSHHI-----SPTIGASFFTAKIN----------VGENKVKLQVWDTAGQERFRSMAPMY  175 (617)
Q Consensus       115 ~nVGKSSLinrl~~~----~~~~~~-----~~t~g~~~~~~~i~----------~~~~~~~l~i~Dt~G~e~~~~~~~~~  175 (617)
                      +|||||||+++|+..    .+...+     ..|++..+....+.          ..+..+.+.+|||||+..+.......
T Consensus         9 ~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~   88 (192)
T cd01889           9 VDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLIRTIIGG   88 (192)
T ss_pred             CCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHHHHHHHH
Confidence            999999999999872    111111     13444443333332          12336789999999986553333334


Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc--cCHHHHHHHHH-------hcCCeEE
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE--VNREEAFHYSK-------SIGGTYY  246 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--v~~~e~~~~~~-------~~g~~~~  246 (617)
                      ...+|++++|+|+++.........|. . ....  .+|+++|+||+|+.....  ...++..+...       ..+++++
T Consensus        89 ~~~~d~vi~VvD~~~~~~~~~~~~~~-~-~~~~--~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi  164 (192)
T cd01889          89 AQIIDLMLLVVDATKGIQTQTAECLV-I-GEIL--CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPII  164 (192)
T ss_pred             HhhCCEEEEEEECCCCccHHHHHHHH-H-HHHc--CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCEE
Confidence            55789999999998755444333222 1 1212  369999999999864322  11222222111       1356899


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHH
Q psy3029         247 ETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       247 evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++||++|.|+++|+++|..++.
T Consensus       165 ~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         165 PVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             EEeccCCCCHHHHHHHHHhccc
Confidence            9999999999999999988774

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.70  E-value=1.3e-16  Score=168.73  Aligned_cols=159  Identities=23%  Similarity=0.254  Sum_probs=116.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+|+|+                      ||||||||+|+|++.. .....+..|.+++.....+..+..++.++||+
T Consensus       178 ~ikiaiiGr----------------------PNvGKSsLiN~ilgee-R~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTA  234 (444)
T COG1160         178 PIKIAIIGR----------------------PNVGKSSLINAILGEE-RVIVSDIAGTTRDSIDIEFERDGRKYVLIDTA  234 (444)
T ss_pred             ceEEEEEeC----------------------CCCCchHHHHHhccCc-eEEecCCCCccccceeeeEEECCeEEEEEECC
Confidence            469999999                      9999999999999887 56778888999988888877666788999999


Q ss_pred             Ccc----------cccc-cchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         164 GQE----------RFRS-MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       164 G~e----------~~~~-~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      |..          .|.- -....+..+|++++|+|++.+.+-++.. ....+.+   ...+++||.||+|+.++.....+
T Consensus       235 GiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~-ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~  310 (444)
T COG1160         235 GIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLR-IAGLIEE---AGRGIVIVVNKWDLVEEDEATME  310 (444)
T ss_pred             CCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHH-HHHHHHH---cCCCeEEEEEccccCCchhhHHH
Confidence            963          2221 1234577899999999999876544422 2233333   33589999999999765433333


Q ss_pred             HHHHH----HHhc-CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         233 EAFHY----SKSI-GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       233 e~~~~----~~~~-g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +....    .... ..+++.+||++|.|++++|+.+......
T Consensus       311 ~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~~~  352 (444)
T COG1160         311 EFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIYEC  352 (444)
T ss_pred             HHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHHHH
Confidence            33221    1122 2489999999999999999998775544

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.70  E-value=2.4e-16  Score=151.94  Aligned_cols=152  Identities=18%  Similarity=0.144  Sum_probs=104.2

Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCccCCCc--------------ceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhc
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHHISPTI--------------GASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR  177 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~~~~t~--------------g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~  177 (617)
                      +|.+|+|||||+|+|++.........+.              +.+.......+......+.+|||+|+..+...+..++.
T Consensus         5 ~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~   84 (189)
T cd00881           5 AGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVIRGLS   84 (189)
T ss_pred             EeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHHHHHH
Confidence            3339999999999999876543331111              12222212222223568999999999988888888999


Q ss_pred             cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--HHHHHHHHHh--------------c
Q psy3029         178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--REEAFHYSKS--------------I  241 (617)
Q Consensus       178 ~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~~~~~~--------------~  241 (617)
                      .+|++++|+|+.++.+... .+++..+..   ...|+++|+||+|+..+....  .+...+....              .
T Consensus        85 ~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (189)
T cd00881          85 VSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGL  160 (189)
T ss_pred             hcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCC
Confidence            9999999999988664432 334444443   347999999999997532211  2223333332              3


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+++++||++|.|+++++++|.+.+
T Consensus       161 ~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         161 LVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             cceEEEEecccCcCHHHHHHHHHhhC
Confidence            46899999999999999999998765

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.69  E-value=5e-16  Score=167.88  Aligned_cols=154  Identities=18%  Similarity=0.171  Sum_probs=106.9

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCCC-cc-CCCcceeEEEEEEEECCeEEEEEEEecCCccc----ccccchhhh---ccC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFSH-HI-SPTIGASFFTAKINVGENKVKLQVWDTAGQER----FRSMAPMYY---RNA  179 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~~-~~-~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~----~~~~~~~~~---~~a  179 (617)
                      ++|+|+||||||||+++|++.+... .+ ..|....+.  .+.+. ....|.+||+||...    ...+...|+   +.+
T Consensus       161 VglVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG--~v~~~-~~~~~~laD~PGliega~~~~gLg~~fLrhier~  237 (424)
T PRK12297        161 VGLVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLG--VVETD-DGRSFVMADIPGLIEGASEGVGLGHQFLRHIERT  237 (424)
T ss_pred             EEEEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEE--EEEEe-CCceEEEEECCCCcccccccchHHHHHHHHHhhC
Confidence            3444449999999999999876321 11 112222211  12222 145799999999743    223444444   469


Q ss_pred             CEEEEEEeCCCh---hhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCC
Q psy3029         180 NAALLVFDITQY---HSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQ  254 (617)
Q Consensus       180 d~iIlV~Dis~~---~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~  254 (617)
                      +++|+|+|+++.   .+++.+..|..++..+..  ..+|++||+||+|+...    .+....+++.++.+++++||+++.
T Consensus       238 ~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~----~e~l~~l~~~l~~~i~~iSA~tge  313 (424)
T PRK12297        238 RVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA----EENLEEFKEKLGPKVFPISALTGQ  313 (424)
T ss_pred             CEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC----HHHHHHHHHHhCCcEEEEeCCCCC
Confidence            999999999864   567777778888776543  35799999999998431    234556666677889999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy3029         255 GIEDVFLNVSKGLIC  269 (617)
Q Consensus       255 gI~eLf~~I~~~l~~  269 (617)
                      |+++|+++|.+.+..
T Consensus       314 GI~eL~~~L~~~l~~  328 (424)
T PRK12297        314 GLDELLYAVAELLEE  328 (424)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999887754

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.69  E-value=3.1e-16  Score=177.09  Aligned_cols=147  Identities=20%  Similarity=0.222  Sum_probs=111.1

Q ss_pred             CCCCHHHHHHHHHcC-------CCCCccCC------CcceeEEEEEEEE-----CCeEEEEEEEecCCcccccccchhhh
Q psy3029         115 LGVGKTSMVVRYIGK-------MFSHHISP------TIGASFFTAKINV-----GENKVKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~-------~~~~~~~~------t~g~~~~~~~i~~-----~~~~~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      .++|||||+++|+..       .+...+.+      ..|.++....+.+     ++..+.+.||||||+.+|...+..++
T Consensus        12 ~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~~~v~~~l   91 (595)
T TIGR01393        12 IDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSL   91 (595)
T ss_pred             CCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHHHHHHHHH
Confidence            999999999999864       12223333      3477776655444     45678999999999999998899999


Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC---eEEEEcCCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG---TYYETSALQD  253 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~---~~~evSAktg  253 (617)
                      +.+|++|+|+|+++..+++.+..|...+.    .++|+++|+||+|+....  ..+...++...+++   .++++||++|
T Consensus        92 ~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~vi~vSAktG  165 (595)
T TIGR01393        92 AACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASEAILASAKTG  165 (595)
T ss_pred             HhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcceEEEeeccCC
Confidence            99999999999999777776666654432    247999999999986422  12223445555665   4899999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGL  267 (617)
Q Consensus       254 ~gI~eLf~~I~~~l  267 (617)
                      .||+++|+.|.+.+
T Consensus       166 ~GI~~Lle~I~~~l  179 (595)
T TIGR01393       166 IGIEEILEAIVKRV  179 (595)
T ss_pred             CCHHHHHHHHHHhC
Confidence            99999999998765

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>PRK11058 GTPase HflX; Provisional

Probab=99.69  E-value=3.9e-16  Score=169.59  Aligned_cols=149  Identities=18%  Similarity=0.091  Sum_probs=100.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc--cccch------hhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF--RSMAP------MYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~--~~~~~------~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++.++.....+....+.....+.+.+. ..+.+|||+|..+.  ..++.      ..+.++|++|+|+
T Consensus       206 ~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~Vv  284 (426)
T PRK11058        206 TNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVV  284 (426)
T ss_pred             CCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEE
Confidence            999999999999987653222222233333444444442 25789999998432  12222      3367899999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe-EEEEcCCCCCCHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~-~~evSAktg~gI~eLf~~I~~  265 (617)
                      |++++.++..+..|...+......++|+++|+||+|+.....   ... .. ...+++ ++++||++|.|+++|+++|.+
T Consensus       285 DaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~-~~-~~~~~~~~v~ISAktG~GIdeL~e~I~~  359 (426)
T PRK11058        285 DAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRI-DR-DEENKPIRVWLSAQTGAGIPLLFQALTE  359 (426)
T ss_pred             eCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHH-HH-HhcCCCceEEEeCCCCCCHHHHHHHHHH
Confidence            999988877775554444443334579999999999864211   111 11 123555 588999999999999999998


Q ss_pred             HHHH
Q psy3029         266 GLIC  269 (617)
Q Consensus       266 ~l~~  269 (617)
                      .+..
T Consensus       360 ~l~~  363 (426)
T PRK11058        360 RLSG  363 (426)
T ss_pred             Hhhh
Confidence            7743

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.69  E-value=2.7e-16  Score=151.58  Aligned_cols=148  Identities=16%  Similarity=0.197  Sum_probs=102.3

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      +...++|+|+|+                      +|||||||+|+|++..+...+.+++|.+.....+..++   .+.+|
T Consensus        15 ~~~~~~i~ivG~----------------------~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~li   69 (179)
T TIGR03598        15 PDDGPEIAFAGR----------------------SNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLV   69 (179)
T ss_pred             CCCCCEEEEEcC----------------------CCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEE
Confidence            355678999999                      99999999999999876666677777665544444332   58999


Q ss_pred             ecCCcc----------cccccchhhhcc---CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc
Q psy3029         161 DTAGQE----------RFRSMAPMYYRN---ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR  227 (617)
Q Consensus       161 Dt~G~e----------~~~~~~~~~~~~---ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~  227 (617)
                      ||+|..          .+..+...|++.   ++++|+|+|++++.+.... .++..+..   ..+|+++|+||+|+....
T Consensus        70 DtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~  145 (179)
T TIGR03598        70 DLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKS  145 (179)
T ss_pred             eCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHH
Confidence            999952          334444556653   5799999999886554443 22333332   347999999999986432


Q ss_pred             c--cCHHHHHHHHHhcC--CeEEEEcCCCCCCHH
Q psy3029         228 E--VNREEAFHYSKSIG--GTYYETSALQDQGIE  257 (617)
Q Consensus       228 ~--v~~~e~~~~~~~~g--~~~~evSAktg~gI~  257 (617)
                      +  ...+++.+.+...+  ..+|++||++|+|++
T Consensus       146 ~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       146 ELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             HHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence            2  12344445555544  479999999999974

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.69  E-value=5.6e-16  Score=169.93  Aligned_cols=149  Identities=23%  Similarity=0.209  Sum_probs=98.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccc-----------hhhhccCCEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMA-----------PMYYRNANAAL  183 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~-----------~~~~~~ad~iI  183 (617)
                      +|||||||+|+|++.... ...+..|.+.......+......+.+|||+|..++....           ..+++.+|++|
T Consensus       181 ~~~GKSsLin~l~~~~~~-~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~i  259 (429)
T TIGR03594       181 PNVGKSTLVNALLGEERV-IVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVL  259 (429)
T ss_pred             CCCCHHHHHHHHHCCCee-ecCCCCCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEE
Confidence            999999999999986532 222333444333332322223478999999975543221           24678999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH-HHHHh----cCCeEEEEcCCCCCCHHH
Q psy3029         184 LVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF-HYSKS----IGGTYYETSALQDQGIED  258 (617)
Q Consensus       184 lV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~-~~~~~----~g~~~~evSAktg~gI~e  258 (617)
                      +|+|++++.+..+.. ++..+..   ..+|+++|+||+|+..... ..++.. .+...    .+++++++||++|.|+++
T Consensus       260 lV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~  334 (429)
T TIGR03594       260 LVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLVKDEK-TREEFKKELRRKLPFLDFAPIVFISALTGQGVDK  334 (429)
T ss_pred             EEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccCCCHH-HHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHH
Confidence            999999887766543 3444433   3479999999999972111 111221 11112    246899999999999999


Q ss_pred             HHHHHHHHHHH
Q psy3029         259 VFLNVSKGLIC  269 (617)
Q Consensus       259 Lf~~I~~~l~~  269 (617)
                      +|+++.+.+..
T Consensus       335 l~~~i~~~~~~  345 (429)
T TIGR03594       335 LLDAIDEVYEN  345 (429)
T ss_pred             HHHHHHHHHHH
Confidence            99999886644

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>KOG0096|consensus

Probab=99.68  E-value=7.5e-17  Score=150.52  Aligned_cols=161  Identities=27%  Similarity=0.533  Sum_probs=140.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+|++++|+                      .|.|||++++|.+.+.|...+.+|+|++.......-+.+.++|..|||+
T Consensus        10 ~fklvlvGd----------------------gg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdta   67 (216)
T KOG0096|consen   10 TFKLVLVGD----------------------GGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTA   67 (216)
T ss_pred             eEEEEEecC----------------------CcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecc
Confidence            468889999                      9999999999999999999999999999877666555567999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |+|.+..+...|+-...+.|++||++.+-++.++.+|-..+.+.+.. +||+++|||.|... +++ ..+...+-+..++
T Consensus        68 gqEk~gglrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~~N-iPiv~cGNKvDi~~-r~~-k~k~v~~~rkknl  144 (216)
T KOG0096|consen   68 GQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVREN-IPIVLCGNKVDIKA-RKV-KAKPVSFHRKKNL  144 (216)
T ss_pred             cceeecccccccEEecceeEEEeeeeehhhhhcchHHHHHHHHHhcC-CCeeeeccceeccc-ccc-ccccceeeecccc
Confidence            99999999999999999999999999999999999999999887755 99999999999754 322 2233456677788


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .++++||+++.|.+.-|-++.+++..
T Consensus       145 ~y~~iSaksn~NfekPFl~LarKl~G  170 (216)
T KOG0096|consen  145 QYYEISAKSNYNFERPFLWLARKLTG  170 (216)
T ss_pred             eeEEeecccccccccchHHHhhhhcC
Confidence            99999999999999999999988754

>KOG4423|consensus

Probab=99.67  E-value=3.5e-18  Score=158.68  Aligned_cols=157  Identities=33%  Similarity=0.578  Sum_probs=136.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCe-EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN-KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~-~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      -+||||+++.+++...|...|..|+|++|..+.+..+.+ .+++++||++|++++..|.+.|++.+.+.++|||++...+
T Consensus        34 ~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~t  113 (229)
T KOG4423|consen   34 LGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLT  113 (229)
T ss_pred             ccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEcccccc
Confidence            999999999999999999999999999998888877654 5789999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcC----CCCCeEEEEEECCCCCCccccC-HHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         194 FAAIKTWVKELKRNV----DEPLVLCVVGNKTDLESSREVN-REEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~----~~~iPvIlVgNK~DL~~~~~v~-~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      |+...+|...+....    ..++|+++.+||||........ .....++++++|+ ..+++|+|.+.+++|+-..+++.+
T Consensus       114 fe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~  193 (229)
T KOG4423|consen  114 FEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNIPEAQRELVEKI  193 (229)
T ss_pred             ccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccChhHHHHHHHHHH
Confidence            999999999976543    2468899999999986432222 3556688888988 799999999999999999999988


Q ss_pred             HHhh
Q psy3029         268 ICLS  271 (617)
Q Consensus       268 ~~~~  271 (617)
                      ....
T Consensus       194 lvnd  197 (229)
T KOG4423|consen  194 LVND  197 (229)
T ss_pred             Hhhc
Confidence            7654

>cd01895 EngA2 EngA2 subfamily

Probab=99.67  E-value=1.5e-15  Score=143.66  Aligned_cols=145  Identities=22%  Similarity=0.179  Sum_probs=92.9

Q ss_pred             CCCCHHHHHHHHHcCCCCC-ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc-----------cchhhhccCCEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS-----------MAPMYYRNANAA  182 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~-~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~-----------~~~~~~~~ad~i  182 (617)
                      +|+|||||+++|++..... ...+..........+..++  ..+.+|||+|..+...           ....++..+|++
T Consensus        11 ~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~v   88 (174)
T cd01895          11 PNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG--KKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVV   88 (174)
T ss_pred             CCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC--eeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeE
Confidence            9999999999999865321 1112222222223333343  3578999999743311           012346789999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH-HHHHhc----CCeEEEEcCCCCCCHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF-HYSKSI----GGTYYETSALQDQGIE  257 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~-~~~~~~----g~~~~evSAktg~gI~  257 (617)
                      ++|+|+.++.+.... .++..+..   ...|+++|+||+|+........++.. .+...+    ..+++++||+++.|++
T Consensus        89 i~v~d~~~~~~~~~~-~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  164 (174)
T cd01895          89 LLVIDATEGITEQDL-RIAGLILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVD  164 (174)
T ss_pred             EEEEeCCCCcchhHH-HHHHHHHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHH
Confidence            999999988775543 23333332   23699999999998754322222222 222333    3589999999999999


Q ss_pred             HHHHHHHH
Q psy3029         258 DVFLNVSK  265 (617)
Q Consensus       258 eLf~~I~~  265 (617)
                      ++++.+.+
T Consensus       165 ~~~~~l~~  172 (174)
T cd01895         165 KLFDAIDE  172 (174)
T ss_pred             HHHHHHHH
Confidence            99998865

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.67  E-value=1.4e-15  Score=145.56  Aligned_cols=154  Identities=18%  Similarity=0.218  Sum_probs=113.0

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      ..|+++|+                      +|||||||||+|++.+-.+....|+|.+.....+.+++.   +.++|.||
T Consensus        25 ~EIaF~GR----------------------SNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPG   79 (200)
T COG0218          25 PEIAFAGR----------------------SNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPG   79 (200)
T ss_pred             cEEEEEcc----------------------CcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCC
Confidence            38999999                      999999999999998877889999998876666655554   88999999


Q ss_pred             c----------ccccccchhhhc---cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH
Q psy3029         165 Q----------ERFRSMAPMYYR---NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR  231 (617)
Q Consensus       165 ~----------e~~~~~~~~~~~---~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~  231 (617)
                      .          +.+..++..|++   +..++++++|+.++..-.+. +.+..+.+   ..+|++||+||+|.....+...
T Consensus        80 YGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~---~~i~~~vv~tK~DKi~~~~~~k  155 (200)
T COG0218          80 YGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLE---LGIPVIVVLTKADKLKKSERNK  155 (200)
T ss_pred             cccccCCHHHHHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHH---cCCCeEEEEEccccCChhHHHH
Confidence            6          456667777776   46788999999887543332 22333332   3479999999999876543221


Q ss_pred             HHHHHHHHhcC----Ce--EEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSIG----GT--YYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       232 ~e~~~~~~~~g----~~--~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                       .....++.+.    ..  ++.+|+.++.|++++...|...+.
T Consensus       156 -~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~  197 (200)
T COG0218         156 -QLNKVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLK  197 (200)
T ss_pred             -HHHHHHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhh
Confidence             1223333332    22  788999999999999999887664

>KOG0071|consensus

Probab=99.66  E-value=1.5e-15  Score=134.96  Aligned_cols=156  Identities=20%  Similarity=0.309  Sum_probs=124.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +.++|+++|-                      .++||||++.+|+-+. .....||+|..+.+..+    ++++|++||.
T Consensus        16 KE~~ilmlGL----------------------d~aGKTtiLyKLkl~~-~~~~ipTvGFnvetVty----kN~kfNvwdv   68 (180)
T KOG0071|consen   16 KEMRILMLGL----------------------DAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVTY----KNVKFNVWDV   68 (180)
T ss_pred             ccceEEEEec----------------------ccCCceehhhHHhcCC-CcccccccceeEEEEEe----eeeEEeeeec
Confidence            3568888888                      9999999999999877 56777999977666555    7899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHHHHh-
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHYSKS-  240 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-  240 (617)
                      +|+++.+.+|+.|+....++|||+|..+....++...-+..+... .-...|++|.+||.|+....  ..+++..+... 
T Consensus        69 GGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~--~pqei~d~leLe  146 (180)
T KOG0071|consen   69 GGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAM--KPQEIQDKLELE  146 (180)
T ss_pred             cCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccccc--CHHHHHHHhccc
Confidence            999999999999999999999999999887777776555544332 22458999999999997543  35555554432 


Q ss_pred             ----cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         241 ----IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       241 ----~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                          ....+..+||.+|.|+.+-|.+|...+
T Consensus       147 ~~r~~~W~vqp~~a~~gdgL~eglswlsnn~  177 (180)
T KOG0071|consen  147 RIRDRNWYVQPSCALSGDGLKEGLSWLSNNL  177 (180)
T ss_pred             cccCCccEeeccccccchhHHHHHHHHHhhc
Confidence                223578899999999999999987654

>cd04163 Era Era subfamily

Probab=99.66  E-value=1.5e-15  Score=142.21  Aligned_cols=146  Identities=17%  Similarity=0.169  Sum_probs=94.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc--------cchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS--------MAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~--------~~~~~~~~ad~iIlV~  186 (617)
                      +|+|||||+++|++....... +....+..............+.+|||+|......        .....+..+|++++|+
T Consensus        12 ~g~GKttl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~   90 (168)
T cd04163          12 PNVGKSTLLNALVGQKISIVS-PKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVV   90 (168)
T ss_pred             CCCCHHHHHHHHhCCceEecc-CCCCceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEE
Confidence            999999999999987642221 1111222222222333456789999999754322        2344577899999999


Q ss_pred             eCCChhhHHHHHH-HHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       187 Dis~~~S~~~l~~-~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~  264 (617)
                      |++++.  ..... ++..+..   ...|+++|+||+|+........+....+..... .+++++|++++.|++++++.|.
T Consensus        91 d~~~~~--~~~~~~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~  165 (168)
T cd04163          91 DASEPI--GEGDEFILELLKK---SKTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIV  165 (168)
T ss_pred             ECCCcc--CchHHHHHHHHHH---hCCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHH
Confidence            999872  22222 2333332   236999999999986433222333334444443 5899999999999999999987


Q ss_pred             HH
Q psy3029         265 KG  266 (617)
Q Consensus       265 ~~  266 (617)
                      +.
T Consensus       166 ~~  167 (168)
T cd04163         166 KY  167 (168)
T ss_pred             hh
Confidence            64

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.66  E-value=2.4e-15  Score=164.57  Aligned_cols=159  Identities=16%  Similarity=0.090  Sum_probs=103.0

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc----cccc---hhhhccCCE
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF----RSMA---PMYYRNANA  181 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~----~~~~---~~~~~~ad~  181 (617)
                      ++|+|+||||||||+|+|++.+...  ...++.+.......+......|.||||||....    ..+.   -.+++++|+
T Consensus       162 V~LVG~PNAGKSTLln~Ls~akpkI--adypfTTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradv  239 (500)
T PRK12296        162 VGLVGFPSAGKSSLISALSAAKPKI--ADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAV  239 (500)
T ss_pred             EEEEEcCCCCHHHHHHHHhcCCccc--cccCcccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCE
Confidence            4445559999999999999875422  122222222222222223467999999996321    1111   224568999


Q ss_pred             EEEEEeCCCh----hhHHHHHHHHHHHHhcCC-----------CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEE
Q psy3029         182 ALLVFDITQY----HSFAAIKTWVKELKRNVD-----------EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYY  246 (617)
Q Consensus       182 iIlV~Dis~~----~S~~~l~~~l~~i~~~~~-----------~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~  246 (617)
                      +|+|+|+++.    ..+.++..|..++..+..           ...|+|||+||+|+.+.... .+.....+...+++++
T Consensus       240 Lv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el-~e~l~~~l~~~g~~Vf  318 (500)
T PRK12296        240 LVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAREL-AEFVRPELEARGWPVF  318 (500)
T ss_pred             EEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHH-HHHHHHHHHHcCCeEE
Confidence            9999999753    345555555555544321           24799999999999654332 1222333445578999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         247 ETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       247 evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +|||+++.|+++|+.+|.+.+...
T Consensus       319 ~ISA~tgeGLdEL~~~L~ell~~~  342 (500)
T PRK12296        319 EVSAASREGLRELSFALAELVEEA  342 (500)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhh
Confidence            999999999999999998887553

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.66  E-value=9e-16  Score=173.42  Aligned_cols=146  Identities=16%  Similarity=0.144  Sum_probs=105.2

Q ss_pred             CCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccccc------chhhhc--cCCEEEE
Q psy3029         113 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSM------APMYYR--NANAALL  184 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~------~~~~~~--~ad~iIl  184 (617)
                      |.+|||||||+|+|++..+.....++..++.....+..++  ..+++|||||++++...      .+.++.  .+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            5699999999999998875434444444444444444444  46899999999876543      344443  7999999


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         185 VFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       185 V~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                      |+|.++.+.   ...+..++.+   .++|+++|+||+|+.+++.+. .+...+.+.++++++++||++|.|++++++.+.
T Consensus        79 VvDat~ler---~l~l~~ql~~---~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~  151 (591)
T TIGR00437        79 VVDASNLER---NLYLTLQLLE---LGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             EecCCcchh---hHHHHHHHHh---cCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHH
Confidence            999987432   1223333332   357999999999986554443 345678888999999999999999999999998


Q ss_pred             HHH
Q psy3029         265 KGL  267 (617)
Q Consensus       265 ~~l  267 (617)
                      +..
T Consensus       152 ~~~  154 (591)
T TIGR00437       152 KAI  154 (591)
T ss_pred             HHh
Confidence            753

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.65  E-value=1.3e-15  Score=163.71  Aligned_cols=158  Identities=16%  Similarity=0.119  Sum_probs=106.3

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEEecCCcccccc----c---chhhhccCC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVWDTAGQERFRS----M---APMYYRNAN  180 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~Dt~G~e~~~~----~---~~~~~~~ad  180 (617)
                      ++|+|+||||||||+|+|++.+.  ...+.++.++......+. .....+.|+||||..+-..    +   .-.+++.+|
T Consensus       162 ValVG~PNaGKSTLln~Lt~~k~--~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~rad  239 (390)
T PRK12298        162 VGLLGLPNAGKSTFIRAVSAAKP--KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCR  239 (390)
T ss_pred             EEEEcCCCCCHHHHHHHHhCCcc--cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCC
Confidence            44555599999999999998764  222222333222222221 1234689999999753211    1   123577899


Q ss_pred             EEEEEEeCC---ChhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEcCCCC
Q psy3029         181 AALLVFDIT---QYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETSALQD  253 (617)
Q Consensus       181 ~iIlV~Dis---~~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evSAktg  253 (617)
                      ++|+|+|++   ....+..+..|+.++..+..  ...|++||+||+|+.....+ .+....+.+.++  .+++.+||+++
T Consensus       240 vlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg  318 (390)
T PRK12298        240 VLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASG  318 (390)
T ss_pred             EEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCC
Confidence            999999998   44567777778887776532  24699999999998654332 233444555444  37899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGLIC  269 (617)
Q Consensus       254 ~gI~eLf~~I~~~l~~  269 (617)
                      .||++|++.|.+.+..
T Consensus       319 ~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        319 LGVKELCWDLMTFIEE  334 (390)
T ss_pred             cCHHHHHHHHHHHhhh
Confidence            9999999999887754

>cd00880 Era_like Era (E

Probab=99.64  E-value=3.6e-15  Score=137.91  Aligned_cols=151  Identities=19%  Similarity=0.159  Sum_probs=100.5

Q ss_pred             CCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCccccccc-------chhhhccCCEE
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSM-------APMYYRNANAA  182 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~-------~~~~~~~ad~i  182 (617)
                      |+|.+|+|||||+++|++.... ....+.............. ....+.+||++|...+...       ...++..+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            4677999999999999986543 1111211112222222222 1467999999998765433       34478899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH---HHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE---EAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~---e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                      ++|+|..+..+..... |+.....   ...|+++|+||+|+.........   .........+.+++++||+++.|++++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~~---~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l  155 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLRE---RGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDEL  155 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHh---cCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHH
Confidence            9999999987665544 3333332   34799999999998754332211   112223334568999999999999999


Q ss_pred             HHHHHHH
Q psy3029         260 FLNVSKG  266 (617)
Q Consensus       260 f~~I~~~  266 (617)
                      +++|.+.
T Consensus       156 ~~~l~~~  162 (163)
T cd00880         156 REALIEA  162 (163)
T ss_pred             HHHHHhh
Confidence            9998764

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.64  E-value=3.4e-15  Score=167.99  Aligned_cols=154  Identities=18%  Similarity=0.188  Sum_probs=109.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      .+..+|+++|.                      +++|||||+++|.+..+.....+.+..++....+.+.+. ..+.|||
T Consensus        85 ~r~p~V~I~Gh----------------------vd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iD  141 (587)
T TIGR00487        85 ERPPVVTIMGH----------------------VDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLD  141 (587)
T ss_pred             cCCCEEEEECC----------------------CCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEE
Confidence            34468999999                      999999999999988776554444444444444444332 2789999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |||++.|..++..++..+|++|+|+|+++...-+.... +..+.   ..++|+++++||+|+...   ..++....+..+
T Consensus       142 TPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~-i~~~~---~~~vPiIVviNKiDl~~~---~~e~v~~~L~~~  214 (587)
T TIGR00487       142 TPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEA-ISHAK---AANVPIIVAINKIDKPEA---NPDRVKQELSEY  214 (587)
T ss_pred             CCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHH-HHHHH---HcCCCEEEEEECcccccC---CHHHHHHHHHHh
Confidence            99999999998889999999999999987432222211 12222   234799999999998542   223333333222


Q ss_pred             C---------CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         242 G---------GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       242 g---------~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +         .+++++||++|.|+++++++|..
T Consensus       215 g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       215 GLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             hhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            2         47999999999999999999863

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.63  E-value=3.1e-15  Score=172.90  Aligned_cols=144  Identities=15%  Similarity=0.165  Sum_probs=110.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccccc----------chhhh--ccCCEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSM----------APMYY--RNANAA  182 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~----------~~~~~--~~ad~i  182 (617)
                      ||||||||+|+|++.+.  .+.+.+|.++..+...+.....++.+|||||...+...          ...++  ..+|++
T Consensus        12 pNvGKSTLfN~Ltg~~~--~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~v   89 (772)
T PRK09554         12 PNSGKTTLFNQLTGARQ--RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLL   89 (772)
T ss_pred             CCCCHHHHHHHHhCCCC--ccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEE
Confidence            99999999999998764  45566788887777777777788999999998765421          22343  379999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~  262 (617)
                      ++|+|.++.+.-   ..|..++.+   .++|+++|+||+|+.+.+.+. ....++.+.+|++++++||++++|++++++.
T Consensus        90 I~VvDat~ler~---l~l~~ql~e---~giPvIvVlNK~Dl~~~~~i~-id~~~L~~~LG~pVvpiSA~~g~GIdeL~~~  162 (772)
T PRK09554         90 INVVDASNLERN---LYLTLQLLE---LGIPCIVALNMLDIAEKQNIR-IDIDALSARLGCPVIPLVSTRGRGIEALKLA  162 (772)
T ss_pred             EEEecCCcchhh---HHHHHHHHH---cCCCEEEEEEchhhhhccCcH-HHHHHHHHHhCCCEEEEEeecCCCHHHHHHH
Confidence            999999885432   234444444   347999999999987555443 3456778889999999999999999999999


Q ss_pred             HHHHH
Q psy3029         263 VSKGL  267 (617)
Q Consensus       263 I~~~l  267 (617)
                      +.+..
T Consensus       163 I~~~~  167 (772)
T PRK09554        163 IDRHQ  167 (772)
T ss_pred             HHHhh
Confidence            87654

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.63  E-value=3.5e-15  Score=168.49  Aligned_cols=146  Identities=22%  Similarity=0.182  Sum_probs=105.7

Q ss_pred             CCCCCHHHHHHHHHcC---CCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCC
Q psy3029         114 WLGVGKTSMVVRYIGK---MFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ  190 (617)
Q Consensus       114 ~~nVGKSSLinrl~~~---~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~  190 (617)
                      .+++|||||+++|++.   .+...+..++..++....+...+  ..+.|||+||+++|......++.++|++|+|+|+++
T Consensus         8 ~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~   85 (581)
T TIGR00475         8 HVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADE   85 (581)
T ss_pred             CCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCC
Confidence            3999999999999963   33344445555555444454444  789999999999998877788899999999999988


Q ss_pred             ---hhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcccc--CHHHHHHHHHhc----CCeEEEEcCCCCCCHHHHH
Q psy3029         191 ---YHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREV--NREEAFHYSKSI----GGTYYETSALQDQGIEDVF  260 (617)
Q Consensus       191 ---~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v--~~~e~~~~~~~~----g~~~~evSAktg~gI~eLf  260 (617)
                         +.+++.+.    .+..   .++| ++||+||+|+.++..+  ..+++..++...    +++++++||++|.|+++++
T Consensus        86 G~~~qT~ehl~----il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~  158 (581)
T TIGR00475        86 GVMTQTGEHLA----VLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIGELK  158 (581)
T ss_pred             CCcHHHHHHHH----HHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHH
Confidence               34444332    2222   2356 9999999999754432  123444555544    4689999999999999999


Q ss_pred             HHHHHHHH
Q psy3029         261 LNVSKGLI  268 (617)
Q Consensus       261 ~~I~~~l~  268 (617)
                      +.|...+.
T Consensus       159 ~~L~~l~~  166 (581)
T TIGR00475       159 KELKNLLE  166 (581)
T ss_pred             HHHHHHHH
Confidence            98876654

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.62  E-value=3.7e-15  Score=146.90  Aligned_cols=107  Identities=18%  Similarity=0.159  Sum_probs=76.0

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh----hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc-
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY----HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV-  229 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~----~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v-  229 (617)
                      ..+.||||||+++|.......+.++|++|+|+|++++    .++..+.    .+...  ...|++||+||+|+...... 
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~----~~~~~--~~~~iiivvNK~Dl~~~~~~~  156 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLA----ALEIM--GLKHIIIVQNKIDLVKEEQAL  156 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHH----HHHHc--CCCcEEEEEEchhccCHHHHH
Confidence            6789999999998877777777889999999999874    2233222    22221  11378999999999653221 


Q ss_pred             -CHHHHHHHHHhc---CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         230 -NREEAFHYSKSI---GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       230 -~~~e~~~~~~~~---g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                       ..+++.+++..+   +++++++||++|.|+++|++.|.+.+
T Consensus       157 ~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         157 ENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence             112333444332   56899999999999999999998755

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.62  E-value=4.3e-15  Score=157.81  Aligned_cols=155  Identities=20%  Similarity=0.219  Sum_probs=116.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+|+|+                      ||||||||+|.|++.. .+.+.+-+|.+++..+..++-+.+.+.++||
T Consensus       216 ~G~kvvIiG~----------------------PNvGKSSLLNaL~~~d-~AIVTdI~GTTRDviee~i~i~G~pv~l~DT  272 (454)
T COG0486         216 EGLKVVIIGR----------------------PNVGKSSLLNALLGRD-RAIVTDIAGTTRDVIEEDINLNGIPVRLVDT  272 (454)
T ss_pred             cCceEEEECC----------------------CCCcHHHHHHHHhcCC-ceEecCCCCCccceEEEEEEECCEEEEEEec
Confidence            3479999999                      9999999999999887 6788888899988888887777789999999


Q ss_pred             CCccccccc--------chhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         163 AGQERFRSM--------APMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       163 ~G~e~~~~~--------~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      +|..+-...        ....+++||++++|+|.+.+.+-.+.. .+.    ..+.+.|+++|.||+||..+....    
T Consensus       273 AGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~-~~~----~~~~~~~~i~v~NK~DL~~~~~~~----  343 (454)
T COG0486         273 AGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLA-LIE----LLPKKKPIIVVLNKADLVSKIELE----  343 (454)
T ss_pred             CCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHH-HHH----hcccCCCEEEEEechhcccccccc----
Confidence            997433222        345677999999999999863322211 111    234457999999999997643311    


Q ss_pred             HHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       235 ~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                       .+....+.+++.+||++|.|++.|.+.|.+.+...
T Consensus       344 -~~~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         344 -SEKLANGDAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             -hhhccCCCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence             11112344799999999999999999998877654

>COG5180 PBP1 Protein interacting with poly(A)-binding protein [RNA processing and modification]

Probab=99.62  E-value=3e-16  Score=162.22  Aligned_cols=124  Identities=19%  Similarity=0.200  Sum_probs=85.7

Q ss_pred             CCEEEEEEeCCcEEEEEEeeecCC-ceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecccccc---------
Q psy3029         461 GDKVTVYTVHGKQFEGYLKTFSKQ-FELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDLE---------  530 (617)
Q Consensus       461 G~~v~v~~~~G~~y~Gi~~~~s~~-~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~v~~~---------  530 (617)
                      |+.|.+++.||..      .+.-| .|||+..++.+.+...             +...|+..+.- +..|.         
T Consensus        34 GS~I~~~~Tn~~~------~~nlEsi~vv~~nprV~~~gVs-------------~s~sD~~t~~~-~~sl~~~~en~~s~   93 (654)
T COG5180          34 GSIIGAFLTNEDG------KVNLESIDVVETNPRVVFPGVS-------------ISESDIITVTK-MNSLQAEKENDASE   93 (654)
T ss_pred             cceeeeeeecCCc------cceeeeeeeeecCCccccCccc-------------cccchhhhhhc-cchhhhhhcccccc
Confidence            9999999999722      12211 6788888887754321             12222222210 11110         


Q ss_pred             --ccc-----cCcccchhhhcccCCCCCCcccccCcCCCC-------------CCCCCCcchhhhccccCCCCccCCccc
Q psy3029         531 --YAV-----RDTFATDTAISKFNGVIGERELEPWAEDML-------------GPGGDDDFELDQMCNHNVGTATSSIKM  590 (617)
Q Consensus       531 --~~~-----~~~f~TDt~IS~~n~~~~ereL~~W~p~~~-------------~~~~~d~f~~ne~~~~~~st~de~l~~  590 (617)
                        .+.     .--||||.+||+.-.+++||+|.||.|+..             ..-.||||++||.||||||+|||+|  
T Consensus        94 ~gsa~~n~s~~rvfrTDv~ISg~~rE~keR~l~~w~p~p~aa~~~~~G~~le~d~~~WdQFa~NeKlFgVkS~FDE~l--  171 (654)
T COG5180          94 RGSAAKNDSGWRVFRTDVEISGGPREIKERKLMPWAPLPKAADLEKSGKALEEDCKDWDQFAANEKLFGVKSRFDEEL--  171 (654)
T ss_pred             ccccccccccceeeeecceecCCcchhhhhhhcccCCCccccCCccccchhhcccchHHHhhhhhhhcCccccccHHH--
Confidence              011     125999999998667899999999999631             3346999999999999999999999  


Q ss_pred             cccccCC-CCCchHHHH
Q psy3029         591 FIFPLIQ-VAPYTMEES  606 (617)
Q Consensus       591 yt~~l~~-~~~~~~~~~  606 (617)
                      ||++||| +|-|+++++
T Consensus       172 Yt~~idks~p~Yk~k~q  188 (654)
T COG5180         172 YTEVIDKSSPSYKSKVQ  188 (654)
T ss_pred             HhhhhccCChhhHHHHH
Confidence            9999999 666666654

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.61  E-value=9.5e-15  Score=160.53  Aligned_cols=149  Identities=21%  Similarity=0.178  Sum_probs=98.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccccc-----------chhhhccCCEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSM-----------APMYYRNANAAL  183 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~-----------~~~~~~~ad~iI  183 (617)
                      +|||||||+|+|++... ....+..|.++......+......+.+|||+|..+....           ...+++.+|++|
T Consensus       182 ~n~GKStlin~ll~~~~-~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~i  260 (435)
T PRK00093        182 PNVGKSSLINALLGEER-VIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVL  260 (435)
T ss_pred             CCCCHHHHHHHHhCCCc-eeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEE
Confidence            99999999999997652 223344555555544444334456789999996432211           123677999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHH----hcCCeEEEEcCCCCCCHHHH
Q psy3029         184 LVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSK----SIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       184 lV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~----~~g~~~~evSAktg~gI~eL  259 (617)
                      +|+|++++.+..+.. ++..+.+   ...|++||+||+|+.++... .+....+..    ...++++++||++|.|++++
T Consensus       261 lViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~~-~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l  335 (435)
T PRK00093        261 LVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKTM-EEFKKELRRRLPFLDYAPIVFISALTGQGVDKL  335 (435)
T ss_pred             EEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHHH-HHHHHHHHHhcccccCCCEEEEeCCCCCCHHHH
Confidence            999999887765543 3333333   23699999999998643211 111111111    12468999999999999999


Q ss_pred             HHHHHHHHHH
Q psy3029         260 FLNVSKGLIC  269 (617)
Q Consensus       260 f~~I~~~l~~  269 (617)
                      ++.+.+....
T Consensus       336 ~~~i~~~~~~  345 (435)
T PRK00093        336 LEAIDEAYEN  345 (435)
T ss_pred             HHHHHHHHHH
Confidence            9998876543

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.61  E-value=9e-15  Score=144.14  Aligned_cols=110  Identities=15%  Similarity=0.293  Sum_probs=82.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccC-CEEEEEEeCCCh-h
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNA-NAALLVFDITQY-H  192 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a-d~iIlV~Dis~~-~  192 (617)
                      +|||||||+++|..+.+...+.++ .................+.+||+||++++...+..+++.+ +++|+|+|+.+. .
T Consensus         9 ~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~   87 (203)
T cd04105           9 SDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQK   87 (203)
T ss_pred             CCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchh
Confidence            999999999999998876554433 2222222222223457899999999999988888899998 999999999997 6


Q ss_pred             hHHHHHHHHHHHHhc---CCCCCeEEEEEECCCCCC
Q psy3029         193 SFAAIKTWVKELKRN---VDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       193 S~~~l~~~l~~i~~~---~~~~iPvIlVgNK~DL~~  225 (617)
                      ++..+..|+..+...   ....+|++||+||+|+..
T Consensus        88 ~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          88 NLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             HHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            777777776655332   224689999999999864

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.59  E-value=1.5e-14  Score=135.87  Aligned_cols=143  Identities=23%  Similarity=0.266  Sum_probs=97.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc----------ccccchhhhc---cCCE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER----------FRSMAPMYYR---NANA  181 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~----------~~~~~~~~~~---~ad~  181 (617)
                      +|+|||||+++|++..+.....++++.+.....+..+.   .+.+|||+|...          +..+...|+.   ++++
T Consensus         8 ~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (170)
T cd01876           8 SNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKG   84 (170)
T ss_pred             CCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhE
Confidence            99999999999997766677777777766555544443   789999999532          3344444554   4678


Q ss_pred             EEEEEeCCChhh--HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--HHHHHHHHH--hcCCeEEEEcCCCCCC
Q psy3029         182 ALLVFDITQYHS--FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--REEAFHYSK--SIGGTYYETSALQDQG  255 (617)
Q Consensus       182 iIlV~Dis~~~S--~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~~~~~--~~g~~~~evSAktg~g  255 (617)
                      +++++|.....+  ...+.+|+...      ..|+++|+||+|+.......  ........+  ....+++++||+++.|
T Consensus        85 ~~~v~d~~~~~~~~~~~~~~~l~~~------~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~  158 (170)
T cd01876          85 VVLLIDSRHGPTEIDLEMLDWLEEL------GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKGQG  158 (170)
T ss_pred             EEEEEEcCcCCCHhHHHHHHHHHHc------CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCCCC
Confidence            999999876532  22334555442      26999999999985432211  112222222  2335899999999999


Q ss_pred             HHHHHHHHHHH
Q psy3029         256 IEDVFLNVSKG  266 (617)
Q Consensus       256 I~eLf~~I~~~  266 (617)
                      +++++++|.+.
T Consensus       159 ~~~l~~~l~~~  169 (170)
T cd01876         159 IDELRALIEKW  169 (170)
T ss_pred             HHHHHHHHHHh
Confidence            99999998764

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.59  E-value=1.5e-14  Score=166.57  Aligned_cols=144  Identities=19%  Similarity=0.180  Sum_probs=98.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      .++|||||+++|....+.......+..+.....+.++  ...+.||||||++.|..++..++..+|++|||||+++...-
T Consensus       299 vd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~--~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~  376 (787)
T PRK05306        299 VDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETN--GGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMP  376 (787)
T ss_pred             CCCCHHHHHHHHHhCCccccccCceeeeccEEEEEEC--CEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCH
Confidence            9999999999998877654433332222222333333  35789999999999999998889999999999999874322


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc--ccCHHHHH---HHHHhcC--CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR--EVNREEAF---HYSKSIG--GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~--~v~~~e~~---~~~~~~g--~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +....| ..+.   ..++|+|||+||+|+....  .+. .+..   .++..++  ++++++||++|.||++|++.|..
T Consensus       377 qT~e~i-~~a~---~~~vPiIVviNKiDl~~a~~e~V~-~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~  449 (787)
T PRK05306        377 QTIEAI-NHAK---AAGVPIIVAINKIDKPGANPDRVK-QELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILL  449 (787)
T ss_pred             hHHHHH-HHHH---hcCCcEEEEEECccccccCHHHHH-HHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence            211111 1221   2357999999999995421  111 1111   1223333  68999999999999999999865

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.58  E-value=2.5e-14  Score=163.24  Aligned_cols=145  Identities=17%  Similarity=0.191  Sum_probs=100.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcce--eEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGA--SFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH  192 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~--~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~  192 (617)
                      .++|||||+++|....+.....+++..  ..+...+...+....+.||||||++.|..++..++..+|++|||+|+++..
T Consensus       253 vdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv  332 (742)
T CHL00189        253 VDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGV  332 (742)
T ss_pred             CCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCC
Confidence            999999999999987665433322222  223333333445688999999999999999999999999999999998753


Q ss_pred             hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHH-------HHhcC--CeEEEEcCCCCCCHHHHHHHH
Q psy3029         193 SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHY-------SKSIG--GTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       193 S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~-------~~~~g--~~~~evSAktg~gI~eLf~~I  263 (617)
                      ..+....| ..+.   ...+|+|||+||+|+....   .++....       ...++  ++++++||++|.||++|++.|
T Consensus       333 ~~QT~E~I-~~~k---~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I  405 (742)
T CHL00189        333 KPQTIEAI-NYIQ---AANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETI  405 (742)
T ss_pred             ChhhHHHH-HHHH---hcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhh
Confidence            22222211 2222   2347999999999986432   1222111       22233  589999999999999999988


Q ss_pred             HHH
Q psy3029         264 SKG  266 (617)
Q Consensus       264 ~~~  266 (617)
                      ...
T Consensus       406 ~~l  408 (742)
T CHL00189        406 LLL  408 (742)
T ss_pred             hhh
Confidence            764

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.58  E-value=2.6e-14  Score=161.76  Aligned_cols=147  Identities=21%  Similarity=0.231  Sum_probs=106.3

Q ss_pred             CCCCHHHHHHHHHcCC--C-----CCcc------CCCcceeEEEEEEEE-----CCeEEEEEEEecCCcccccccchhhh
Q psy3029         115 LGVGKTSMVVRYIGKM--F-----SHHI------SPTIGASFFTAKINV-----GENKVKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~--~-----~~~~------~~t~g~~~~~~~i~~-----~~~~~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      .++|||||+.+|+...  +     ...+      ..+.|.++....+.+     ++..+.++||||||+.+|...+..++
T Consensus        16 vd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF~~~v~~sl   95 (600)
T PRK05433         16 IDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEVSRSL   95 (600)
T ss_pred             CCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHHHHHHHHHH
Confidence            9999999999997521  1     1111      123455555444333     45578999999999999998899999


Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC---eEEEEcCCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG---TYYETSALQD  253 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~---~~~evSAktg  253 (617)
                      +.+|++|+|+|+++.........|.....    .++|+++|+||+|+.....  .+...++...+++   .++++||++|
T Consensus        96 ~~aD~aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~~a~~--~~v~~ei~~~lg~~~~~vi~iSAktG  169 (600)
T PRK05433         96 AACEGALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLPAADP--ERVKQEIEDVIGIDASDAVLVSAKTG  169 (600)
T ss_pred             HHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCCcccH--HHHHHHHHHHhCCCcceEEEEecCCC
Confidence            99999999999998766655555544322    3479999999999854321  2222344444555   3899999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGL  267 (617)
Q Consensus       254 ~gI~eLf~~I~~~l  267 (617)
                      .|+++++++|.+.+
T Consensus       170 ~GI~~Ll~~I~~~l  183 (600)
T PRK05433        170 IGIEEVLEAIVERI  183 (600)
T ss_pred             CCHHHHHHHHHHhC
Confidence            99999999998765

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.58  E-value=1.4e-14  Score=167.85  Aligned_cols=147  Identities=18%  Similarity=0.134  Sum_probs=98.0

Q ss_pred             CCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCccc----------cccc-chhhhccCCEE
Q psy3029         115 LGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQER----------FRSM-APMYYRNANAA  182 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~----------~~~~-~~~~~~~ad~i  182 (617)
                      +|||||||+|+|++.... ....+..+.+.....+.+++.  .+.+|||+|..+          |..+ ...+++.+|++
T Consensus       459 ~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advv  536 (712)
T PRK09518        459 PNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELA  536 (712)
T ss_pred             CCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCC--EEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEE
Confidence            999999999999987642 122232333434444555554  466999999642          1111 12346789999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHH-HHHhc----CCeEEEEcCCCCCCHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH-YSKSI----GGTYYETSALQDQGIE  257 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~-~~~~~----g~~~~evSAktg~gI~  257 (617)
                      |+|+|+++..++..+. ++..+..   .++|++||+||+|+.+...  .+.... +...+    ..+++++||++|.|++
T Consensus       537 ilViDat~~~s~~~~~-i~~~~~~---~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~  610 (712)
T PRK09518        537 LFLFDASQPISEQDLK-VMSMAVD---AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGWHTN  610 (712)
T ss_pred             EEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCCCHH
Confidence            9999999988877654 3444433   3479999999999965322  111211 11111    2477999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy3029         258 DVFLNVSKGLIC  269 (617)
Q Consensus       258 eLf~~I~~~l~~  269 (617)
                      ++++.+.+.+..
T Consensus       611 ~L~~~i~~~~~~  622 (712)
T PRK09518        611 RLAPAMQEALES  622 (712)
T ss_pred             HHHHHHHHHHHH
Confidence            999999887654

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.58  E-value=7.2e-14  Score=140.63  Aligned_cols=149  Identities=17%  Similarity=0.086  Sum_probs=95.4

Q ss_pred             cCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc-------ccchhhhccCCEE
Q psy3029         110 ANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-------SMAPMYYRNANAA  182 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~-------~~~~~~~~~ad~i  182 (617)
                      +++|++|||||||+++|++........+....+.....+.+.  ...+++||+||..+..       .....+++++|++
T Consensus         4 ~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~--~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~i   81 (233)
T cd01896           4 ALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYK--GAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLI   81 (233)
T ss_pred             EEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEEC--CeEEEEEECCCcccccccchhHHHHHHHhhccCCEE
Confidence            334449999999999999865321111111122223333333  4679999999975432       1233568899999


Q ss_pred             EEEEeCCChh-hHHHHHHHHHHH-----------------------------------------Hhc-------------
Q psy3029         183 LLVFDITQYH-SFAAIKTWVKEL-----------------------------------------KRN-------------  207 (617)
Q Consensus       183 IlV~Dis~~~-S~~~l~~~l~~i-----------------------------------------~~~-------------  207 (617)
                      ++|+|++++. ....+.+.+...                                         .++             
T Consensus        82 l~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~  161 (233)
T cd01896          82 LMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIREDI  161 (233)
T ss_pred             EEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEccCC
Confidence            9999998765 333333333210                                         000             


Q ss_pred             ---------C--CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         208 ---------V--DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       208 ---------~--~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                               .  ..-+|+++|+||+|+..     .++...++..  ..++++||+++.|++++|+.|.+.+
T Consensus       162 ~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         162 TVDDLIDVIEGNRVYIPCLYVYNKIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CHHHHHHHHhCCceEeeEEEEEECccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                     0  01269999999999853     3444455543  4689999999999999999998765

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.56  E-value=2.2e-14  Score=157.15  Aligned_cols=156  Identities=18%  Similarity=0.160  Sum_probs=103.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC--C--------------------------
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS--H--------------------------  133 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~--~--------------------------  133 (617)
                      ...++|+++|.                      +++|||||+++|+...-.  .                          
T Consensus         4 k~~~~v~iiGh----------------------~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~   61 (425)
T PRK12317          4 KPHLNLAVIGH----------------------VDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDR   61 (425)
T ss_pred             CCEEEEEEECC----------------------CCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhcc
Confidence            34567888888                      999999999999832110  0                          


Q ss_pred             -ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCC
Q psy3029         134 -HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEP  211 (617)
Q Consensus       134 -~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~  211 (617)
                       ......|.+++.....+..+.+.+.||||||+++|.......+..+|++|+|+|++++.++... .+++..+.. .. .
T Consensus        62 ~~~Er~rG~T~d~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~-~~-~  139 (425)
T PRK12317         62 LKEERERGVTIDLAHKKFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLART-LG-I  139 (425)
T ss_pred             CHhHhhcCccceeeeEEEecCCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHH-cC-C
Confidence             0011355566665566666778999999999988876555567899999999999873222221 122222222 22 1


Q ss_pred             CeEEEEEECCCCCCccc----cCHHHHHHHHHhcC-----CeEEEEcCCCCCCHHHHHH
Q psy3029         212 LVLCVVGNKTDLESSRE----VNREEAFHYSKSIG-----GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~----v~~~e~~~~~~~~g-----~~~~evSAktg~gI~eLf~  261 (617)
                      .|++||+||+|+.....    ...+++..+++..+     ++++++||++|.|++++.+
T Consensus       140 ~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        140 NQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             CeEEEEEEccccccccHHHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence            37899999999964211    11234555665555     4799999999999988653

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.56  E-value=5.7e-15  Score=149.58  Aligned_cols=95  Identities=17%  Similarity=0.241  Sum_probs=79.3

Q ss_pred             ccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++|..+.+.+++++|++++|||++++. ++..+++|+..+..   .++|++||+||+||.+++++..+.. +.+..++++
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~-~~~~~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQL-DIYRNIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHH-HHHHHCCCe
Confidence            788999999999999999999999887 89999999987754   4579999999999976554443334 344568899


Q ss_pred             EEEEcCCCCCCHHHHHHHHH
Q psy3029         245 YYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~  264 (617)
                      ++++||++|.|++++|+.|.
T Consensus       100 v~~~SAktg~gi~eLf~~l~  119 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQ  119 (245)
T ss_pred             EEEEecCCchhHHHHHhhhc
Confidence            99999999999999998763

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.55  E-value=4.3e-14  Score=158.87  Aligned_cols=153  Identities=19%  Similarity=0.199  Sum_probs=99.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCCCCc----cCCCcceeEEEEEEEE------------CCeEEEEEEEecCCccccccc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMFSHH----ISPTIGASFFTAKINV------------GENKVKLQVWDTAGQERFRSM  171 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~~~~----~~~t~g~~~~~~~i~~------------~~~~~~l~i~Dt~G~e~~~~~  171 (617)
                      .++|+|.+++|||||+++|++..+...    +..++|..+.......            ......+.||||||++.|..+
T Consensus         6 iV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~l   85 (590)
T TIGR00491         6 IVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTNL   85 (590)
T ss_pred             EEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHHH
Confidence            344444499999999999998766432    2334454432221100            001123889999999999999


Q ss_pred             chhhhccCCEEEEEEeCCC---hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc------------CHHH---
Q psy3029         172 APMYYRNANAALLVFDITQ---YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV------------NREE---  233 (617)
Q Consensus       172 ~~~~~~~ad~iIlV~Dis~---~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v------------~~~e---  233 (617)
                      +..+++.+|++|+|||+++   +.+++.+. +   +..   .++|+++|+||+|+......            ..+.   
T Consensus        86 ~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~-~---l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v~~  158 (590)
T TIGR00491        86 RKRGGALADLAILIVDINEGFKPQTQEALN-I---LRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQQ  158 (590)
T ss_pred             HHHHHhhCCEEEEEEECCcCCCHhHHHHHH-H---HHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHHHH
Confidence            9999999999999999987   44554443 2   222   24799999999998632100            0000   


Q ss_pred             ---------HHHHHH------------hc--CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         234 ---------AFHYSK------------SI--GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       234 ---------~~~~~~------------~~--g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                               ..++..            .+  .++++++||++|+|+++|+.+|....
T Consensus       159 ~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       159 NLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             HHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence                     001111            11  24899999999999999999886543

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.55  E-value=2e-14  Score=139.79  Aligned_cols=148  Identities=26%  Similarity=0.215  Sum_probs=96.8

Q ss_pred             CCCCHHHHHHHHHcCCCC--C------------------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchh
Q psy3029         115 LGVGKTSMVVRYIGKMFS--H------------------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM  174 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~--~------------------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~  174 (617)
                      .++|||||+.+|+...-.  .                  ...-|+..  ....+........+.++||||+.+|......
T Consensus        12 ~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~--~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~   89 (188)
T PF00009_consen   12 VDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDL--SFISFEKNENNRKITLIDTPGHEDFIKEMIR   89 (188)
T ss_dssp             TTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSS--EEEEEEBTESSEEEEEEEESSSHHHHHHHHH
T ss_pred             CCCCcEeechhhhhhccccccccccccccccccccchhhhccccccc--ccccccccccccceeecccccccceeecccc
Confidence            999999999999843211  0                  01112222  2222221245678999999999998888888


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc-CHHHHH-HHHHhc------CCeEE
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV-NREEAF-HYSKSI------GGTYY  246 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v-~~~e~~-~~~~~~------g~~~~  246 (617)
                      .+..+|++|+|+|+.+...... .+.+..+..   .++|+++|+||+|+...+.. ..++.. .+.+..      .++++
T Consensus        90 ~~~~~D~ailvVda~~g~~~~~-~~~l~~~~~---~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi  165 (188)
T PF00009_consen   90 GLRQADIAILVVDANDGIQPQT-EEHLKILRE---LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVPVI  165 (188)
T ss_dssp             HHTTSSEEEEEEETTTBSTHHH-HHHHHHHHH---TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEEEE
T ss_pred             eecccccceeeeeccccccccc-ccccccccc---cccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccceEE
Confidence            8999999999999987644322 223333333   34789999999999722110 011122 333333      24799


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHH
Q psy3029         247 ETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       247 evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++||++|.|+++|++.|.+.++
T Consensus       166 ~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  166 PISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             EEBTTTTBTHHHHHHHHHHHS-
T ss_pred             EEecCCCCCHHHHHHHHHHhCc
Confidence            9999999999999999988653

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>KOG0074|consensus

Probab=99.54  E-value=3.5e-14  Score=126.45  Aligned_cols=153  Identities=25%  Similarity=0.320  Sum_probs=118.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|-                      .|+|||||+.+|.+.. .....||-|...  +.+..+ ..+.+.+||
T Consensus        15 ~rEirilllGl----------------------dnAGKTT~LKqL~sED-~~hltpT~GFn~--k~v~~~-g~f~LnvwD   68 (185)
T KOG0074|consen   15 RREIRILLLGL----------------------DNAGKTTFLKQLKSED-PRHLTPTNGFNT--KKVEYD-GTFHLNVWD   68 (185)
T ss_pred             cceEEEEEEec----------------------CCCcchhHHHHHccCC-hhhccccCCcce--EEEeec-CcEEEEEEe
Confidence            45688888888                      9999999999998876 456778888654  444333 458999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      .+|+...+..|..||.+.|++|+|+|.+|..-|+++.+-+.++.+.. -..+|++|.+||.|+.....     ....+..
T Consensus        69 iGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~-----~eeia~k  143 (185)
T KOG0074|consen   69 IGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAK-----VEEIALK  143 (185)
T ss_pred             cCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcc-----hHHHHHh
Confidence            99999999999999999999999999999888998876555554432 34689999999999864322     2223332


Q ss_pred             cC--------CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         241 IG--------GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       241 ~g--------~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      ++        ..+-+|||.+++|+.+-.+++..
T Consensus       144 lnl~~lrdRswhIq~csals~eg~~dg~~wv~s  176 (185)
T KOG0074|consen  144 LNLAGLRDRSWHIQECSALSLEGSTDGSDWVQS  176 (185)
T ss_pred             cchhhhhhceEEeeeCccccccCccCcchhhhc
Confidence            22        36789999999999888887754

>KOG0076|consensus

Probab=99.53  E-value=2e-14  Score=132.64  Aligned_cols=149  Identities=28%  Similarity=0.349  Sum_probs=114.2

Q ss_pred             CCCCHHHHHHHHHcCC-------CCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEe
Q psy3029         115 LGVGKTSMVVRYIGKM-------FSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFD  187 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~-------~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~D  187 (617)
                      .|+|||||+.++....       ......+|+|....++.+    ....+.+||.+|++..++++..||..++++|+|+|
T Consensus        26 dnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v----~~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~viD  101 (197)
T KOG0076|consen   26 DNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEV----CNAPLSFWDLGGQESLRSLWKKYYWLAHGIIYVID  101 (197)
T ss_pred             ccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceee----ccceeEEEEcCChHHHHHHHHHHHHHhceeEEeec
Confidence            9999999998875321       124566888887776665    35679999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHH---HHhc---CCeEEEEcCCCCCCHHHHH
Q psy3029         188 ITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHY---SKSI---GGTYYETSALQDQGIEDVF  260 (617)
Q Consensus       188 is~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~---~~~~---g~~~~evSAktg~gI~eLf  260 (617)
                      +++++-|+....-+..+... .-..+|+++.+||.|+.+...  .+++...   +...   .+++.+|||.+|+||++-.
T Consensus       102 a~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~--~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~egi  179 (197)
T KOG0076|consen  102 ATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAME--AAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEGI  179 (197)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhh--HHHHHHHhhhhhhcCCccCccccchhhhcccHHHHH
Confidence            99998888776555554332 235689999999999865422  2333222   2222   3589999999999999999


Q ss_pred             HHHHHHHHH
Q psy3029         261 LNVSKGLIC  269 (617)
Q Consensus       261 ~~I~~~l~~  269 (617)
                      .|+.+.+..
T Consensus       180 ~w~v~~~~k  188 (197)
T KOG0076|consen  180 EWLVKKLEK  188 (197)
T ss_pred             HHHHHHHhh
Confidence            999987754

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.53  E-value=3.8e-14  Score=140.22  Aligned_cols=147  Identities=19%  Similarity=0.134  Sum_probs=92.5

Q ss_pred             cCCCCCCCCHHHHHHHHHcCCCCCc-----------------------------cCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029         110 ANWFWLGVGKTSMVVRYIGKMFSHH-----------------------------ISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~~~~~~-----------------------------~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      +|+|.+|+|||||+++|+...-...                             .....|.++......+......+.||
T Consensus         3 ~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~li   82 (208)
T cd04166           3 LTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFIIA   82 (208)
T ss_pred             EEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEEEE
Confidence            3444499999999999974321000                             00013444444444444456688999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc----CHHHHHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV----NREEAFH  236 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v----~~~e~~~  236 (617)
                      ||||+++|......++..+|++|+|+|++++..-.. ...+..+.. .. ..++|+|+||+|+......    ...+...
T Consensus        83 DTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~~-~~-~~~iIvviNK~D~~~~~~~~~~~i~~~~~~  159 (208)
T cd04166          83 DTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILSL-LG-IRHVVVAVNKMDLVDYSEEVFEEIVADYLA  159 (208)
T ss_pred             ECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHHH-cC-CCcEEEEEEchhcccCCHHHHHHHHHHHHH
Confidence            999998877666667889999999999987542211 122222222 11 1357889999998642211    1233445


Q ss_pred             HHHhcCC---eEEEEcCCCCCCHHHH
Q psy3029         237 YSKSIGG---TYYETSALQDQGIEDV  259 (617)
Q Consensus       237 ~~~~~g~---~~~evSAktg~gI~eL  259 (617)
                      +++.+++   +++++||++|.|+.+.
T Consensus       160 ~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         160 FAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHcCCCCceEEEEeCCCCCCCccC
Confidence            5556664   5899999999999754

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.52  E-value=5.1e-14  Score=154.19  Aligned_cols=155  Identities=19%  Similarity=0.162  Sum_probs=103.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC--CCCCc--------------------------
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK--MFSHH--------------------------  134 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~--~~~~~--------------------------  134 (617)
                      ..++|+++|.                      .++|||||+.+|+..  .....                          
T Consensus         6 ~~~~v~i~Gh----------------------vd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~   63 (426)
T TIGR00483         6 EHINVAFIGH----------------------VDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRL   63 (426)
T ss_pred             ceeEEEEEec----------------------cCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccC
Confidence            4468888888                      999999999999852  11100                          


Q ss_pred             -cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHH--HHHHHHHHhcCCCC
Q psy3029         135 -ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI--KTWVKELKRNVDEP  211 (617)
Q Consensus       135 -~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l--~~~l~~i~~~~~~~  211 (617)
                       .....|.+.......+....+.+.||||+|+++|......++..+|++|+|+|+++.+++...  ..++..+ .... .
T Consensus        64 ~~e~~rg~Tid~~~~~~~~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~-~~~~-~  141 (426)
T TIGR00483        64 KEERERGVTIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLA-RTLG-I  141 (426)
T ss_pred             HHHhhcCceEEEEEEEEccCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHH-HHcC-C
Confidence             001234444444455566678899999999998876666667899999999999987543211  1122222 2222 2


Q ss_pred             CeEEEEEECCCCCCccc----cCHHHHHHHHHhcC-----CeEEEEcCCCCCCHHHHHH
Q psy3029         212 LVLCVVGNKTDLESSRE----VNREEAFHYSKSIG-----GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~----v~~~e~~~~~~~~g-----~~~~evSAktg~gI~eLf~  261 (617)
                      .|+|||+||+|+.....    ...+++..+++..+     ++++++||++|.||++++.
T Consensus       142 ~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~  200 (426)
T TIGR00483       142 NQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSE  200 (426)
T ss_pred             CeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCCCcccceEEEeecccccccccccc
Confidence            47999999999964211    11345556676665     4799999999999987553

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>KOG0072|consensus

Probab=99.50  E-value=2.8e-14  Score=127.46  Aligned_cols=148  Identities=25%  Similarity=0.317  Sum_probs=109.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      -|+||++++.++.-++ .....||+|......    ..++.++++||.+|+-..+..|+.|+.+.|++|+|+|.+|++-.
T Consensus        27 dGaGkttIlyrlqvge-vvttkPtigfnve~v----~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dri  101 (182)
T KOG0072|consen   27 DGAGKTTILYRLQVGE-VVTTKPTIGFNVETV----PYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRI  101 (182)
T ss_pred             cCCCeeEEEEEcccCc-ccccCCCCCcCcccc----ccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhh
Confidence            9999999999997666 456778988765443    34789999999999999999999999999999999999998754


Q ss_pred             HHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH-----HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF-----HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~-----~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      .... +++..+.+..-....++|++||.|....  ....++.     .-.+..-..+|+.||.+|+|+++.++||.+.+.
T Consensus       102 s~a~~el~~mL~E~eLq~a~llv~anKqD~~~~--~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~  179 (182)
T KOG0072|consen  102 SIAGVELYSMLQEEELQHAKLLVFANKQDYSGA--LTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLK  179 (182)
T ss_pred             hhhHHHHHHHhccHhhcCceEEEEeccccchhh--hhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHh
Confidence            3333 2333333322234678999999997532  1122221     111222358999999999999999999998774


Q ss_pred             H
Q psy3029         269 C  269 (617)
Q Consensus       269 ~  269 (617)
                      .
T Consensus       180 ~  180 (182)
T KOG0072|consen  180 S  180 (182)
T ss_pred             c
Confidence            3

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.48  E-value=7.3e-13  Score=124.22  Aligned_cols=155  Identities=21%  Similarity=0.235  Sum_probs=115.2

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC--------Ccc----CCCcceeEEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS--------HHI----SPTIGASFFTAKIN  149 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~--------~~~----~~t~g~~~~~~~i~  149 (617)
                      -...||++.|.                      .++||||++.+++.....        ..+    ..|+..++....+ 
T Consensus         8 ~~~~KIvv~G~----------------------~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~-   64 (187)
T COG2229           8 MIETKIVVIGP----------------------VGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIEL-   64 (187)
T ss_pred             ccceeEEEEcc----------------------cccchhhHHHHhhccccceeeccccccccccccceeEeecccceEE-
Confidence            34468888888                      999999999999876531        111    1344444444333 


Q ss_pred             ECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc
Q psy3029         150 VGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV  229 (617)
Q Consensus       150 ~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v  229 (617)
                        +....+.++|||||+||..++..+++++.++|+++|.+.+..+ .....+..+....+  +|++|++||.||.+..  
T Consensus        65 --~~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~--ip~vVa~NK~DL~~a~--  137 (187)
T COG2229          65 --DEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNP--IPVVVAINKQDLFDAL--  137 (187)
T ss_pred             --cCcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccC--CCEEEEeeccccCCCC--
Confidence              2346799999999999999999999999999999999999888 33444444433222  8999999999997543  


Q ss_pred             CHHHHHHHHHhc--CCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         230 NREEAFHYSKSI--GGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       230 ~~~e~~~~~~~~--g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +.+++.++.+..  ..++++++|..++++.+.++.+...
T Consensus       138 ppe~i~e~l~~~~~~~~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         138 PPEKIREALKLELLSVPVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             CHHHHHHHHHhccCCCceeeeecccchhHHHHHHHHHhh
Confidence            355555555443  7799999999999999988887654

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.48  E-value=2.5e-13  Score=153.37  Aligned_cols=149  Identities=19%  Similarity=0.210  Sum_probs=108.2

Q ss_pred             CCCCHHHHHHHHHc--CCCCCc------------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIG--KMFSHH------------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~--~~~~~~------------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      .++|||||+.+|+.  +.+...            .....|.++......+....+++.||||||+.+|......+++.+|
T Consensus        10 vd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD   89 (594)
T TIGR01394        10 VDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVERVLGMVD   89 (594)
T ss_pred             CCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHHHHHHhCC
Confidence            99999999999985  222211            1123566666666666667789999999999999888899999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc-CHHHHHHHHH-------hcCCeEEEEcCCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV-NREEAFHYSK-------SIGGTYYETSALQ  252 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v-~~~e~~~~~~-------~~g~~~~evSAkt  252 (617)
                      ++|+|+|+.+.. ......|+..+..   .++|+|||+||+|+...+.. ..++...++.       .+.++++++||++
T Consensus        90 ~alLVVDa~~G~-~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~  165 (594)
T TIGR01394        90 GVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRA  165 (594)
T ss_pred             EEEEEEeCCCCC-cHHHHHHHHHHHH---CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEechhhc
Confidence            999999998743 3334456666554   34789999999998643211 1233334432       2356899999999


Q ss_pred             CC----------CHHHHHHHHHHHH
Q psy3029         253 DQ----------GIEDVFLNVSKGL  267 (617)
Q Consensus       253 g~----------gI~eLf~~I~~~l  267 (617)
                      |.          |+..||+.|++.+
T Consensus       166 g~~~~~~~~~~~gi~~Lld~Iv~~l  190 (594)
T TIGR01394       166 GWASLDLDDPSDNMAPLFDAIVRHV  190 (594)
T ss_pred             CcccccCcccccCHHHHHHHHHHhC
Confidence            96          7999998888765

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>PRK10218 GTP-binding protein; Provisional

Probab=99.48  E-value=6.2e-13  Score=150.02  Aligned_cols=149  Identities=18%  Similarity=0.197  Sum_probs=107.7

Q ss_pred             CCCCHHHHHHHHHc--CCCCCc------------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIG--KMFSHH------------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~--~~~~~~------------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      .++|||||+++|+.  +.+...            ...+.|.++..+...+..+.+++.+|||||+.+|...+..+++.+|
T Consensus        14 ~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v~~~l~~aD   93 (607)
T PRK10218         14 VDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVD   93 (607)
T ss_pred             CCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHHHHHHHHhCC
Confidence            99999999999986  333222            2346788888888888778899999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc-cCHHHHHHHHHh-------cCCeEEEEcCCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE-VNREEAFHYSKS-------IGGTYYETSALQ  252 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~-v~~~e~~~~~~~-------~g~~~~evSAkt  252 (617)
                      ++|+|+|+.+..... ...++..+..   .++|+++|+||+|+...+. ...+++..++..       ..++++.+||++
T Consensus        94 g~ILVVDa~~G~~~q-t~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~  169 (607)
T PRK10218         94 SVLLVVDAFDGPMPQ-TRFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALN  169 (607)
T ss_pred             EEEEEEecccCccHH-HHHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhc
Confidence            999999998754322 2233333333   3478899999999864321 112333333322       346799999999


Q ss_pred             CC----------CHHHHHHHHHHHH
Q psy3029         253 DQ----------GIEDVFLNVSKGL  267 (617)
Q Consensus       253 g~----------gI~eLf~~I~~~l  267 (617)
                      |.          |+..|++.|+..+
T Consensus       170 G~~~~~~~~~~~~i~~Lld~Ii~~i  194 (607)
T PRK10218        170 GIAGLDHEDMAEDMTPLYQAIVDHV  194 (607)
T ss_pred             CcccCCccccccchHHHHHHHHHhC
Confidence            98          5778887776655

>KOG1707|consensus

Probab=99.48  E-value=8.6e-14  Score=149.83  Aligned_cols=165  Identities=21%  Similarity=0.310  Sum_probs=122.4

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....++|+++|+                      .||||||||-.++...|...+.+-..  .......+.-..+...|+
T Consensus         6 t~kdVRIvliGD----------------------~G~GKtSLImSL~~eef~~~VP~rl~--~i~IPadvtPe~vpt~iv   61 (625)
T KOG1707|consen    6 TLKDVRIVLIGD----------------------EGVGKTSLIMSLLEEEFVDAVPRRLP--RILIPADVTPENVPTSIV   61 (625)
T ss_pred             CccceEEEEECC----------------------CCccHHHHHHHHHhhhccccccccCC--ccccCCccCcCcCceEEE
Confidence            345678888888                      99999999999999998766644322  112222333455668999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHH-HHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREE-AFH  236 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e-~~~  236 (617)
                      ||+..+.-......-++.||++.+||+++++.+++.+. .||+.+++...  ..+||||||||+|+......+.+. ...
T Consensus        62 D~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~p  141 (625)
T KOG1707|consen   62 DTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLP  141 (625)
T ss_pred             ecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHH
Confidence            99866655555667788999999999999999999996 79999998773  358999999999997554332222 333


Q ss_pred             HHHhcCC--eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         237 YSKSIGG--TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       237 ~~~~~g~--~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +..++..  .+++|||++-.++.++|....+.+..
T Consensus       142 im~~f~EiEtciecSA~~~~n~~e~fYyaqKaVih  176 (625)
T KOG1707|consen  142 IMIAFAEIETCIECSALTLANVSELFYYAQKAVIH  176 (625)
T ss_pred             HHHHhHHHHHHHhhhhhhhhhhHhhhhhhhheeec
Confidence            3333322  68999999999999999887765543

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.47  E-value=1.7e-13  Score=148.91  Aligned_cols=112  Identities=21%  Similarity=0.206  Sum_probs=77.3

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc--CH
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV--NR  231 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v--~~  231 (617)
                      ...+.+|||||+++|...+...+..+|++|+|+|+++........+.+..+... .. .|+++|+||+|+.+....  ..
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~-gi-~~iIVvvNK~Dl~~~~~~~~~~  156 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII-GI-KNIVIVQNKIDLVSKEKALENY  156 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc-CC-CeEEEEEEccccCCHHHHHHHH
Confidence            367999999999998877777778899999999998643111112223333222 11 378999999999753221  12


Q ss_pred             HHHHHHHHhc---CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSI---GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       232 ~e~~~~~~~~---g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++..+....   +++++++||++|.|+++|++.|...+
T Consensus       157 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       157 EEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             HHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            3333444332   56899999999999999999987654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.47  E-value=6.7e-13  Score=150.55  Aligned_cols=148  Identities=18%  Similarity=0.120  Sum_probs=96.5

Q ss_pred             CCCCCCCHHHHHHHHHcC---CCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeC
Q psy3029         112 WFWLGVGKTSMVVRYIGK---MFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDI  188 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~---~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Di  188 (617)
                      +|..++|||||+++|++.   .+..+....+..+.....+... ....+.||||||+++|.......+..+|++++|+|+
T Consensus         6 ~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~-~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda   84 (614)
T PRK10512          6 AGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQP-DGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVAC   84 (614)
T ss_pred             ECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecC-CCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEEC
Confidence            333999999999999863   2222222222222222222222 224589999999999877667778899999999999


Q ss_pred             CCh---hhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCccccC--HHHHHHHHHhcC---CeEEEEcCCCCCCHHHH
Q psy3029         189 TQY---HSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVN--REEAFHYSKSIG---GTYYETSALQDQGIEDV  259 (617)
Q Consensus       189 s~~---~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v~--~~e~~~~~~~~g---~~~~evSAktg~gI~eL  259 (617)
                      ++.   .+.+.+    ..+.. .  ++| ++||+||+|+.++..+.  .+++.+++...+   .+++++||++|.|+++|
T Consensus        85 ~eg~~~qT~ehl----~il~~-l--gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L  157 (614)
T PRK10512         85 DDGVMAQTREHL----AILQL-T--GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDAL  157 (614)
T ss_pred             CCCCcHHHHHHH----HHHHH-c--CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHH
Confidence            874   333332    22222 1  134 67999999996532221  234445555444   58999999999999999


Q ss_pred             HHHHHHHH
Q psy3029         260 FLNVSKGL  267 (617)
Q Consensus       260 f~~I~~~l  267 (617)
                      ++.|....
T Consensus       158 ~~~L~~~~  165 (614)
T PRK10512        158 REHLLQLP  165 (614)
T ss_pred             HHHHHHhh
Confidence            99987543

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.46  E-value=4.4e-13  Score=136.24  Aligned_cols=214  Identities=19%  Similarity=0.160  Sum_probs=138.5

Q ss_pred             ccchhhHhhhcc-hHHHHHHHHhhhhhhccCCCccccccCCccccccccccccCCcccccccccccceEEEEEccCcccc
Q psy3029          19 YETDLFLLNRTN-QSKEQLRRKQKEGKIQTSSLTEVSVNLPKLNYQKNNKNKKKTLIPYLEMLVSNKIKVGLLSDKFVVG   97 (617)
Q Consensus        19 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ikV~i~G~~~~~~   97 (617)
                      ....|..+++.. +.++..+.|++.++...+.++.+...|..++..+.-..+....++       .-..|+|.|-     
T Consensus       109 l~~eYi~~lk~a~~~~~~~~lrR~a~GR~aSiik~i~~~L~fL~~~r~~l~~LP~Idp-------~~pTivVaG~-----  176 (346)
T COG1084         109 LAREYIRLLKAAKDPKEANQLRRQAFGRVASIIKKIDDDLEFLRKARDHLKKLPAIDP-------DLPTIVVAGY-----  176 (346)
T ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCCCCC-------CCCeEEEecC-----
Confidence            345677777755 678888888888888888887776655554432221122222221       2247889998     


Q ss_pred             cccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc-----ccccc-
Q psy3029          98 LSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE-----RFRSM-  171 (617)
Q Consensus        98 ~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e-----~~~~~-  171 (617)
                                       ||||||||++++++.+..-...|  -.+-.....++..+..++|++||||.-     +.+.. 
T Consensus       177 -----------------PNVGKSSlv~~lT~AkpEvA~YP--FTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE  237 (346)
T COG1084         177 -----------------PNVGKSSLVRKLTTAKPEVAPYP--FTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIE  237 (346)
T ss_pred             -----------------CCCcHHHHHHHHhcCCCccCCCC--ccccceeEeeeecCCceEEEecCCcccCCChHHhcHHH
Confidence                             99999999999998875322222  111122223344566799999999962     12211 


Q ss_pred             --chhhhc-cCCEEEEEEeCCChh--hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh-cCCeE
Q psy3029         172 --APMYYR-NANAALLVFDITQYH--SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS-IGGTY  245 (617)
Q Consensus       172 --~~~~~~-~ad~iIlV~Dis~~~--S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-~g~~~  245 (617)
                        .-.+++ =.++|||+||.+...  +.+.-...+.++.....  .|+++|.||+|+.....+.  ++...... .+...
T Consensus       238 ~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~e~~~--~~~~~~~~~~~~~~  313 (346)
T COG1084         238 RQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADEEKLE--EIEASVLEEGGEEP  313 (346)
T ss_pred             HHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccchhHHH--HHHHHHHhhccccc
Confidence              111222 368899999998765  45555567788877665  6999999999987544432  23223333 33457


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHH
Q psy3029         246 YETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       246 ~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+++..+.+++.+.+.+....
T Consensus       314 ~~~~~~~~~~~d~~~~~v~~~a  335 (346)
T COG1084         314 LKISATKGCGLDKLREEVRKTA  335 (346)
T ss_pred             cceeeeehhhHHHHHHHHHHHh
Confidence            8899999999998888876653

>cd04167 Snu114p Snu114p subfamily

Probab=99.46  E-value=5e-13  Score=132.66  Aligned_cols=106  Identities=22%  Similarity=0.239  Sum_probs=74.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCc-----------c------CCCcceeEEEEEEEE-----CCeEEEEEEEecCCcccccccc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHH-----------I------SPTIGASFFTAKINV-----GENKVKLQVWDTAGQERFRSMA  172 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~-----------~------~~t~g~~~~~~~i~~-----~~~~~~l~i~Dt~G~e~~~~~~  172 (617)
                      .++|||||+++|+.......           +      ....|.++....+.+     ++..+.+.+|||+|+.+|....
T Consensus         9 ~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~~~f~~~~   88 (213)
T cd04167           9 LHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGHVNFMDEV   88 (213)
T ss_pred             CCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCCcchHHHH
Confidence            99999999999986433211           0      112333333222222     3456899999999999998888


Q ss_pred             hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         173 PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       173 ~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      ..++..+|++|+|+|+.+..++.. .+|+..+..   ..+|+++|+||+|+.
T Consensus        89 ~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          89 AAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             HHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            888999999999999988766543 344444433   237999999999975

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.45  E-value=1.2e-12  Score=131.99  Aligned_cols=109  Identities=17%  Similarity=0.163  Sum_probs=77.8

Q ss_pred             CCCCCCCHHHHHHHHHcCCCC--------C-----cc---CCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhh
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFS--------H-----HI---SPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY  175 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~--------~-----~~---~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~  175 (617)
                      +|.+|+|||||+++|+...-.        .     .+   ....|.++......+....+++.+|||||+.+|...+..+
T Consensus         5 ~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~~   84 (237)
T cd04168           5 LAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAEVERS   84 (237)
T ss_pred             EcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHHHHHH
Confidence            333999999999999753100        0     00   1223444444455555567889999999999998888899


Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      ++.+|++++|+|+++.... ....|+..+..   .++|+++|+||+|+.
T Consensus        85 l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~  129 (237)
T cd04168          85 LSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRA  129 (237)
T ss_pred             HHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECcccc
Confidence            9999999999999886543 23445555544   247999999999985

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.44  E-value=1.5e-12  Score=147.05  Aligned_cols=146  Identities=23%  Similarity=0.264  Sum_probs=94.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCcc----CCCcceeEEEEEEEE--CCeE-----E-----EEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHI----SPTIGASFFTAKINV--GENK-----V-----KLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~----~~t~g~~~~~~~i~~--~~~~-----~-----~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      +++|||||+++|.+.......    ..++|.++.......  .+..     .     .+.||||||++.|..++...+..
T Consensus        15 ~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f~~~~~~~~~~   94 (586)
T PRK04004         15 VDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFTNLRKRGGAL   94 (586)
T ss_pred             CCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHHHHHHHHhHhh
Confidence            999999999999876532222    224444332221100  0111     1     26899999999999888888899


Q ss_pred             CCEEEEEEeCCC---hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc----C------------HH-------
Q psy3029         179 ANAALLVFDITQ---YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV----N------------RE-------  232 (617)
Q Consensus       179 ad~iIlV~Dis~---~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v----~------------~~-------  232 (617)
                      +|++|+|+|+++   +.++..+..    +..   .++|+++|+||+|+......    .            .+       
T Consensus        95 aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~v~~~f~~~l~  167 (586)
T PRK04004         95 ADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQQELEEKLY  167 (586)
T ss_pred             CCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHHHHHHHHHHHH
Confidence            999999999987   555554432    222   34799999999998521100    0            00       


Q ss_pred             HHHHHHHhc---------------CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         233 EAFHYSKSI---------------GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       233 e~~~~~~~~---------------g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +...+....               .++++++||++|.|+++|++.+...+
T Consensus       168 ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        168 ELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             HHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence            000111111               24799999999999999998876543

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.44  E-value=8.5e-13  Score=121.07  Aligned_cols=128  Identities=26%  Similarity=0.295  Sum_probs=88.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc----cccccchhhhccCCEEEEEEeCCC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE----RFRSMAPMYYRNANAALLVFDITQ  190 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e----~~~~~~~~~~~~ad~iIlV~Dis~  190 (617)
                      .|+|||||+++|.+...  .+..|..+.+.            =.++||||.-    .|...+-....+||+|++|.|+++
T Consensus        10 ~g~GKTTL~q~L~~~~~--~~~KTq~i~~~------------~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~   75 (143)
T PF10662_consen   10 SGSGKTTLAQALNGEEI--RYKKTQAIEYY------------DNTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATE   75 (143)
T ss_pred             CCCCHHHHHHHHcCCCC--CcCccceeEec------------ccEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCC
Confidence            99999999999988653  44444333221            1358999952    222222333458999999999998


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHH
Q psy3029         191 YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       191 ~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~  264 (617)
                      +.+...     +.+....  ..|+|=|+||+|+... ....+.+.++.+..|+ .+|++|+.+|+||++|+++|.
T Consensus        76 ~~~~~p-----P~fa~~f--~~pvIGVITK~Dl~~~-~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen   76 PRSVFP-----PGFASMF--NKPVIGVITKIDLPSD-DANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             CCccCC-----chhhccc--CCCEEEEEECccCccc-hhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence            754211     1222222  2599999999999732 2245667778888888 689999999999999999874

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.44  E-value=2.3e-12  Score=126.08  Aligned_cols=139  Identities=16%  Similarity=0.113  Sum_probs=92.3

Q ss_pred             CCCCHHHHHHHHHcCCC-----C-C--------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGKMF-----S-H--------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~-----~-~--------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      .++|||||+++|+....     . .        ......|.++......+......+.++||||+.+|.......+..+|
T Consensus        11 ~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~~~~~~~~~D   90 (195)
T cd01884          11 VDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKNMITGAAQMD   90 (195)
T ss_pred             CCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHHHHHHhhhCC
Confidence            99999999999975310     0 0        01113455555555556566678899999999888777777788999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcccc---CHHHHHHHHHhcC-----CeEEEEcCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREV---NREEAFHYSKSIG-----GTYYETSAL  251 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v---~~~e~~~~~~~~g-----~~~~evSAk  251 (617)
                      ++++|+|+.....-. ..+.+..+...   ++| +|+|+||+|+..+.+.   ..+++..+....+     ++++++||+
T Consensus        91 ~~ilVvda~~g~~~~-~~~~~~~~~~~---~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~  166 (195)
T cd01884          91 GAILVVSATDGPMPQ-TREHLLLARQV---GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVRGSAL  166 (195)
T ss_pred             EEEEEEECCCCCcHH-HHHHHHHHHHc---CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEEeeCc
Confidence            999999997653222 12233333332   245 7899999998643221   1234445555544     579999999


Q ss_pred             CCCCHH
Q psy3029         252 QDQGIE  257 (617)
Q Consensus       252 tg~gI~  257 (617)
                      +|.|+.
T Consensus       167 ~g~n~~  172 (195)
T cd01884         167 KALEGD  172 (195)
T ss_pred             cccCCC
Confidence            999863

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>KOG2375|consensus

Probab=99.44  E-value=3.1e-13  Score=150.29  Aligned_cols=159  Identities=19%  Similarity=0.183  Sum_probs=108.5

Q ss_pred             CchHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCC--ceEEEEeeeecCCCCCC--CCC-CCcccceeeeecCc---ee
Q psy3029         449 NARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQ--FELVISMTHQVDPENPQ--CID-PNTVVDMKIFKLDD---IV  520 (617)
Q Consensus       449 n~r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~--~~~~l~~~~~~~~~~~~--~~~-~~~~~~~l~~~~~d---~v  520 (617)
                      .++++|++++.||..|.+.+.+|..|.|||+.++++  ..++|.++-........  ..+ .-....+..|+..|   |+
T Consensus        56 ~~~~~~~~~~s~g~~~~~~l~ng~~~~gi~~s~N~~~~~gi~~~a~~~~~~~g~r~~~~r~~~~~~~~~~i~~~~~~eL~  135 (756)
T KOG2375|consen   56 RDSLAYKATDSIGPSVAVLLGNGSSYSGILVSNNPEQTVGIILVAADAKRRSGTRGSESRDWMPDPPTAGIPLEDELELT  135 (756)
T ss_pred             hhhhhhhhcCCCCcccceeccCCCCCcceeeecchhhcccccccccccccccccccccccccccCCCcccCccccccchh
Confidence            579999999999999999999999999999999876  45566665444221111  111 12333455555443   33


Q ss_pred             EEEecccccc---------c-----cccCcccchhhhcccCC-CCCCcccccCcCCCC--------------CCCCCCcc
Q psy3029         521 RIEAKNVDLE---------Y-----AVRDTFATDTAISKFNG-VIGERELEPWAEDML--------------GPGGDDDF  571 (617)
Q Consensus       521 ~~~~~~v~~~---------~-----~~~~~f~TDt~IS~~n~-~~~ereL~~W~p~~~--------------~~~~~d~f  571 (617)
                      .+.++.-+..         .     +.-..|+||..+...-+ +..|| |.+|++|+.              ++.|||||
T Consensus       136 ~~~~~~~~k~~~s~~~gv~~e~~~~~a~Ss~it~~~~~~~~~ee~~e~-l~p~~~~e~v~~~~~~~~~rl~~~~kGw~Qf  214 (756)
T KOG2375|consen  136 TSNAEQDEKATNSKSDGVQSEKPDEAAYSSFITDSEGKGDEGEEEAER-LAPWIEDEVVPGGGIAEERRLENDNKGWDQF  214 (756)
T ss_pred             hcccccchhhhcchhhccccccccccccccccccccccccccccchhh-cCCCCcccccccccchhhcccccccCCCCcc
Confidence            3333332220         0     11147888887775211 23334 559999752              56799999


Q ss_pred             hhh---hccccCCCCccCCccccccccCCCCCchHHHHHHHHh
Q psy3029         572 ELD---QMCNHNVGTATSSIKMFIFPLIQVAPYTMEESVLAIQ  611 (617)
Q Consensus       572 ~~n---e~~~~~~st~de~l~~yt~~l~~~~~~~~~~~~~~~~  611 (617)
                      ++|   ..+|+++|||||+|  ||++||+.+..+|. ...|++
T Consensus       215 ~v~f~~~~~f~v~stFde~l--y~tk~d~~~kn~e~-~e~a~R  254 (756)
T KOG2375|consen  215 EVNFHGSKKFNVMSTFDEEL--YTTKLDKKVKNYEA-YEGAER  254 (756)
T ss_pred             chhhhhhhhhceeeeeehhh--hcceecccCCchhh-HHHHHH
Confidence            999   99999999999999  99999998888877 555555

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.43  E-value=9e-13  Score=143.36  Aligned_cols=110  Identities=18%  Similarity=0.184  Sum_probs=73.4

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc--CH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV--NR  231 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v--~~  231 (617)
                      ..+.||||||+++|..........+|++|+|+|++++. .-.... .+..+... . ..|+++|+||+|+.++...  ..
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~-~l~~l~~~-~-i~~iiVVlNK~Dl~~~~~~~~~~  161 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKE-HLMALDII-G-IKNIVIVQNKIDLVSKERALENY  161 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHH-HHHHHHHc-C-CCcEEEEEEeeccccchhHHHHH
Confidence            57899999999887654444455789999999999643 111111 11222221 1 1368999999999754321  12


Q ss_pred             HHHHHHHHhc---CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSI---GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       232 ~e~~~~~~~~---g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++..++...   +++++++||++|.|+++|++.|...+
T Consensus       162 ~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        162 EQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            3344444332   46899999999999999999987654

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.43  E-value=6.2e-13  Score=147.05  Aligned_cols=144  Identities=16%  Similarity=0.138  Sum_probs=104.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc------cccchhhhc--cCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF------RSMAPMYYR--NANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~------~~~~~~~~~--~ad~iIlV~  186 (617)
                      ||||||||+|+|++.+..  ...-+|++...++..+.....+++++|.||.-..      ....+.|+.  +.|++|-|+
T Consensus        12 PNvGKTtlFN~LTG~~q~--VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVv   89 (653)
T COG0370          12 PNVGKTTLFNALTGANQK--VGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVV   89 (653)
T ss_pred             CCccHHHHHHHHhccCce--ecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEc
Confidence            999999999999998643  3444566667777666666667999999996321      223445554  579999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      |+++.+---   ..--++.+   -++|++++.|++|....+.+..+ ..++.+.+|+|++++||++|+|++++++.+.+.
T Consensus        90 DAtnLeRnL---yltlQLlE---~g~p~ilaLNm~D~A~~~Gi~ID-~~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~  162 (653)
T COG0370          90 DATNLERNL---YLTLQLLE---LGIPMILALNMIDEAKKRGIRID-IEKLSKLLGVPVVPTVAKRGEGLEELKRAIIEL  162 (653)
T ss_pred             ccchHHHHH---HHHHHHHH---cCCCeEEEeccHhhHHhcCCccc-HHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHh
Confidence            998854211   11122222   34799999999998665444332 457888999999999999999999999988764


Q ss_pred             H
Q psy3029         267 L  267 (617)
Q Consensus       267 l  267 (617)
                      .
T Consensus       163 ~  163 (653)
T COG0370         163 A  163 (653)
T ss_pred             c
Confidence            4

>COG2262 HflX GTPases [General function prediction only]

Probab=99.41  E-value=3e-12  Score=134.05  Aligned_cols=152  Identities=18%  Similarity=0.146  Sum_probs=101.0

Q ss_pred             CCCCCCCCHHHHHHHHHcCCCCCc--cCCCcceeEEEEEEEECCeEEEEEEEecCCccccc--ccchhh------hccCC
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMFSHH--ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR--SMAPMY------YRNAN  180 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~~~~--~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~--~~~~~~------~~~ad  180 (617)
                      ++|+.|+|||||+|+|++......  ...|..  -.++.+.+.+ ...+.+-||-|..+.-  .+...|      ...+|
T Consensus       197 LvGYTNAGKSTL~N~LT~~~~~~~d~LFATLd--pttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aD  273 (411)
T COG2262         197 LVGYTNAGKSTLFNALTGADVYVADQLFATLD--PTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEAD  273 (411)
T ss_pred             EEeeccccHHHHHHHHhccCeecccccccccc--CceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHHHHhhcCC
Confidence            334499999999999997654322  223333  2345555554 3467888999964321  122222      34799


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHH
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVF  260 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf  260 (617)
                      +++.|+|+++|.....+..-...+.+.....+|+|+|.||+|+..+..    .......... ..+.+||++|.|++.|+
T Consensus       274 lllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~----~~~~~~~~~~-~~v~iSA~~~~gl~~L~  348 (411)
T COG2262         274 LLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE----ILAELERGSP-NPVFISAKTGEGLDLLR  348 (411)
T ss_pred             EEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh----hhhhhhhcCC-CeEEEEeccCcCHHHHH
Confidence            999999999997666665555555555445589999999999865432    1111111112 58899999999999999


Q ss_pred             HHHHHHHHHh
Q psy3029         261 LNVSKGLICL  270 (617)
Q Consensus       261 ~~I~~~l~~~  270 (617)
                      +.|...+...
T Consensus       349 ~~i~~~l~~~  358 (411)
T COG2262         349 ERIIELLSGL  358 (411)
T ss_pred             HHHHHHhhhc
Confidence            9999887643

>KOG1489|consensus

Probab=99.39  E-value=2.9e-12  Score=129.23  Aligned_cols=149  Identities=17%  Similarity=0.222  Sum_probs=101.2

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCCCC-Ccc-----CCCcceeEEEEEEEECCeEEEEEEEecCCccccc----ccchhh-
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKMFS-HHI-----SPTIGASFFTAKINVGENKVKLQVWDTAGQERFR----SMAPMY-  175 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~~~-~~~-----~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~----~~~~~~-  175 (617)
                      +-+.++|+||+|||||+++|...+.. +.|     .|++|      .+..+ +...+.+-|+||..+-.    .+--.| 
T Consensus       197 advGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG------~v~yd-df~q~tVADiPGiI~GAh~nkGlG~~FL  269 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIG------TVNYD-DFSQITVADIPGIIEGAHMNKGLGYKFL  269 (366)
T ss_pred             cccceecCCCCcHHHHHHHhhccCCcccccceeeeccccc------eeecc-ccceeEeccCccccccccccCcccHHHH
Confidence            45678899999999999999987642 222     23333      11112 22348999999974322    222333 


Q ss_pred             --hccCCEEEEEEeCCCh---hhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEE
Q psy3029         176 --YRNANAALLVFDITQY---HSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYE  247 (617)
Q Consensus       176 --~~~ad~iIlV~Dis~~---~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~e  247 (617)
                        ++.++.++||+|++.+   ..++.++....++..+..  ...|.+||+||+|+.+..   .....++++.+.- .+++
T Consensus       270 rHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae---~~~l~~L~~~lq~~~V~p  346 (366)
T KOG1489|consen  270 RHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE---KNLLSSLAKRLQNPHVVP  346 (366)
T ss_pred             HHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH---HHHHHHHHHHcCCCcEEE
Confidence              5589999999999988   666666655555544332  346999999999985221   1223566666654 4999


Q ss_pred             EcCCCCCCHHHHHHHHHH
Q psy3029         248 TSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       248 vSAktg~gI~eLf~~I~~  265 (617)
                      +||++++|++++++.|.+
T Consensus       347 vsA~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  347 VSAKSGEGLEELLNGLRE  364 (366)
T ss_pred             eeeccccchHHHHHHHhh
Confidence            999999999999987754

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.39  E-value=5.6e-12  Score=123.64  Aligned_cols=148  Identities=16%  Similarity=0.165  Sum_probs=89.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcce---eEEEEEEEECCeEEEEEEEecCCcccccccchhh-----hccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGA---SFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY-----YRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~---~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~-----~~~ad~iIlV~  186 (617)
                      +|||||||+|.|++..+......+.+.   +.....+.. .....+.+|||+|..........|     +..+|++++|.
T Consensus        10 ~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~-~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~   88 (197)
T cd04104          10 SGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPH-PKFPNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIIS   88 (197)
T ss_pred             CCCCHHHHHHHHhccCCCCCCccccCccccccCceeeec-CCCCCceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEe
Confidence            999999999999986543333333331   111111111 112368999999986443333333     56789988885


Q ss_pred             eCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccc-----------cCHHHHHHHH----HhcCC---eEEE
Q psy3029         187 DITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSRE-----------VNREEAFHYS----KSIGG---TYYE  247 (617)
Q Consensus       187 Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~-----------v~~~e~~~~~----~~~g~---~~~e  247 (617)
                      |  +  .|...+ .|+..+.+.   ..|+++|+||+|+.....           ...++..+.+    ...+.   ++|.
T Consensus        89 ~--~--~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~  161 (197)
T cd04104          89 S--T--RFSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFL  161 (197)
T ss_pred             C--C--CCCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEE
Confidence            4  2  244443 455555553   358999999999843111           0011122222    12222   7899


Q ss_pred             EcCC--CCCCHHHHHHHHHHHHHHh
Q psy3029         248 TSAL--QDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       248 vSAk--tg~gI~eLf~~I~~~l~~~  270 (617)
                      +|+.  .+.++..|.+.|...+...
T Consensus       162 vS~~~~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         162 VSNFDPSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             EeCCChhhcChHHHHHHHHHHhhHH
Confidence            9998  6799999999999888754

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>KOG1423|consensus

Probab=99.37  E-value=6.5e-12  Score=125.99  Aligned_cols=160  Identities=18%  Similarity=0.181  Sum_probs=103.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      .+.+.|+++|.                      ||||||||.|.+++.+..+.. ..+-.++......+......+.|+|
T Consensus        70 ~k~L~vavIG~----------------------PNvGKStLtN~mig~kv~~vS-~K~~TTr~~ilgi~ts~eTQlvf~D  126 (379)
T KOG1423|consen   70 QKSLYVAVIGA----------------------PNVGKSTLTNQMIGQKVSAVS-RKVHTTRHRILGIITSGETQLVFYD  126 (379)
T ss_pred             ceEEEEEEEcC----------------------CCcchhhhhhHhhCCcccccc-ccccceeeeeeEEEecCceEEEEec
Confidence            45577888888                      999999999999998864332 3333333444444555678999999


Q ss_pred             cCCcccc------------cccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc--
Q psy3029         162 TAGQERF------------RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR--  227 (617)
Q Consensus       162 t~G~e~~------------~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~--  227 (617)
                      |||.-.-            ..--+..+.+||++++|+|+++...... -+.+..+.++.  .+|-|+|.||.|....+  
T Consensus       127 TPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~ys--~ips~lvmnkid~~k~k~~  203 (379)
T KOG1423|consen  127 TPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEYS--KIPSILVMNKIDKLKQKRL  203 (379)
T ss_pred             CCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHHh--cCCceeeccchhcchhhhH
Confidence            9996211            1122345678999999999986332211 12233333332  37889999999985432  


Q ss_pred             -----------ccCHHHHHHHHHhc-------------CC----eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         228 -----------EVNREEAFHYSKSI-------------GG----TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       228 -----------~v~~~e~~~~~~~~-------------g~----~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                                 ++.. ...+++.++             |.    .+|.+||++|+||+++.++|+.+..
T Consensus       204 Ll~l~~~Lt~g~l~~-~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  204 LLNLKDLLTNGELAK-LKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             HhhhHHhccccccch-hhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence                       1111 011222211             11    4899999999999999999987653

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.37  E-value=7.9e-12  Score=124.99  Aligned_cols=107  Identities=16%  Similarity=0.103  Sum_probs=70.7

Q ss_pred             EEEEEEEecCCcccccccchhhhc--cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC-
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYR--NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN-  230 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~--~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~-  230 (617)
                      ...+.++||||+++|.......+.  .+|++++|+|+.....-. ..+++..+..   .++|+++|+||+|+.++.... 
T Consensus        83 ~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~-d~~~l~~l~~---~~ip~ivvvNK~D~~~~~~~~~  158 (224)
T cd04165          83 SKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGM-TKEHLGLALA---LNIPVFVVVTKIDLAPANILQE  158 (224)
T ss_pred             CcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHH-HHHHHHHHHH---cCCCEEEEEECccccCHHHHHH
Confidence            357899999999888654444443  689999999987754322 1233343333   337899999999986532221 


Q ss_pred             -HHHHHHHHHh--------------------------cCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         231 -REEAFHYSKS--------------------------IGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       231 -~~e~~~~~~~--------------------------~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                       .+++.++.+.                          ...++|.+||.+|.|+++|...|.
T Consensus       159 ~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         159 TLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             HHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence             1122222221                          123899999999999999998764

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>KOG1191|consensus

Probab=99.37  E-value=1.9e-12  Score=137.33  Aligned_cols=165  Identities=22%  Similarity=0.219  Sum_probs=117.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+|+|+                      ||||||||+|.|.+.. ...+.|..|.+++.....++-+.+.+.+.||
T Consensus       267 ~gl~iaIvGr----------------------PNvGKSSLlNaL~~~d-rsIVSpv~GTTRDaiea~v~~~G~~v~L~DT  323 (531)
T KOG1191|consen  267 SGLQIAIVGR----------------------PNVGKSSLLNALSRED-RSIVSPVPGTTRDAIEAQVTVNGVPVRLSDT  323 (531)
T ss_pred             cCCeEEEEcC----------------------CCCCHHHHHHHHhcCC-ceEeCCCCCcchhhheeEeecCCeEEEEEec
Confidence            4478999999                      9999999999999887 6788899999999988888888889999999


Q ss_pred             CCccc-cc--------ccchhhhccCCEEEEEEeC--CChhhHHHHHHHHHHHHhcC------CCCCeEEEEEECCCCCC
Q psy3029         163 AGQER-FR--------SMAPMYYRNANAALLVFDI--TQYHSFAAIKTWVKELKRNV------DEPLVLCVVGNKTDLES  225 (617)
Q Consensus       163 ~G~e~-~~--------~~~~~~~~~ad~iIlV~Di--s~~~S~~~l~~~l~~i~~~~------~~~iPvIlVgNK~DL~~  225 (617)
                      +|.-+ -.        ...+..+..+|++++|+|+  ++-++-..+.+.+.....-.      ..+.|+++|.||.|+..
T Consensus       324 AGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s  403 (531)
T KOG1191|consen  324 AGIREESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVS  403 (531)
T ss_pred             cccccccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccC
Confidence            99744 11        1234457789999999998  33333344444444433211      12358999999999975


Q ss_pred             c-cccCHHHHHHHHHhcC---C-eEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         226 S-REVNREEAFHYSKSIG---G-TYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       226 ~-~~v~~~e~~~~~~~~g---~-~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      . .+.... ...+....+   + ...++|+++++|+++|...|.+.+....
T Consensus       404 ~~~~~~~~-~~~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~~~~~~~  453 (531)
T KOG1191|consen  404 KIPEMTKI-PVVYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLNIVERLV  453 (531)
T ss_pred             ccccccCC-ceeccccccCcccceEEEeeechhhhHHHHHHHHHHHHHHhh
Confidence            4 222111 111111111   2 3456999999999999999998876654

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.36  E-value=2.4e-12  Score=128.35  Aligned_cols=144  Identities=16%  Similarity=0.117  Sum_probs=89.6

Q ss_pred             CCCCCCCCHHHHHHHHHcCC--CC---------------------------CccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029         111 NWFWLGVGKTSMVVRYIGKM--FS---------------------------HHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~--~~---------------------------~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ++|..++|||||+.+|+...  ..                           .......|.+++.....+......+.+||
T Consensus         4 i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~liD   83 (219)
T cd01883           4 VIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFTILD   83 (219)
T ss_pred             EecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEEEEE
Confidence            34449999999999996210  00                           00111234444555555555678899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChh-------hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc--ccc---
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYH-------SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS--REV---  229 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~-------S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~--~~v---  229 (617)
                      |+|+.+|.......+..+|++|+|+|+++..       ..+....| ..... .. ..|+++|+||+|+...  ...   
T Consensus        84 tpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~-~~-~~~iiivvNK~Dl~~~~~~~~~~~  160 (219)
T cd01883          84 APGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHA-LLART-LG-VKQLIVAVNKMDDVTVNWSEERYD  160 (219)
T ss_pred             CCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHH-HHHHH-cC-CCeEEEEEEccccccccccHHHHH
Confidence            9999877665666677899999999998842       11112222 22222 22 2489999999999631  110   


Q ss_pred             -CHHHHHHHHHhcC-----CeEEEEcCCCCCCHH
Q psy3029         230 -NREEAFHYSKSIG-----GTYYETSALQDQGIE  257 (617)
Q Consensus       230 -~~~e~~~~~~~~g-----~~~~evSAktg~gI~  257 (617)
                       ..+++..+....+     ++++++||++|.||+
T Consensus       161 ~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         161 EIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence             1122223344443     579999999999986

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.35  E-value=8.6e-12  Score=135.26  Aligned_cols=152  Identities=15%  Similarity=0.112  Sum_probs=98.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC-----C--CC-----C--ccCCCcceeEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK-----M--FS-----H--HISPTIGASFFTAKI  148 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~-----~--~~-----~--~~~~t~g~~~~~~~i  148 (617)
                      ..++|+++|.                      .++|||||+++|++.     +  +.     .  ......|.+.....+
T Consensus        11 ~~~~i~i~Gh----------------------vd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~   68 (394)
T TIGR00485        11 PHVNIGTIGH----------------------VDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHV   68 (394)
T ss_pred             ceEEEEEEee----------------------cCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEE
Confidence            3467888888                      999999999999732     0  00     0  011124555555556


Q ss_pred             EECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeE-EEEEECCCCCCcc
Q psy3029         149 NVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVL-CVVGNKTDLESSR  227 (617)
Q Consensus       149 ~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPv-IlVgNK~DL~~~~  227 (617)
                      .+......+.||||||+++|.......+..+|++++|+|+.+....+. .+.+..+...   .+|. |+|+||+|+.+..
T Consensus        69 ~~~~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt-~e~l~~~~~~---gi~~iIvvvNK~Dl~~~~  144 (394)
T TIGR00485        69 EYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQT-REHILLARQV---GVPYIVVFLNKCDMVDDE  144 (394)
T ss_pred             EEcCCCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc---CCCEEEEEEEecccCCHH
Confidence            666666789999999999887555555678899999999987432221 1223333322   3564 5689999987533


Q ss_pred             ccC---HHHHHHHHHhcC-----CeEEEEcCCCCC-CHHHHH
Q psy3029         228 EVN---REEAFHYSKSIG-----GTYYETSALQDQ-GIEDVF  260 (617)
Q Consensus       228 ~v~---~~e~~~~~~~~g-----~~~~evSAktg~-gI~eLf  260 (617)
                      +..   .+++..++..++     ++++++||++|. |..+++
T Consensus       145 ~~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~g~~~~~  186 (394)
T TIGR00485       145 ELLELVEMEVRELLSEYDFPGDDTPIIRGSALKALEGDAEWE  186 (394)
T ss_pred             HHHHHHHHHHHHHHHhcCCCccCccEEECccccccccCCchh
Confidence            221   234556666655     689999999885 444443

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.35  E-value=4.8e-12  Score=132.54  Aligned_cols=80  Identities=18%  Similarity=0.238  Sum_probs=54.8

Q ss_pred             cCCCCCCCCHHHHHHHHHcCCCC------CccCCCcceeEEEEE---------------EEECC-eEEEEEEEecCCc--
Q psy3029         110 ANWFWLGVGKTSMVVRYIGKMFS------HHISPTIGASFFTAK---------------INVGE-NKVKLQVWDTAGQ--  165 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~~~~------~~~~~t~g~~~~~~~---------------i~~~~-~~~~l~i~Dt~G~--  165 (617)
                      +|+|.||||||||+|+|++....      ....|++|..+....               ...++ ..+.+++|||+|.  
T Consensus         2 ~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv~   81 (318)
T cd01899           2 GLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLVP   81 (318)
T ss_pred             EEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCCC
Confidence            45566999999999999987642      223455554433211               00122 3478999999997  


Q ss_pred             --ccccccchhh---hccCCEEEEEEeCC
Q psy3029         166 --ERFRSMAPMY---YRNANAALLVFDIT  189 (617)
Q Consensus       166 --e~~~~~~~~~---~~~ad~iIlV~Dis  189 (617)
                        +++..+...+   ++++|++++|+|+.
T Consensus        82 ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          82 GAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence              4555555554   88999999999997

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.34  E-value=1.2e-11  Score=134.11  Aligned_cols=148  Identities=18%  Similarity=0.116  Sum_probs=94.7

Q ss_pred             CCCCHHHHHHHHHcCCC-------C--C-----ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGKMF-------S--H-----HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~-------~--~-----~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      .++|||||+++|++...       .  .     ......|.++......+......+.||||||+++|.......+..+|
T Consensus        21 vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~~d  100 (394)
T PRK12736         21 VDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMD  100 (394)
T ss_pred             CCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHHHHHHHHHHhhCC
Confidence            99999999999985210       0  0     01113455555555555555667899999999888665555667899


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCccccC---HHHHHHHHHhcC-----CeEEEEcCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVN---REEAFHYSKSIG-----GTYYETSAL  251 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v~---~~e~~~~~~~~g-----~~~~evSAk  251 (617)
                      ++++|+|+.....-.. .+++..+...   .+| +|||+||+|+.+..+..   .+++..+....+     ++++++||+
T Consensus       101 ~~llVvd~~~g~~~~t-~~~~~~~~~~---g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~  176 (394)
T PRK12736        101 GAILVVAATDGPMPQT-REHILLARQV---GVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSAL  176 (394)
T ss_pred             EEEEEEECCCCCchhH-HHHHHHHHHc---CCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEEeecc
Confidence            9999999987432221 2233333332   356 67899999986433221   234445555554     479999999


Q ss_pred             CCC--------CHHHHHHHHHHH
Q psy3029         252 QDQ--------GIEDVFLNVSKG  266 (617)
Q Consensus       252 tg~--------gI~eLf~~I~~~  266 (617)
                      +|.        ++.+|++.|...
T Consensus       177 ~g~~~~~~~~~~i~~Ll~~l~~~  199 (394)
T PRK12736        177 KALEGDPKWEDAIMELMDAVDEY  199 (394)
T ss_pred             ccccCCCcchhhHHHHHHHHHHh
Confidence            983        456666665543

>cd01859 MJ1464 MJ1464

Probab=99.34  E-value=7.5e-12  Score=117.84  Aligned_cols=145  Identities=19%  Similarity=0.136  Sum_probs=95.4

Q ss_pred             ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEE
Q psy3029         168 FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYE  247 (617)
Q Consensus       168 ~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~e  247 (617)
                      |..+.+..++++|++|+|+|++++..... ..+...+..   .+.|+++|+||+|+.....  .+....+....+.+++.
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~~---~~~p~iiv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~   75 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVLE---LGKKLLIVLNKADLVPKEV--LEKWKSIKESEGIPVVY   75 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHHh---CCCcEEEEEEhHHhCCHHH--HHHHHHHHHhCCCcEEE
Confidence            44567888889999999999987653222 112222221   2469999999999864322  11222344455678999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCC
Q psy3029         248 TSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSR  327 (617)
Q Consensus       248 vSAktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~  327 (617)
                      +||+++.|+++|++.|.+.+...                                         ....+++++|.+    
T Consensus        76 iSa~~~~gi~~L~~~l~~~~~~~-----------------------------------------~~~~~~~~ig~~----  110 (156)
T cd01859          76 VSAKERLGTKILRRTIKELAKID-----------------------------------------GKEGKVGVVGYP----  110 (156)
T ss_pred             EEccccccHHHHHHHHHHHHhhc-----------------------------------------CCCcEEEEECCC----
Confidence            99999999999999987765310                                         012456677766    


Q ss_pred             CCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC
Q psy3029         328 VPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE  376 (617)
Q Consensus       328 ~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~  376 (617)
                                  ++|||++++++.... ...+.+++|..+..+.+..++
T Consensus       111 ------------~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~~~  146 (156)
T cd01859         111 ------------NVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKITS  146 (156)
T ss_pred             ------------CCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEcCC
Confidence                        999999999998543 444567777654333333433

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.33  E-value=1.7e-11  Score=133.04  Aligned_cols=157  Identities=15%  Similarity=0.113  Sum_probs=101.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC-------CCC-------CccCCCcceeEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK-------MFS-------HHISPTIGASFFTAKI  148 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~-------~~~-------~~~~~t~g~~~~~~~i  148 (617)
                      ..++|+++|.                      +++|||||+++|++.       .+.       .......|.+......
T Consensus        11 ~~~~i~iiGh----------------------vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~   68 (396)
T PRK12735         11 PHVNVGTIGH----------------------VDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHV   68 (396)
T ss_pred             CeEEEEEECc----------------------CCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeee
Confidence            3467888888                      999999999999852       100       0011134555555445


Q ss_pred             EECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEE-EEEECCCCCCcc
Q psy3029         149 NVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLC-VVGNKTDLESSR  227 (617)
Q Consensus       149 ~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvI-lVgNK~DL~~~~  227 (617)
                      .+......+.|+||||+++|.......+..+|++++|+|+.+...-. ..+++..+..   ..+|.+ +|+||+|+..+.
T Consensus        69 ~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~q-t~e~l~~~~~---~gi~~iivvvNK~Dl~~~~  144 (396)
T PRK12735         69 EYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQ---VGVPYIVVFLNKCDMVDDE  144 (396)
T ss_pred             EEcCCCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchh-HHHHHHHHHH---cCCCeEEEEEEecCCcchH
Confidence            55555567899999999887766666677899999999998743222 1233333332   235755 679999996432


Q ss_pred             cc---CHHHHHHHHHhcC-----CeEEEEcCCCCC----------CHHHHHHHHHH
Q psy3029         228 EV---NREEAFHYSKSIG-----GTYYETSALQDQ----------GIEDVFLNVSK  265 (617)
Q Consensus       228 ~v---~~~e~~~~~~~~g-----~~~~evSAktg~----------gI~eLf~~I~~  265 (617)
                      +.   ..+++..+...++     ++++++||++|.          ++.+|++.|..
T Consensus       145 ~~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~  200 (396)
T PRK12735        145 ELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDS  200 (396)
T ss_pred             HHHHHHHHHHHHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHh
Confidence            21   1224445555543     589999999985          45566655544

>PRK12289 GTPase RsgA; Reviewed

Probab=99.32  E-value=5.4e-12  Score=133.72  Aligned_cols=94  Identities=19%  Similarity=0.168  Sum_probs=73.3

Q ss_pred             ccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++...+.+.+++++|++++|+|+.++. ++..+++|+..+..   .++|++||+||+||..+.+  .+.....+..+|++
T Consensus        77 pR~~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~--~~~~~~~~~~~g~~  151 (352)
T PRK12289         77 PRKTELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTE--QQQWQDRLQQWGYQ  151 (352)
T ss_pred             ccccceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHH--HHHHHHHHHhcCCe
Confidence            455667788899999999999998876 56677888887643   3479999999999964322  12334455678899


Q ss_pred             EEEEcCCCCCCHHHHHHHHH
Q psy3029         245 YYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~  264 (617)
                      ++.+||+++.|+++|++.|.
T Consensus       152 v~~iSA~tg~GI~eL~~~L~  171 (352)
T PRK12289        152 PLFISVETGIGLEALLEQLR  171 (352)
T ss_pred             EEEEEcCCCCCHHHHhhhhc
Confidence            99999999999999988763

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.31  E-value=1.9e-11  Score=123.90  Aligned_cols=152  Identities=16%  Similarity=0.059  Sum_probs=98.3

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc-------ccchhhhccCC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-------SMAPMYYRNAN  180 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~-------~~~~~~~~~ad  180 (617)
                      .++++|+|+||||||+++|++.+......+-.  +.....-.+..+..++|++|+||.-.-.       ...-...++||
T Consensus        65 ~v~lVGfPsvGKStLL~~LTnt~seva~y~FT--Tl~~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~AD  142 (365)
T COG1163          65 TVALVGFPSVGKSTLLNKLTNTKSEVADYPFT--TLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNAD  142 (365)
T ss_pred             EEEEEcCCCccHHHHHHHHhCCCccccccCce--ecccccceEeecCceEEEEcCcccccCcccCCCCcceeeeeeccCC
Confidence            33444449999999999999876422221211  1112222234466889999999863221       23344678999


Q ss_pred             EEEEEEeCCChhh-HHHHHHHHHHHHhcC---CC----------------------------------------------
Q psy3029         181 AALLVFDITQYHS-FAAIKTWVKELKRNV---DE----------------------------------------------  210 (617)
Q Consensus       181 ~iIlV~Dis~~~S-~~~l~~~l~~i~~~~---~~----------------------------------------------  210 (617)
                      ++++|+|+....+ .+.+.+.+...--..   +.                                              
T Consensus       143 lIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~  222 (365)
T COG1163         143 LIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIRE  222 (365)
T ss_pred             EEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEec
Confidence            9999999987665 444443332210000   00                                              


Q ss_pred             ----------------CCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         211 ----------------PLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       211 ----------------~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                                      -+|.++|.||+|+..     .++...+.+..  .++.+||+.+.|+++|.+.|.+.+.
T Consensus       223 dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         223 DVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             CCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhC
Confidence                            089999999999864     33444444443  8999999999999999999988763

>cd01850 CDC_Septin CDC/Septin

Probab=99.31  E-value=1.5e-11  Score=126.79  Aligned_cols=132  Identities=18%  Similarity=0.171  Sum_probs=86.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCc----------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc--------------
Q psy3029         115 LGVGKTSMVVRYIGKMFSHH----------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS--------------  170 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~----------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~--------------  170 (617)
                      +|+|||||+|+|++..+...          ..+|.+.+.....+..++..+.+.+|||+|......              
T Consensus        13 sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~   92 (276)
T cd01850          13 SGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDD   92 (276)
T ss_pred             CCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHHHHHHHHHH
Confidence            99999999999998876433          345666666666666677788999999999532210              


Q ss_pred             ------------cchhhhc--cCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCccc--cCHHH
Q psy3029         171 ------------MAPMYYR--NANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESSRE--VNREE  233 (617)
Q Consensus       171 ------------~~~~~~~--~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--v~~~e  233 (617)
                                  .+...+.  .+|+++++++.+.. .+... .+.+..+..    .+|+++|+||+|+....+  ...+.
T Consensus        93 q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~-~l~~~D~~~lk~l~~----~v~vi~VinK~D~l~~~e~~~~k~~  167 (276)
T cd01850          93 QFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLDIEFMKRLSK----RVNIIPVIAKADTLTPEELKEFKQR  167 (276)
T ss_pred             HHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHHHHHHHHHhc----cCCEEEEEECCCcCCHHHHHHHHHH
Confidence                        1112333  47778888876542 22222 123333322    479999999999965322  23455


Q ss_pred             HHHHHHhcCCeEEEEcCC
Q psy3029         234 AFHYSKSIGGTYYETSAL  251 (617)
Q Consensus       234 ~~~~~~~~g~~~~evSAk  251 (617)
                      +.+.+..+++++|.+...
T Consensus       168 i~~~l~~~~i~~~~~~~~  185 (276)
T cd01850         168 IMEDIEEHNIKIYKFPED  185 (276)
T ss_pred             HHHHHHHcCCceECCCCC
Confidence            667778889998877654

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>cd04169 RF3 RF3 subfamily

Probab=99.29  E-value=3.8e-11  Score=123.23  Aligned_cols=107  Identities=16%  Similarity=0.139  Sum_probs=74.4

Q ss_pred             CCCCHHHHHHHHHcCCCC-C----------------ccC---CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchh
Q psy3029         115 LGVGKTSMVVRYIGKMFS-H----------------HIS---PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM  174 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~----------------~~~---~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~  174 (617)
                      +|+|||||+++|+...-. .                .+.   ...|.++......+....+++.+|||||+.+|......
T Consensus        11 ~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~df~~~~~~   90 (267)
T cd04169          11 PDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHEDFSEDTYR   90 (267)
T ss_pred             CCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchHHHHHHHH
Confidence            999999999999742100 0                000   01233444555566667789999999999988877778


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      +++.+|++|+|+|+++.... ....++..+..   .++|+++++||+|+..
T Consensus        91 ~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~---~~~P~iivvNK~D~~~  137 (267)
T cd04169          91 TLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL---RGIPIITFINKLDREG  137 (267)
T ss_pred             HHHHCCEEEEEEECCCCccH-HHHHHHHHHHh---cCCCEEEEEECCccCC
Confidence            89999999999999875432 22334444332   3479999999999854

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>CHL00071 tufA elongation factor Tu

Probab=99.29  E-value=3.4e-11  Score=131.14  Aligned_cols=138  Identities=16%  Similarity=0.081  Sum_probs=90.2

Q ss_pred             CCCCHHHHHHHHHcCCC------CCc--------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGKMF------SHH--------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~------~~~--------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      +++|||||+++|++..-      ...        .....|.++......+..+...+.|+||||+.+|.......+..+|
T Consensus        21 ~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~~~~~~~~~~~~D  100 (409)
T CHL00071         21 VDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMD  100 (409)
T ss_pred             CCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHHHHHHHHHHHhCC
Confidence            99999999999986311      000        1112455555544555555567889999999887766667788999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcccc---CHHHHHHHHHhcC-----CeEEEEcCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREV---NREEAFHYSKSIG-----GTYYETSAL  251 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v---~~~e~~~~~~~~g-----~~~~evSAk  251 (617)
                      ++++|+|+.....-+ ..+.+..+..   ..+| +|+|+||+|+.+..+.   ..+++..+.+..+     ++++.+||.
T Consensus       101 ~~ilVvda~~g~~~q-t~~~~~~~~~---~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~  176 (409)
T CHL00071        101 GAILVVSAADGPMPQ-TKEHILLAKQ---VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSGSAL  176 (409)
T ss_pred             EEEEEEECCCCCcHH-HHHHHHHHHH---cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcchh
Confidence            999999998643222 1223333332   2357 7789999999753321   1234445555544     589999999


Q ss_pred             CCCCH
Q psy3029         252 QDQGI  256 (617)
Q Consensus       252 tg~gI  256 (617)
                      +|.++
T Consensus       177 ~g~n~  181 (409)
T CHL00071        177 LALEA  181 (409)
T ss_pred             hcccc
Confidence            99754

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.29  E-value=4e-11  Score=122.61  Aligned_cols=156  Identities=18%  Similarity=0.166  Sum_probs=100.8

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCC-CccC-----CCcceeEEEEEEEECCeEEEEEEEecCCccccc----ccchh---h
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFS-HHIS-----PTIGASFFTAKINVGENKVKLQVWDTAGQERFR----SMAPM---Y  175 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~-~~~~-----~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~----~~~~~---~  175 (617)
                      +.++|+||+|||||++.+...+.. +.|.     |..|+      +.+ ...-.|.+-|+||..+-.    .+-..   .
T Consensus       162 VGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGv------V~~-~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrH  234 (369)
T COG0536         162 VGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGV------VRV-DGGESFVVADIPGLIEGASEGVGLGLRFLRH  234 (369)
T ss_pred             cccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccE------EEe-cCCCcEEEecCcccccccccCCCccHHHHHH
Confidence            678899999999999999876642 2332     33332      122 233458899999974321    22223   3


Q ss_pred             hccCCEEEEEEeCCChhh---HHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEE-Ec
Q psy3029         176 YRNANAALLVFDITQYHS---FAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYE-TS  249 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S---~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~e-vS  249 (617)
                      ++.+.++++|+|++..+.   .++......++..+..  ...|.+||+||+|+....+...+....+.+..+...+. +|
T Consensus       235 IERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~IS  314 (369)
T COG0536         235 IERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLIS  314 (369)
T ss_pred             HHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeee
Confidence            557999999999986542   4444444455554432  24689999999996543332223333444444543222 99


Q ss_pred             CCCCCCHHHHHHHHHHHHHHhh
Q psy3029         250 ALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       250 Aktg~gI~eLf~~I~~~l~~~~  271 (617)
                      |.++.|+++|...+.+.+....
T Consensus       315 a~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         315 ALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             hhcccCHHHHHHHHHHHHHHhh
Confidence            9999999999999988876653

>PRK12288 GTPase RsgA; Reviewed

Probab=99.26  E-value=1.7e-11  Score=130.01  Aligned_cols=86  Identities=17%  Similarity=0.183  Sum_probs=67.8

Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc-cCHHHHHHHHHhcCCeEEEEcCCCCC
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE-VNREEAFHYSKSIGGTYYETSALQDQ  254 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~-v~~~e~~~~~~~~g~~~~evSAktg~  254 (617)
                      ..|+|.+++|+++....++..+++|+..+..   .++|++||+||+||..+.+ ...++....+...+++++++||+++.
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~  194 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGE  194 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCc
Confidence            5789999999999877799999999886653   3478899999999965322 11233344556778999999999999


Q ss_pred             CHHHHHHHHH
Q psy3029         255 GIEDVFLNVS  264 (617)
Q Consensus       255 gI~eLf~~I~  264 (617)
                      |+++|++.|.
T Consensus       195 GideL~~~L~  204 (347)
T PRK12288        195 GLEELEAALT  204 (347)
T ss_pred             CHHHHHHHHh
Confidence            9999998874

>cd01855 YqeH YqeH

Probab=99.24  E-value=3.8e-11  Score=116.96  Aligned_cols=93  Identities=18%  Similarity=0.178  Sum_probs=64.7

Q ss_pred             ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHH-----HhcC
Q psy3029         168 FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYS-----KSIG  242 (617)
Q Consensus       168 ~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~-----~~~g  242 (617)
                      +..++..+++++|++|+|+|++++..     .|...+.... .++|+++|+||+|+..... ..+....+.     +..+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~~~~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFG-GNNPVILVGNKIDLLPKDK-NLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhc-CCCcEEEEEEchhcCCCCC-CHHHHHHHHHHHHHhhcC
Confidence            46678889999999999999987642     1222222222 3469999999999965332 233333333     2333


Q ss_pred             C---eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         243 G---TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       243 ~---~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +   .++++||+++.|+++|++.|.+.+
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l  124 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLA  124 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3   689999999999999999987765

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.24  E-value=4.1e-11  Score=132.53  Aligned_cols=154  Identities=16%  Similarity=0.102  Sum_probs=96.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC-CCc------------cC------------
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF-SHH------------IS------------  136 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~-~~~------------~~------------  136 (617)
                      ...++|+++|.                      .++|||||+.+|+...- ...            ..            
T Consensus        25 ~~~~~i~iiGh----------------------vdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~   82 (474)
T PRK05124         25 KSLLRFLTCGS----------------------VDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLV   82 (474)
T ss_pred             cCceEEEEECC----------------------CCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhc
Confidence            45589999999                      99999999999974321 000            00            


Q ss_pred             ------CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCC
Q psy3029         137 ------PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE  210 (617)
Q Consensus       137 ------~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~  210 (617)
                            ...|+++......+......+.||||||+++|.......+..+|++|+|+|+.....-.....| ..+... ..
T Consensus        83 D~~~eEr~rgiTid~~~~~~~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~-~l~~~l-g~  160 (474)
T PRK05124         83 DGLQAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS-FIATLL-GI  160 (474)
T ss_pred             cCChHHhhcCCCeEeeEEEeccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH-HHHHHh-CC
Confidence                  0123333333334445566899999999988865555557899999999999765321111111 111111 11


Q ss_pred             CCeEEEEEECCCCCCccccCHH----HHHHHHHhcC----CeEEEEcCCCCCCHHHHH
Q psy3029         211 PLVLCVVGNKTDLESSREVNRE----EAFHYSKSIG----GTYYETSALQDQGIEDVF  260 (617)
Q Consensus       211 ~iPvIlVgNK~DL~~~~~v~~~----e~~~~~~~~g----~~~~evSAktg~gI~eLf  260 (617)
                       .|+|||+||+|+....+...+    +...+.+..+    ++++++||++|.|++++-
T Consensus       161 -~~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~  217 (474)
T PRK05124        161 -KHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQS  217 (474)
T ss_pred             -CceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCccccc
Confidence             378899999998643221111    2223333333    689999999999998754

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.23  E-value=1e-10  Score=130.50  Aligned_cols=106  Identities=16%  Similarity=0.184  Sum_probs=74.2

Q ss_pred             CCCCHHHHHHHHHc--CCCC---------------Cc---cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchh
Q psy3029         115 LGVGKTSMVVRYIG--KMFS---------------HH---ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM  174 (617)
Q Consensus       115 ~nVGKSSLinrl~~--~~~~---------------~~---~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~  174 (617)
                      +++|||||+++|+.  +...               ..   .....|.++......+..+.+.+.+|||||+.+|......
T Consensus        19 ~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTPG~~df~~~~~~   98 (526)
T PRK00741         19 PDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTPGHEDFSEDTYR   98 (526)
T ss_pred             CCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECCCchhhHHHHHH
Confidence            99999999999963  1100               00   0112344444555556666788999999999998887788


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      +++.+|++|+|+|+++.... ....++.....   .++|+++++||+|+.
T Consensus        99 ~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~---~~iPiiv~iNK~D~~  144 (526)
T PRK00741         99 TLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL---RDTPIFTFINKLDRD  144 (526)
T ss_pred             HHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh---cCCCEEEEEECCccc
Confidence            89999999999999875322 22344444333   357999999999984

>PRK13351 elongation factor G; Reviewed

Probab=99.22  E-value=1.2e-10  Score=135.05  Aligned_cols=107  Identities=20%  Similarity=0.224  Sum_probs=74.2

Q ss_pred             CCCCHHHHHHHHHcCCC-------------CCccCC---CcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGKMF-------------SHHISP---TIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~-------------~~~~~~---t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      .++|||||+++|+...-             ...+.+   ..+.++......+....+.+.+|||||+.+|...+..+++.
T Consensus        17 ~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~   96 (687)
T PRK13351         17 IDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRV   96 (687)
T ss_pred             CCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHHHHHHHHHHHh
Confidence            99999999999984210             000000   12222222223333456789999999999998888999999


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      +|++|+|+|+++.........| ..+..   .++|+++|+||+|+..
T Consensus        97 aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~  139 (687)
T PRK13351         97 LDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVG  139 (687)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCC
Confidence            9999999999987666554434 33333   3479999999999863

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.22  E-value=8e-11  Score=128.07  Aligned_cols=142  Identities=18%  Similarity=0.165  Sum_probs=88.5

Q ss_pred             CCCCHHHHHHHHHcCCC--CC-----------------------------ccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029         115 LGVGKTSMVVRYIGKMF--SH-----------------------------HISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~--~~-----------------------------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .++|||||+.+|+...-  ..                             ......|.+++.....+.....++.|||||
T Consensus         9 vd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~~~~liDtP   88 (406)
T TIGR02034         9 VDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKRKFIVADTP   88 (406)
T ss_pred             CCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCeEEEEEeCC
Confidence            99999999999963210  00                             000112333444444444556689999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC----HHHHHHHHH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN----REEAFHYSK  239 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~----~~e~~~~~~  239 (617)
                      |+++|.......+..+|++|+|+|+.....-+....| ..+... .. .++|||+||+|+.......    .++...+.+
T Consensus        89 Gh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~-~~~~~~-~~-~~iivviNK~D~~~~~~~~~~~i~~~~~~~~~  165 (406)
T TIGR02034        89 GHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHS-YIASLL-GI-RHVVLAVNKMDLVDYDEEVFENIKKDYLAFAE  165 (406)
T ss_pred             CHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHH-HHHHHc-CC-CcEEEEEEecccccchHHHHHHHHHHHHHHHH
Confidence            9998876666678899999999998765422221112 122221 11 3688999999986422111    122233344


Q ss_pred             hcC---CeEEEEcCCCCCCHHHH
Q psy3029         240 SIG---GTYYETSALQDQGIEDV  259 (617)
Q Consensus       240 ~~g---~~~~evSAktg~gI~eL  259 (617)
                      ..+   ++++++||++|.|++++
T Consensus       166 ~~~~~~~~iipiSA~~g~ni~~~  188 (406)
T TIGR02034       166 QLGFRDVTFIPLSALKGDNVVSR  188 (406)
T ss_pred             HcCCCCccEEEeecccCCCCccc
Confidence            444   36999999999999864

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>PLN03126 Elongation factor Tu; Provisional

Probab=99.21  E-value=1.8e-10  Score=127.01  Aligned_cols=138  Identities=17%  Similarity=0.063  Sum_probs=90.1

Q ss_pred             CCCCHHHHHHHHHcC------CCCC--------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGK------MFSH--------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~------~~~~--------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      +++|||||+++|+..      ....        ......|.++......+......+.|+|+||+++|.......+..+|
T Consensus        90 vd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f~~~~~~g~~~aD  169 (478)
T PLN03126         90 VDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYVKNMITGAAQMD  169 (478)
T ss_pred             CCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHHHHHHHHHHhhCC
Confidence            999999999999852      1111        11223455554444445445568899999999988776667778899


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcccc---CHHHHHHHHHhc-----CCeEEEEcCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREV---NREEAFHYSKSI-----GGTYYETSAL  251 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v---~~~e~~~~~~~~-----g~~~~evSAk  251 (617)
                      ++++|+|+.+...-.. .+++..+...   .+| +|+++||+|+.+..+.   ..+++..+.+..     .++++.+||.
T Consensus       170 ~ailVVda~~G~~~qt-~e~~~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~  245 (478)
T PLN03126        170 GAILVVSGADGPMPQT-KEHILLAKQV---GVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSAL  245 (478)
T ss_pred             EEEEEEECCCCCcHHH-HHHHHHHHHc---CCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEEEEcc
Confidence            9999999887543222 3344444332   356 7789999999753221   112444555554     3579999999


Q ss_pred             CCCCH
Q psy3029         252 QDQGI  256 (617)
Q Consensus       252 tg~gI  256 (617)
                      ++.++
T Consensus       246 ~g~n~  250 (478)
T PLN03126        246 LALEA  250 (478)
T ss_pred             ccccc
Confidence            98643

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.21  E-value=1e-10  Score=134.29  Aligned_cols=151  Identities=16%  Similarity=0.100  Sum_probs=94.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCc-------------cC-------------
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHH-------------IS-------------  136 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~-------------~~-------------  136 (617)
                      ..++|+++|.                      +++|||||+++|+...-.-.             ..             
T Consensus        23 ~~~~i~iiGh----------------------~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d   80 (632)
T PRK05506         23 SLLRFITCGS----------------------VDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVD   80 (632)
T ss_pred             CeeEEEEECC----------------------CCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeecc
Confidence            4478999999                      99999999999985321000             00             


Q ss_pred             -----CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCC
Q psy3029         137 -----PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP  211 (617)
Q Consensus       137 -----~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~  211 (617)
                           ...|.++......+......+.|+||||+++|.......+..+|++|+|+|+.....-... +.+..+... . .
T Consensus        81 ~~~~E~~rg~Tid~~~~~~~~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~-e~~~~~~~~-~-~  157 (632)
T PRK05506         81 GLAAEREQGITIDVAYRYFATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTR-RHSFIASLL-G-I  157 (632)
T ss_pred             CCHHHHhCCcCceeeeeEEccCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCH-HHHHHHHHh-C-C
Confidence                 0122333333333444556788999999988765555567899999999999765322111 111222222 1 1


Q ss_pred             CeEEEEEECCCCCCccccCH----HHHHHHHHhcCC---eEEEEcCCCCCCHHH
Q psy3029         212 LVLCVVGNKTDLESSREVNR----EEAFHYSKSIGG---TYYETSALQDQGIED  258 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~v~~----~e~~~~~~~~g~---~~~evSAktg~gI~e  258 (617)
                      .++|||+||+|+........    ++...+.+.+++   +++++||++|.|+++
T Consensus       158 ~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        158 RHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             CeEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            47889999999864211111    223334445554   699999999999985

>PRK00049 elongation factor Tu; Reviewed

Probab=99.21  E-value=2.3e-10  Score=124.12  Aligned_cols=137  Identities=15%  Similarity=0.098  Sum_probs=87.7

Q ss_pred             CCCCHHHHHHHHHcCCCC---C-----------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGKMFS---H-----------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~---~-----------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      .++|||||+++|++....   .           ......|.+.......+......+.|+||||+.+|.......+..+|
T Consensus        21 vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~aD  100 (396)
T PRK00049         21 VDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMD  100 (396)
T ss_pred             CCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHHHHHHhhhccCC
Confidence            999999999999862100   0           01113455555555555555667899999999887766667788999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEE-EEEECCCCCCcccc---CHHHHHHHHHhcC-----CeEEEEcCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLC-VVGNKTDLESSREV---NREEAFHYSKSIG-----GTYYETSAL  251 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvI-lVgNK~DL~~~~~v---~~~e~~~~~~~~g-----~~~~evSAk  251 (617)
                      ++++|+|+.....-. ..+++..+..   ..+|++ +++||+|+....+.   ..+++..+....+     ++++.+||+
T Consensus       101 ~~llVVDa~~g~~~q-t~~~~~~~~~---~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~  176 (396)
T PRK00049        101 GAILVVSAADGPMPQ-TREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSAL  176 (396)
T ss_pred             EEEEEEECCCCCchH-HHHHHHHHHH---cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcEEEeecc
Confidence            999999998753222 2233333333   236765 58999999643221   1123334444433     589999999


Q ss_pred             CCCC
Q psy3029         252 QDQG  255 (617)
Q Consensus       252 tg~g  255 (617)
                      ++.+
T Consensus       177 ~g~~  180 (396)
T PRK00049        177 KALE  180 (396)
T ss_pred             cccC
Confidence            8753

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.20  E-value=1.2e-10  Score=104.01  Aligned_cols=98  Identities=20%  Similarity=0.209  Sum_probs=59.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEE--EEEEECCeEEEEEEEecCCcccc---------cccchhhhccCCEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFT--AKINVGENKVKLQVWDTAGQERF---------RSMAPMYYRNANAAL  183 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~--~~i~~~~~~~~l~i~Dt~G~e~~---------~~~~~~~~~~ad~iI  183 (617)
                      +|||||||+|+|++.+. .......+.+...  ..+.+++.  .+.++||||...-         .......+..+|+++
T Consensus         8 ~~~GKSTlin~l~~~~~-~~~~~~~~~T~~~~~~~~~~~~~--~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii   84 (116)
T PF01926_consen    8 PNVGKSTLINALTGKKL-AKVSNIPGTTRDPVYGQFEYNNK--KFILVDTPGINDGESQDNDGKEIRKFLEQISKSDLII   84 (116)
T ss_dssp             TTSSHHHHHHHHHTSTS-SEESSSTTSSSSEEEEEEEETTE--EEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEE
T ss_pred             CCCCHHHHHHHHhcccc-ccccccccceeeeeeeeeeecee--eEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEE
Confidence            99999999999998542 2222222222222  33344444  4579999997421         111233347899999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         184 LVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       184 lV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      +|+|..++.. ....+++..+.    ...|+++|+||
T Consensus        85 ~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   85 YVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             EEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             EEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            9999877422 22223333442    34699999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>cd01856 YlqF YlqF

Probab=99.20  E-value=7e-11  Score=113.19  Aligned_cols=163  Identities=19%  Similarity=0.158  Sum_probs=99.3

Q ss_pred             cccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEE
Q psy3029         167 RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYY  246 (617)
Q Consensus       167 ~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~  246 (617)
                      +........++++|++++|+|++++...... .++..+     .+.|+++|+||+|+..+..  .....++....+..++
T Consensus         8 ~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~~~-----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~vi   79 (171)
T cd01856           8 KALRQIKEKLKLVDLVIEVRDARIPLSSRNP-LLEKIL-----GNKPRIIVLNKADLADPKK--TKKWLKYFESKGEKVL   79 (171)
T ss_pred             HHHHHHHHHHhhCCEEEEEeeccCccCcCCh-hhHhHh-----cCCCEEEEEehhhcCChHH--HHHHHHHHHhcCCeEE
Confidence            3444567778899999999999876532211 122221     1258999999999964322  1222234444456789


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCC
Q psy3029         247 ETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINS  326 (617)
Q Consensus       247 evSAktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s  326 (617)
                      .+||+++.|++++.+.|...+........                                ........+++++|.+   
T Consensus        80 ~iSa~~~~gi~~L~~~l~~~l~~~~~~~~--------------------------------~~~~~~~~~~~~~G~~---  124 (171)
T cd01856          80 FVNAKSGKGVKKLLKAAKKLLKDIEKLKA--------------------------------KGLLPRGIRAMVVGIP---  124 (171)
T ss_pred             EEECCCcccHHHHHHHHHHHHHHHhhhhh--------------------------------cccCCCCeEEEEECCC---
Confidence            99999999999999999887643110000                                0000112456666666   


Q ss_pred             CCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                                   +||||++++++....+... .+..|..+....+.++ ..+.+--++|+
T Consensus       125 -------------~vGKstlin~l~~~~~~~~-~~~~~~T~~~~~~~~~-~~~~~iDtpG~  170 (171)
T cd01856         125 -------------NVGKSTLINRLRGKKVAKV-GNKPGVTKGIQWIKIS-PGIYLLDTPGI  170 (171)
T ss_pred             -------------CCCHHHHHHHHhCCCceee-cCCCCEEeeeEEEEec-CCEEEEECCCC
Confidence                         9999999999998776422 2333444444445554 33445445554

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.19  E-value=1.1e-10  Score=104.52  Aligned_cols=106  Identities=28%  Similarity=0.324  Sum_probs=77.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccC-CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHIS-PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~-~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      .|||||+|+.|+....+...+. ++++                           +..+...+.+.++.+++||+.++..+
T Consensus         9 ~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v~~~~~~~s   61 (124)
T smart00010        9 SGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQCWRVDDRDS   61 (124)
T ss_pred             CChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEEEEccCHHH
Confidence            9999999999998877654443 4433                           22233456778899999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHH
Q psy3029         194 FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIE  257 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~  257 (617)
                      +..+  |+..+....+.++|.++++||.|+..+..+..++..        .++++|++++.|+.
T Consensus        62 ~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~~s~~~~~~~~  115 (124)
T smart00010       62 ADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGL--------EFAETSAKTPEEGE  115 (124)
T ss_pred             HHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHH--------HHHHHhCCCcchhh
Confidence            8766  887776655566889999999998543344433333        34568999999984

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.18  E-value=6.2e-11  Score=121.89  Aligned_cols=147  Identities=18%  Similarity=0.115  Sum_probs=87.7

Q ss_pred             cCCCCCCCCHHHHHHHHHcCCCCC----ccC--CC----------cceeEEEEEEEECCeEEEEEEEecCCcccccccch
Q psy3029         110 ANWFWLGVGKTSMVVRYIGKMFSH----HIS--PT----------IGASFFTAKINVGENKVKLQVWDTAGQERFRSMAP  173 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~~~~~----~~~--~t----------~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~  173 (617)
                      +|+|.+|+|||||+++|+...-..    ...  .+          .+.+.......+....+.+.+|||||..++...+.
T Consensus         3 ~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~~~   82 (268)
T cd04170           3 ALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGETR   82 (268)
T ss_pred             EEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHHHH
Confidence            344449999999999997432110    000  00          01112222223333457899999999988877788


Q ss_pred             hhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEE--EEcCC
Q psy3029         174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYY--ETSAL  251 (617)
Q Consensus       174 ~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~--evSAk  251 (617)
                      .++..+|++++|+|+++........-| ..+..   .++|+++|+||+|+....  ..+....+...++.+++  .+...
T Consensus        83 ~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~---~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~~ip~~  156 (268)
T cd04170          83 AALRAADAALVVVSAQSGVEVGTEKLW-EFADE---AGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPLQLPIG  156 (268)
T ss_pred             HHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEEEeccc
Confidence            899999999999999886544332222 23332   347999999999986432  12223334444555433  44556


Q ss_pred             CCCCHHHHHHH
Q psy3029         252 QDQGIEDVFLN  262 (617)
Q Consensus       252 tg~gI~eLf~~  262 (617)
                      ++.++..+.+.
T Consensus       157 ~~~~~~~~vd~  167 (268)
T cd04170         157 EGDDFKGVVDL  167 (268)
T ss_pred             CCCceeEEEEc
Confidence            66665444433

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.18  E-value=1.3e-10  Score=119.43  Aligned_cols=110  Identities=18%  Similarity=0.122  Sum_probs=74.9

Q ss_pred             CCCCCCCHHHHHHHHHcC--CCC--Cc------------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhh
Q psy3029         112 WFWLGVGKTSMVVRYIGK--MFS--HH------------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY  175 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~--~~~--~~------------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~  175 (617)
                      +|.+|+|||||+++|+..  ...  ..            .....|.++......+.....++.+|||||+.++...+..+
T Consensus         5 vGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~   84 (270)
T cd01886           5 IAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIEVERS   84 (270)
T ss_pred             EcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHHHHHH
Confidence            333999999999999731  100  00            11133455554445554556789999999998888888889


Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      ++.+|++|+|+|+.+...-.. ...+..+..   .++|+++++||+|+..
T Consensus        85 l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~---~~~p~ivviNK~D~~~  130 (270)
T cd01886          85 LRVLDGAVAVFDAVAGVEPQT-ETVWRQADR---YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHcCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            999999999999987542221 233333333   3479999999999864

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.17  E-value=2e-10  Score=114.55  Aligned_cols=79  Identities=23%  Similarity=0.229  Sum_probs=58.1

Q ss_pred             CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC-CccccC
Q psy3029         152 ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE-SSREVN  230 (617)
Q Consensus       152 ~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~-~~~~v~  230 (617)
                      +..+.+.||||||+++|......+++.+|++|+|+|+.+..+..... .+..+..   ..+|++||+||+|+. .+..++
T Consensus        70 ~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~-~l~~~~~---~~~p~ilviNKiD~~~~e~~~~  145 (222)
T cd01885          70 GNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTET-VLRQALK---ERVKPVLVINKIDRLILELKLS  145 (222)
T ss_pred             CCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECCCcchhhhcCC
Confidence            34788999999999999999999999999999999999876554322 2222222   346899999999975 223344


Q ss_pred             HHHH
Q psy3029         231 REEA  234 (617)
Q Consensus       231 ~~e~  234 (617)
                      .+++
T Consensus       146 ~~~~  149 (222)
T cd01885         146 PEEA  149 (222)
T ss_pred             HHHH
Confidence            4433

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>PRK00098 GTPase RsgA; Reviewed

Probab=99.17  E-value=4.2e-11  Score=124.94  Aligned_cols=84  Identities=21%  Similarity=0.238  Sum_probs=65.1

Q ss_pred             hccCCEEEEEEeCCChhhH-HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCC
Q psy3029         176 YRNANAALLVFDITQYHSF-AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQ  254 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~-~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~  254 (617)
                      ..++|++++|+|+.++.++ ..+++|+..+..   .++|++||+||+||..+.+ ..++..++++.++++++++||+++.
T Consensus        78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g~  153 (298)
T PRK00098         78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEGE  153 (298)
T ss_pred             eecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCCc
Confidence            4899999999999887654 445788877654   3479999999999963322 1233445666778999999999999


Q ss_pred             CHHHHHHHH
Q psy3029         255 GIEDVFLNV  263 (617)
Q Consensus       255 gI~eLf~~I  263 (617)
                      |+++|++.|
T Consensus       154 gi~~L~~~l  162 (298)
T PRK00098        154 GLDELKPLL  162 (298)
T ss_pred             cHHHHHhhc
Confidence            999998765

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.17  E-value=3.7e-10  Score=110.57  Aligned_cols=153  Identities=16%  Similarity=0.120  Sum_probs=86.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc--------cc---hhhhccCCEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS--------MA---PMYYRNANAAL  183 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~--------~~---~~~~~~ad~iI  183 (617)
                      +|||||||+|.|++...........+.+..............+.++||||......        +.   .....+.|++|
T Consensus         9 ~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~il   88 (196)
T cd01852           9 TGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFL   88 (196)
T ss_pred             CCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEE
Confidence            99999999999998764322211122222211111111345789999999754321        11   11234789999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhcCCC--CCeEEEEEECCCCCCccccC------HHHHHHHHHhcCCeEEEEc-----C
Q psy3029         184 LVFDITQYHSFAAIKTWVKELKRNVDE--PLVLCVVGNKTDLESSREVN------REEAFHYSKSIGGTYYETS-----A  250 (617)
Q Consensus       184 lV~Dis~~~S~~~l~~~l~~i~~~~~~--~iPvIlVgNK~DL~~~~~v~------~~e~~~~~~~~g~~~~evS-----A  250 (617)
                      +|+++.+ .+-.+ ...+..+.+....  -.++++|.|++|......+.      ....+.+.+..+-.++.++     +
T Consensus        89 lVi~~~~-~t~~d-~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~~~~~~~  166 (196)
T cd01852          89 LVVPLGR-FTEEE-EQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRYVAFNNKAKGE  166 (196)
T ss_pred             EEEECCC-cCHHH-HHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeEEEEeCCCCcc
Confidence            9999876 32221 2233333333221  13788999999965432111      1334445555555565555     4


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q psy3029         251 LQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       251 ktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+.++++|++.|.+.+..
T Consensus       167 ~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         167 EQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             hhHHHHHHHHHHHHHHHHh
Confidence            5577888888888776644

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.17  E-value=3.2e-10  Score=124.53  Aligned_cols=140  Identities=18%  Similarity=0.158  Sum_probs=93.6

Q ss_pred             CCCCHHHHHHHHHcCCC--C-------------------------C--ccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGKMF--S-------------------------H--HISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~--~-------------------------~--~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      .++|||||+-+|+...-  .                         +  ......|.++......+......+.|+|+||+
T Consensus        16 vd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh   95 (447)
T PLN00043         16 VDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTKYYCTVIDAPGH   95 (447)
T ss_pred             CCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCCEEEEEEECCCH
Confidence            99999999999863110  0                         0  00112344444444455666788999999999


Q ss_pred             ccccccchhhhccCCEEEEEEeCCChhhHH-------HHHHHHHHHHhcCCCCC-eEEEEEECCCCCCccc------cCH
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYHSFA-------AIKTWVKELKRNVDEPL-VLCVVGNKTDLESSRE------VNR  231 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~-------~l~~~l~~i~~~~~~~i-PvIlVgNK~DL~~~~~------v~~  231 (617)
                      ++|.......+..+|++|+|+|+++. .|+       ...+.+..+..   ..+ ++||++||+|+.....      ...
T Consensus        96 ~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~~~~~~~~~~~~i~  171 (447)
T PLN00043         96 RDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDATTPKYSKARYDEIV  171 (447)
T ss_pred             HHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCCchhhhHHHHHHHH
Confidence            99998888889999999999999873 222       22232332222   224 5788999999852110      113


Q ss_pred             HHHHHHHHhcC-----CeEEEEcCCCCCCHHH
Q psy3029         232 EEAFHYSKSIG-----GTYYETSALQDQGIED  258 (617)
Q Consensus       232 ~e~~~~~~~~g-----~~~~evSAktg~gI~e  258 (617)
                      +++..+++..|     ++|+++||++|+|+.+
T Consensus       172 ~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        172 KEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             HHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            45667777666     5799999999999864

>TIGR00503 prfC peptide chain release factor 3

Probab=99.16  E-value=5.2e-10  Score=124.97  Aligned_cols=106  Identities=16%  Similarity=0.167  Sum_probs=74.7

Q ss_pred             CCCCHHHHHHHHHc-CCCCC-------------------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchh
Q psy3029         115 LGVGKTSMVVRYIG-KMFSH-------------------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM  174 (617)
Q Consensus       115 ~nVGKSSLinrl~~-~~~~~-------------------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~  174 (617)
                      +++|||||+++|+. .....                   ......|.++......+..+.+.+.+|||||+.+|......
T Consensus        20 ~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTPG~~df~~~~~~   99 (527)
T TIGR00503        20 PDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYR   99 (527)
T ss_pred             CCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECCChhhHHHHHHH
Confidence            99999999999862 11100                   01123455555556666777889999999999988877777


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      ++..+|++|+|+|+.+... .....++..+..   .++|+++++||+|+.
T Consensus       100 ~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~  145 (527)
T TIGR00503       100 TLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRD  145 (527)
T ss_pred             HHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECcccc
Confidence            8999999999999987421 122344443332   347999999999984

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.16  E-value=7.3e-11  Score=122.47  Aligned_cols=84  Identities=14%  Similarity=0.185  Sum_probs=67.4

Q ss_pred             hhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCC
Q psy3029         175 YYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQD  253 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg  253 (617)
                      .+.++|++++|+|+.++. ++..+++|+..+..   .++|+++|+||+||..+.+  ......++...+++++.+||+++
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~~g  149 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAKTG  149 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECCCC
Confidence            488999999999999988 88899999987765   3478999999999965421  12233445567899999999999


Q ss_pred             CCHHHHHHHH
Q psy3029         254 QGIEDVFLNV  263 (617)
Q Consensus       254 ~gI~eLf~~I  263 (617)
                      .|+++|+..|
T Consensus       150 ~gi~~L~~~L  159 (287)
T cd01854         150 EGLDELREYL  159 (287)
T ss_pred             ccHHHHHhhh
Confidence            9999988765

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>KOG0462|consensus

Probab=99.15  E-value=2.2e-10  Score=122.86  Aligned_cols=150  Identities=17%  Similarity=0.184  Sum_probs=106.3

Q ss_pred             CCCCHHHHHHHHHcCCC-----------CC--ccCCCcceeEEEEEEEEC---CeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGKMF-----------SH--HISPTIGASFFTAKINVG---ENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~-----------~~--~~~~t~g~~~~~~~i~~~---~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      --=|||||..||+...-           .+  ......|+++..+...+.   +..+.++++||||+-+|.......+.-
T Consensus        69 VDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvDFs~EVsRslaa  148 (650)
T KOG0462|consen   69 VDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFSGEVSRSLAA  148 (650)
T ss_pred             ecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCcccccceehehhhh
Confidence            67799999999963210           00  122345666665554443   455999999999999999888888999


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC-HHHHHHHHHhcCCeEEEEcCCCCCCHH
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN-REEAFHYSKSIGGTYYETSALQDQGIE  257 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~-~~e~~~~~~~~g~~~~evSAktg~gI~  257 (617)
                      |+++|||+|+....--+.+..++..++    .++.+|.|+||+|+...+.-. ..+..+++.....+++.+|||+|.|++
T Consensus       149 c~G~lLvVDA~qGvqAQT~anf~lAfe----~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i~vSAK~G~~v~  224 (650)
T KOG0462|consen  149 CDGALLVVDASQGVQAQTVANFYLAFE----AGLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVIYVSAKTGLNVE  224 (650)
T ss_pred             cCceEEEEEcCcCchHHHHHHHHHHHH----cCCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceEEEEeccCccHH
Confidence            999999999988654454444443333    346789999999997543211 122333333334489999999999999


Q ss_pred             HHHHHHHHHHH
Q psy3029         258 DVFLNVSKGLI  268 (617)
Q Consensus       258 eLf~~I~~~l~  268 (617)
                      ++++.|++.+.
T Consensus       225 ~lL~AII~rVP  235 (650)
T KOG0462|consen  225 ELLEAIIRRVP  235 (650)
T ss_pred             HHHHHHHhhCC
Confidence            99999998774

>PLN03127 Elongation factor Tu; Provisional

Probab=99.15  E-value=5.7e-10  Score=122.40  Aligned_cols=158  Identities=17%  Similarity=0.110  Sum_probs=97.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC------CCCC--------ccCCCcceeEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK------MFSH--------HISPTIGASFFTAKI  148 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~------~~~~--------~~~~t~g~~~~~~~i  148 (617)
                      ..++|+++|.                      .++|||||+++|++.      ....        ......|.++.....
T Consensus        60 ~~~ni~iiGh----------------------vd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~  117 (447)
T PLN03127         60 PHVNVGTIGH----------------------VDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHV  117 (447)
T ss_pred             ceEEEEEECc----------------------CCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEE
Confidence            3467888888                      999999999999721      1000        011124555555555


Q ss_pred             EECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcc
Q psy3029         149 NVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSR  227 (617)
Q Consensus       149 ~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~  227 (617)
                      .+......+.|+||||+.+|.......+..+|++++|+|+.+...-+. .+.+..+..   ..+| +|+|+||+|+.++.
T Consensus       118 ~~~~~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt-~e~l~~~~~---~gip~iIvviNKiDlv~~~  193 (447)
T PLN03127        118 EYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQT-KEHILLARQ---VGVPSLVVFLNKVDVVDDE  193 (447)
T ss_pred             EEcCCCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHH---cCCCeEEEEEEeeccCCHH
Confidence            666666788999999998876655556678999999999876532221 222233332   2367 57889999997532


Q ss_pred             ccCH---HHHHHHHHhc-----CCeEEEEcCC---CCCC-------HHHHHHHHHHH
Q psy3029         228 EVNR---EEAFHYSKSI-----GGTYYETSAL---QDQG-------IEDVFLNVSKG  266 (617)
Q Consensus       228 ~v~~---~e~~~~~~~~-----g~~~~evSAk---tg~g-------I~eLf~~I~~~  266 (617)
                      +...   ++..++...+     .++++.+||.   +|.|       +.+|++.|...
T Consensus       194 ~~~~~i~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~  250 (447)
T PLN03127        194 ELLELVEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEY  250 (447)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHh
Confidence            2111   1222333332     2578888876   4555       55666665543

>cd01858 NGP_1 NGP-1

Probab=99.14  E-value=3.1e-10  Score=107.08  Aligned_cols=122  Identities=16%  Similarity=0.120  Sum_probs=79.3

Q ss_pred             hhhccCCEEEEEEeCCChhh--HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCC
Q psy3029         174 MYYRNANAALLVFDITQYHS--FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSAL  251 (617)
Q Consensus       174 ~~~~~ad~iIlV~Dis~~~S--~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAk  251 (617)
                      ..++++|++++|+|++++..  ...+.+++..   . ...+|+++|+||+|+.++.+. .+....+.+.+....+.+||+
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~---~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~   78 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRCKHVEEYLKK---E-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASIN   78 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccCHHHHHHHHh---c-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeecc
Confidence            35778999999999998743  2333433332   2 233699999999999643321 111222222222335789999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcc
Q psy3029         252 QDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNC  331 (617)
Q Consensus       252 tg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~  331 (617)
                      ++.|++++++.|...+....                                       .....+++++|.|        
T Consensus        79 ~~~~~~~L~~~l~~~~~~~~---------------------------------------~~~~~~v~~~G~~--------  111 (157)
T cd01858          79 NPFGKGSLIQLLRQFSKLHS---------------------------------------DKKQISVGFIGYP--------  111 (157)
T ss_pred             ccccHHHHHHHHHHHHhhhc---------------------------------------cccceEEEEEeCC--------
Confidence            99999999998866432100                                       0012457778877        


Q ss_pred             eeeeeeecccccccceeccccCcc
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMF  355 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f  355 (617)
                              |||||++++.+.+...
T Consensus       112 --------nvGKStliN~l~~~~~  127 (157)
T cd01858         112 --------NVGKSSIINTLRSKKV  127 (157)
T ss_pred             --------CCChHHHHHHHhcCCc
Confidence                    9999999999987543

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>KOG0077|consensus

Probab=99.13  E-value=9.5e-11  Score=107.70  Aligned_cols=145  Identities=18%  Similarity=0.238  Sum_probs=103.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      .|+|||||++.|..++ ...+.||.-.+-....+    ..++|..+|.+|+..-...++.|+..+|++++.+|+.+.+-|
T Consensus        29 DNAGKTTLLHMLKdDr-l~qhvPTlHPTSE~l~I----g~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~  103 (193)
T KOG0077|consen   29 DNAGKTTLLHMLKDDR-LGQHVPTLHPTSEELSI----GGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERF  103 (193)
T ss_pred             cCCchhhHHHHHcccc-ccccCCCcCCChHHhee----cCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHh
Confidence            9999999999998887 45566665443222222    568899999999998888999999999999999999999888


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHH------HHHHhcC-----------CeEEEEcCCCCCCH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAF------HYSKSIG-----------GTYYETSALQDQGI  256 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~------~~~~~~g-----------~~~~evSAktg~gI  256 (617)
                      .+...-++.+.... -..+|++|.+||+|.....  ..++..      .++...+           +.+|.||...+.|-
T Consensus       104 ~es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmcsi~~~~gy  181 (193)
T KOG0077|consen  104 AESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMCSIVRKMGY  181 (193)
T ss_pred             HHHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEEEEEccCcc
Confidence            87765544443222 2348999999999986542  233221      1121111           25788888888887


Q ss_pred             HHHHHHHHHH
Q psy3029         257 EDVFLNVSKG  266 (617)
Q Consensus       257 ~eLf~~I~~~  266 (617)
                      -+.|.|+...
T Consensus       182 ~e~fkwl~qy  191 (193)
T KOG0077|consen  182 GEGFKWLSQY  191 (193)
T ss_pred             ceeeeehhhh
Confidence            7777776543

>KOG2375|consensus

Probab=99.13  E-value=7.3e-12  Score=139.48  Aligned_cols=177  Identities=15%  Similarity=0.121  Sum_probs=158.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCchHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcc
Q psy3029         429 PVRSRGGPDRLAINPEGVYCNARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTV  508 (617)
Q Consensus       429 ~~~~~~~~~~~~~~~~gv~~n~r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~  508 (617)
                      +..-.++..+....|.|+|.+.|+.++.+.|++.+|++.++|++.|+|.|+....-++.++.-+|++......+++.++|
T Consensus       204 l~~~~kGw~Qf~v~f~~~~~f~v~stFde~ly~tk~d~~~kn~e~~e~a~Ria~ei~~~at~~~h~~ae~~~~gpd~~~I  283 (756)
T KOG2375|consen  204 LENDNKGWDQFEVNFHGSKKFNVMSTFDEELYTTKLDKKVKNYEAYEGAERIAREIESLATSDAHHLAERRLGGPDREDI  283 (756)
T ss_pred             cccccCCCCccchhhhhhhhhceeeeeehhhhcceecccCCchhhHHHHHHhhccccccchhHHHHhhccCCCCcchhhh
Confidence            34455667777777999999999999999999999999999999999999999999999999999998877888999999


Q ss_pred             cceeeeecCceeEEEeccccccccccCcccchhhhc---ccCCCCCCcccccCcCCC---------------CCCCCCCc
Q psy3029         509 VDMKIFKLDDIVRIEAKNVDLEYAVRDTFATDTAIS---KFNGVIGERELEPWAEDM---------------LGPGGDDD  570 (617)
Q Consensus       509 ~~~l~~~~~d~v~~~~~~v~~~~~~~~~f~TDt~IS---~~n~~~~ereL~~W~p~~---------------~~~~~~d~  570 (617)
                      .+.++|...|.......|.+.+++.++.| +|..|+   ++|+..+++.|++|....               .+|.+.++
T Consensus       284 ~ee~~ys~sd~~~~r~~~~~~~~~~qd~~-~d~i~~~~~kvn~~~k~~~~~~~~sgk~~~N~s~~a~~~d~sn~~~~n~~  362 (756)
T KOG2375|consen  284 EEEDLYSRSDGPGVRFENEDFNEAMQDKR-NDKIAPLDQKVNDSTKSKALERWNSGKLLENASSYATPADASNGWDENSM  362 (756)
T ss_pred             hhhhhcccccccchhhhhhhhhHHHHhhh-ccccccccCCCCccccccccccccccccccccccccccchhhcCCCcccc
Confidence            99999999999999999999999999988 999996   688999999999999843               15556689


Q ss_pred             chhhhccccCCCCccCCccccccccCC--CCCchHHHH
Q psy3029         571 FELDQMCNHNVGTATSSIKMFIFPLIQ--VAPYTMEES  606 (617)
Q Consensus       571 f~~ne~~~~~~st~de~l~~yt~~l~~--~~~~~~~~~  606 (617)
                      |-.|+...+++++||..+..|+.+++|  .+-|+.++.
T Consensus       363 ~q~n~kn~~~~s~~~s~~~~~~~~sek~~se~~~qr~~  400 (756)
T KOG2375|consen  363 FQVNSKNYKSKSEVESSDMSTKKPSEKNESESFEQRKK  400 (756)
T ss_pred             cccccccccccccccccccccccccccccchhhhhhhh
Confidence            999999999999999999999999999  555555554

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.13  E-value=7.5e-10  Score=110.63  Aligned_cols=149  Identities=22%  Similarity=0.311  Sum_probs=90.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCcc---CCCcceeEEEEEEEECCeEEEEEEEecCCccccc-----ccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHI---SPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-----SMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~---~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~-----~~~~~~~~~ad~iIlV~  186 (617)
                      .++||||+.+-+..+..+...   .+|..++  ...+. ....+.+++||+||+..+.     ......++++.++|+|+
T Consensus         8 ~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve--~~~v~-~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~   84 (232)
T PF04670_consen    8 RRSGKTSIRSVIFHKYSPRDTLRLEPTIDVE--KSHVR-FLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVF   84 (232)
T ss_dssp             TTSSHHHHHHHHHS---GGGGGG-----SEE--EEEEE-CTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEE
T ss_pred             CCCChhhHHHHHHcCCCchhccccCCcCCce--EEEEe-cCCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEE
Confidence            999999999988876432222   2444333  22222 2345689999999996543     34577889999999999


Q ss_pred             eCCChhh---HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc--c----CHHHHHHHHHhcC---CeEEEEcCCCCC
Q psy3029         187 DITQYHS---FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE--V----NREEAFHYSKSIG---GTYYETSALQDQ  254 (617)
Q Consensus       187 Dis~~~S---~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--v----~~~e~~~~~~~~g---~~~~evSAktg~  254 (617)
                      |+.+.+-   +..+...+..+.+..+ ++.+.+..+|+|+..+..  .    ..+.+.+.+...+   +.++.+|... +
T Consensus        85 D~qs~~~~~~l~~~~~~i~~l~~~sp-~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D-~  162 (232)
T PF04670_consen   85 DAQSDDYDEDLAYLSDCIEALRQYSP-NIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIWD-E  162 (232)
T ss_dssp             ETT-STCHHHHHHHHHHHHHHHHHST-T-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TTS-T
T ss_pred             EcccccHHHHHHHHHHHHHHHHHhCC-CCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCcC-c
Confidence            9984443   3334455556666555 479999999999964321  1    1122334444555   6889998887 5


Q ss_pred             CHHHHHHHHHHHHH
Q psy3029         255 GIEDVFLNVSKGLI  268 (617)
Q Consensus       255 gI~eLf~~I~~~l~  268 (617)
                      .+-+.|..|+..+.
T Consensus       163 Sly~A~S~Ivq~Li  176 (232)
T PF04670_consen  163 SLYEAWSKIVQKLI  176 (232)
T ss_dssp             HHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHHc
Confidence            77777777777654

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.12  E-value=8e-10  Score=119.25  Aligned_cols=75  Identities=19%  Similarity=0.315  Sum_probs=49.3

Q ss_pred             CCCCHHHHHHHHHcCCCCC-cc-----CCCcceeEEEEEE---------------EEC-CeEEEEEEEecCCc----ccc
Q psy3029         115 LGVGKTSMVVRYIGKMFSH-HI-----SPTIGASFFTAKI---------------NVG-ENKVKLQVWDTAGQ----ERF  168 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~-~~-----~~t~g~~~~~~~i---------------~~~-~~~~~l~i~Dt~G~----e~~  168 (617)
                      ||||||||+|+|++..+.. .|     .|++|..+....+               ..+ .....+++||++|.    .+.
T Consensus        10 pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aGl~~ga~~g   89 (396)
T PRK09602         10 PNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAGLVPGAHEG   89 (396)
T ss_pred             CCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCCcCCCccch
Confidence            9999999999999876532 22     2444432211100               011 13467999999995    333


Q ss_pred             cccchhh---hccCCEEEEEEeCC
Q psy3029         169 RSMAPMY---YRNANAALLVFDIT  189 (617)
Q Consensus       169 ~~~~~~~---~~~ad~iIlV~Dis  189 (617)
                      ..+...+   ++++|++++|+|+.
T Consensus        90 ~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         90 RGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             hhHHHHHHHHHHHCCEEEEEEeCC
Confidence            4455556   78999999999997

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.12  E-value=6.7e-10  Score=117.37  Aligned_cols=149  Identities=21%  Similarity=0.201  Sum_probs=106.3

Q ss_pred             CCCCHHHHHHHHHcCCC-------CCc------cCCCcceeEEEEEEEE-----CCeEEEEEEEecCCcccccccchhhh
Q psy3029         115 LGVGKTSMVVRYIGKMF-------SHH------ISPTIGASFFTAKINV-----GENKVKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~-------~~~------~~~t~g~~~~~~~i~~-----~~~~~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      --=|||||..||+...-       .+.      .....|+++....+.+     +++.+.|+++||||+-+|.......+
T Consensus        18 IDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFsYEVSRSL   97 (603)
T COG0481          18 IDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSL   97 (603)
T ss_pred             ecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceEEEehhhH
Confidence            45699999999974211       111      1223455554444333     45789999999999999988888889


Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC---eEEEEcCCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG---TYYETSALQD  253 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~---~~~evSAktg  253 (617)
                      .-|.++|||+|++..---+.+...+..+.    .+..+|-|+||+||.....  ..-..++-.-+|+   ..+.+|||+|
T Consensus        98 AACEGalLvVDAsQGveAQTlAN~YlAle----~~LeIiPViNKIDLP~Adp--ervk~eIe~~iGid~~dav~~SAKtG  171 (603)
T COG0481          98 AACEGALLVVDASQGVEAQTLANVYLALE----NNLEIIPVLNKIDLPAADP--ERVKQEIEDIIGIDASDAVLVSAKTG  171 (603)
T ss_pred             hhCCCcEEEEECccchHHHHHHHHHHHHH----cCcEEEEeeecccCCCCCH--HHHHHHHHHHhCCCcchheeEecccC
Confidence            99999999999988655555555444443    3468899999999975432  1222344445566   5789999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGLIC  269 (617)
Q Consensus       254 ~gI~eLf~~I~~~l~~  269 (617)
                      .||+++++.|++.+..
T Consensus       172 ~gI~~iLe~Iv~~iP~  187 (603)
T COG0481         172 IGIEDVLEAIVEKIPP  187 (603)
T ss_pred             CCHHHHHHHHHhhCCC
Confidence            9999999999988754

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.11  E-value=1.4e-10  Score=111.04  Aligned_cols=107  Identities=21%  Similarity=0.313  Sum_probs=68.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEE-CCeEEEEEEEecCCcccccccc-hh--hhccCCEEEEEEeCCC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDTAGQERFRSMA-PM--YYRNANAALLVFDITQ  190 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~-~~~~~~l~i~Dt~G~e~~~~~~-~~--~~~~ad~iIlV~Dis~  190 (617)
                      +|+|||+|+.+|..+.+...+.+. ....   .+.+ ......+.++|+||+++.+... ..  +..++.+||||+|.+.
T Consensus        12 s~SGKTaLf~~L~~~~~~~T~tS~-e~n~---~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~   87 (181)
T PF09439_consen   12 SGSGKTALFSQLVNGKTVPTVTSM-ENNI---AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSST   87 (181)
T ss_dssp             TTSSHHHHHHHHHHSS---B---S-SEEE---ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTT
T ss_pred             CCCCHHHHHHHHhcCCcCCeeccc-cCCc---eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCcc
Confidence            999999999999998654443332 2111   1112 1233468999999999877533 33  5789999999999874


Q ss_pred             -hhhHHHHHHHHHHHHh---cCCCCCeEEEEEECCCCCC
Q psy3029         191 -YHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       191 -~~S~~~l~~~l~~i~~---~~~~~iPvIlVgNK~DL~~  225 (617)
                       ...+.++.++|-.+..   .....+|++|++||.|+..
T Consensus        88 ~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~  126 (181)
T PF09439_consen   88 DQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFT  126 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT
T ss_pred             chhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccc
Confidence             3456666666665533   2246689999999999864

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.10  E-value=4.6e-10  Score=104.00  Aligned_cols=133  Identities=23%  Similarity=0.198  Sum_probs=90.3

Q ss_pred             chhhhccCCEEEEEEeCCChhhHH--HHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEc
Q psy3029         172 APMYYRNANAALLVFDITQYHSFA--AIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETS  249 (617)
Q Consensus       172 ~~~~~~~ad~iIlV~Dis~~~S~~--~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evS  249 (617)
                      ....++++|++|+|+|++++.+..  .+.+|+...   . .++|+++|+||+|+..+..  ..+..++++..+..++++|
T Consensus         5 ~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iS   78 (141)
T cd01857           5 LWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFS   78 (141)
T ss_pred             HHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEE
Confidence            345678999999999999877543  455555543   1 2469999999999965332  2344456666778899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCC
Q psy3029         250 ALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVP  329 (617)
Q Consensus       250 Aktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~  329 (617)
                      |+++.+                                                            +++++|.+      
T Consensus        79 a~~~~~------------------------------------------------------------~~~~~G~~------   92 (141)
T cd01857          79 ALKENA------------------------------------------------------------TIGLVGYP------   92 (141)
T ss_pred             ecCCCc------------------------------------------------------------EEEEECCC------
Confidence            997654                                                            36777777      


Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                                +||||+++++++...+.... .+.|..-....+.+++ .+.|--++|+.
T Consensus        93 ----------~vGKstlin~l~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~i~DtpG~~  139 (141)
T cd01857          93 ----------NVGKSSLINALVGKKKVSVS-ATPGKTKHFQTIFLTP-TITLCDCPGLV  139 (141)
T ss_pred             ----------CCCHHHHHHHHhCCCceeeC-CCCCcccceEEEEeCC-CEEEEECCCcC
Confidence                      99999999999987664322 2233333445666765 34555566654

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=99.09  E-value=6.5e-10  Score=104.66  Aligned_cols=152  Identities=21%  Similarity=0.168  Sum_probs=89.8

Q ss_pred             CEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH-HHHHhcCCeEEEEcCCCCCCHHH
Q psy3029         180 NAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF-HYSKSIGGTYYETSALQDQGIED  258 (617)
Q Consensus       180 d~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~-~~~~~~g~~~~evSAktg~gI~e  258 (617)
                      |++|+|+|++++.+...  .|+.. ......++|+++|+||+|+....+  ..+.. .+....+..++.+||+++.|+++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~--~~~~~~~~~~~~~~~ii~vSa~~~~gi~~   75 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKEV--LRKWLAYLRHSYPTIPFKISATNGQGIEK   75 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHHH--HHHHHHHHHhhCCceEEEEeccCCcChhh
Confidence            78999999988765432  23331 111123479999999999964322  11211 23333456789999999999999


Q ss_pred             HHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeee
Q psy3029         259 VFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFW  338 (617)
Q Consensus       259 Lf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~  338 (617)
                      +++.|.+.+.........         .                      .......+++++|.|               
T Consensus        76 L~~~i~~~~~~~~~~~~~---------~----------------------~~~~~~~~~~~~G~~---------------  109 (155)
T cd01849          76 KESAFTKQTNSNLKSYAK---------D----------------------GKLKKSITVGVIGYP---------------  109 (155)
T ss_pred             HHHHHHHHhHHHHHHHHh---------c----------------------cccccCcEEEEEccC---------------
Confidence            999987765322111000         0                      000123567888888               


Q ss_pred             cccccccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         339 LGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       339 ~~vGKssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                       ++|||++++.++... +.....|.++.+..  .+.++ ..+.|--++|
T Consensus       110 -~~GKstlin~l~~~~~~~~~~~~~~t~~~~--~~~~~-~~~~liDtPG  154 (155)
T cd01849         110 -NVGKSSVINALLNKLKLKVGNVPGTTTSQQ--EVKLD-NKIKLLDTPG  154 (155)
T ss_pred             -CCCHHHHHHHHHccccccccCCCCcccceE--EEEec-CCEEEEECCC
Confidence             999999999988654 33333343334332  22333 3455544555

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.09  E-value=4e-10  Score=112.44  Aligned_cols=161  Identities=14%  Similarity=0.142  Sum_probs=103.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+|+|+                      .|||||||||+|..+.......-..|.+....... ....-.+.+||
T Consensus        37 ~~pvnvLi~G~----------------------TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~-~~~~~~l~lwD   93 (296)
T COG3596          37 KEPVNVLLMGA----------------------TGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRL-SYDGENLVLWD   93 (296)
T ss_pred             cCceeEEEecC----------------------CCCcHHHHHHHHHhccCceeeecccCCCchhhHHh-hccccceEEec
Confidence            34578999999                      99999999999997553322211222222111111 11224689999


Q ss_pred             cCCccc-------ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc-------
Q psy3029         162 TAGQER-------FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR-------  227 (617)
Q Consensus       162 t~G~e~-------~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~-------  227 (617)
                      +||.++       |......++...|+++++.++.++.--.+. +++..+....-. .++++|+|.+|....-       
T Consensus        94 tPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d~-~f~~dVi~~~~~-~~~i~~VtQ~D~a~p~~~W~~~~  171 (296)
T COG3596          94 TPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTDE-DFLRDVIILGLD-KRVLFVVTQADRAEPGREWDSAG  171 (296)
T ss_pred             CCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCccccCCH-HHHHHHHHhccC-ceeEEEEehhhhhcccccccccc
Confidence            999864       666677888899999999999887522222 334444333322 5899999999975331       


Q ss_pred             -ccC-------HHHHH---HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         228 -EVN-------REEAF---HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       228 -~v~-------~~e~~---~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                       ...       .+++.   +++.+ --+++.+|...+.|++++...++..+.
T Consensus       172 ~~p~~a~~qfi~~k~~~~~~~~q~-V~pV~~~~~r~~wgl~~l~~ali~~lp  222 (296)
T COG3596         172 HQPSPAIKQFIEEKAEALGRLFQE-VKPVVAVSGRLPWGLKELVRALITALP  222 (296)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHhh-cCCeEEeccccCccHHHHHHHHHHhCc
Confidence             111       11111   12211 127888999999999999999988765

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=99.09  E-value=6.2e-10  Score=115.00  Aligned_cols=161  Identities=17%  Similarity=0.196  Sum_probs=100.6

Q ss_pred             ccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEc
Q psy3029         170 SMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETS  249 (617)
Q Consensus       170 ~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evS  249 (617)
                      ..+...++.+|++|+|+|++.+.+...  .++..+.    .+.|+++|+||+|+.+...  .+...++....+.+++.+|
T Consensus        13 ~~~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~iS   84 (276)
T TIGR03596        13 REIKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLADPAV--TKQWLKYFEEKGIKALAIN   84 (276)
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccCCHHH--HHHHHHHHHHcCCeEEEEE
Confidence            445677889999999999987754322  1122211    1358999999999954321  1222333444567889999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCC
Q psy3029         250 ALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVP  329 (617)
Q Consensus       250 Aktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~  329 (617)
                      |+++.|+++|.+.|.+.+........                               .........+++++|.|      
T Consensus        85 a~~~~gi~~L~~~i~~~~~~~~~~~~-------------------------------~~~~~~~~~~~~~vG~~------  127 (276)
T TIGR03596        85 AKKGKGVKKIIKAAKKLLKEKNEKLK-------------------------------AKGLKNRPIRAMIVGIP------  127 (276)
T ss_pred             CCCcccHHHHHHHHHHHHHHhhhhhh-------------------------------hccCCCCCeEEEEECCC------
Confidence            99999999999988777643221100                               00011124667888877      


Q ss_pred             cceeeeeeecccccccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                                +||||++++++.+... .....|.+  ......+.++. .+.|--+||+.
T Consensus       128 ----------nvGKSslin~l~~~~~~~~~~~~g~--T~~~~~~~~~~-~~~l~DtPG~~  174 (276)
T TIGR03596       128 ----------NVGKSTLINRLAGKKVAKVGNRPGV--TKGQQWIKLSD-GLELLDTPGIL  174 (276)
T ss_pred             ----------CCCHHHHHHHHhCCCccccCCCCCe--ecceEEEEeCC-CEEEEECCCcc
Confidence                      9999999999987653 22223333  23334555543 45666677774

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.09  E-value=5.1e-10  Score=122.70  Aligned_cols=110  Identities=15%  Similarity=0.119  Sum_probs=74.2

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--H
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--R  231 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~  231 (617)
                      ..+.|+|+||+++|.......+..+|++++|+|+..+. ..+. .+.+..+... .- .++|||+||+|+.+.....  .
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT-~ehl~i~~~l-gi-~~iIVvlNKiDlv~~~~~~~~~  193 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQT-SEHLAAVEIM-KL-KHIIILQNKIDLVKEAQAQDQY  193 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhh-HHHHHHHHHc-CC-CcEEEEEecccccCHHHHHHHH
Confidence            36899999999988766666777999999999998741 2111 2223322222 22 3689999999997432211  1


Q ss_pred             HHHHHHHHh---cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKS---IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       232 ~e~~~~~~~---~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++..+...   ..++++++||++|.|+++|++.|...+
T Consensus       194 ~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        194 EEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            223333322   256899999999999999999887643

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.07  E-value=1.1e-09  Score=120.43  Aligned_cols=141  Identities=18%  Similarity=0.143  Sum_probs=89.3

Q ss_pred             CCCCHHHHHHHHHcC--CCCC---------------------------ccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGK--MFSH---------------------------HISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--~~~~---------------------------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      .++|||||+.+|+..  ....                           ......|.+.......+......+.|+||||+
T Consensus        16 vd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~~~i~lIDtPGh   95 (446)
T PTZ00141         16 VDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYYFTIIDAPGH   95 (446)
T ss_pred             CCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCCeEEEEEECCCh
Confidence            999999999999741  0000                           00012344444444555666788999999999


Q ss_pred             ccccccchhhhccCCEEEEEEeCCChh---hH---HHHHHHHHHHHhcCCCCCe-EEEEEECCCCCC--ccc----cCHH
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYH---SF---AAIKTWVKELKRNVDEPLV-LCVVGNKTDLES--SRE----VNRE  232 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~---~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~--~~~----v~~~  232 (617)
                      ++|.......+..+|++|+|+|+....   .|   ....+.+..+..   ..+| +|+++||+|...  ..+    ...+
T Consensus        96 ~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~---~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~  172 (446)
T PTZ00141         96 RDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFT---LGVKQMIVCINKMDDKTVNYSQERYDEIKK  172 (446)
T ss_pred             HHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHH---cCCCeEEEEEEccccccchhhHHHHHHHHH
Confidence            998877777788999999999998642   11   112222223332   2244 679999999532  111    1123


Q ss_pred             HHHHHHHhcC-----CeEEEEcCCCCCCHHH
Q psy3029         233 EAFHYSKSIG-----GTYYETSALQDQGIED  258 (617)
Q Consensus       233 e~~~~~~~~g-----~~~~evSAktg~gI~e  258 (617)
                      ++..++...+     ++++.+||.+|+|+.+
T Consensus       173 ~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        173 EVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             HHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            3444444443     5799999999999864

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=99.07  E-value=4.2e-10  Score=120.48  Aligned_cols=94  Identities=26%  Similarity=0.326  Sum_probs=69.6

Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH----HHHHh
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF----HYSKS  240 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~----~~~~~  240 (617)
                      .++|..+...++..++++++|+|+.+..     ..|...+.+... ..|+++|+||+||... ....++..    ++++.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~-~~piilV~NK~DLl~k-~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVG-GNPVLLVGNKIDLLPK-SVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhC-CCCEEEEEEchhhCCC-CCCHHHHHHHHHHHHHH
Confidence            4577788888889999999999997754     235555555443 3699999999999653 23333333    34666


Q ss_pred             cCC---eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         241 IGG---TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       241 ~g~---~~~evSAktg~gI~eLf~~I~~  265 (617)
                      .++   .++++||++|.|++++++.|.+
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~  150 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKK  150 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHH
Confidence            776   4899999999999999998854

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.05  E-value=1.6e-09  Score=125.70  Aligned_cols=133  Identities=17%  Similarity=0.114  Sum_probs=85.7

Q ss_pred             CCCCHHHHHHHHHcCC--C--CCccCC------------CcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGKM--F--SHHISP------------TIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~--~--~~~~~~------------t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      +|+|||||+++|+...  .  ......            ..|.++......+......+.+|||||+.++......+++.
T Consensus        19 ~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~~~~~~~~l~~   98 (689)
T TIGR00484        19 IDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRV   98 (689)
T ss_pred             CCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcchhHHHHHHHHH
Confidence            9999999999997321  0  000110            23444444444454456789999999999888788889999


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC----eEEEEcCCCC
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG----TYYETSALQD  253 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~----~~~evSAktg  253 (617)
                      +|++|+|+|+.+....... .++..+..   .++|++||+||+|+.....  .+....+...++.    ..+.+|+..+
T Consensus        99 ~D~~ilVvda~~g~~~~~~-~~~~~~~~---~~~p~ivviNK~D~~~~~~--~~~~~~i~~~l~~~~~~~~ipis~~~~  171 (689)
T TIGR00484        99 LDGAVAVLDAVGGVQPQSE-TVWRQANR---YEVPRIAFVNKMDKTGANF--LRVVNQIKQRLGANAVPIQLPIGAEDN  171 (689)
T ss_pred             hCEEEEEEeCCCCCChhHH-HHHHHHHH---cCCCEEEEEECCCCCCCCH--HHHHHHHHHHhCCCceeEEeccccCCC
Confidence            9999999999886554433 23333333   3479999999999875321  1222233333333    3566777665

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.05  E-value=2.4e-09  Score=115.80  Aligned_cols=143  Identities=17%  Similarity=0.162  Sum_probs=97.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC-eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh--
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY--  191 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~-~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~--  191 (617)
                      ---|||||+..+...+..+...-.+.-.+....+..+. ..-.+.|+||||++-|..|+..=.+=+|+++||+|+.+.  
T Consensus        14 VDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~   93 (509)
T COG0532          14 VDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVM   93 (509)
T ss_pred             ccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcc
Confidence            89999999999987665433222222222223333321 234789999999999999888878889999999999884  


Q ss_pred             -hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC---------CeEEEEcCCCCCCHHHHHH
Q psy3029         192 -HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG---------GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       192 -~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g---------~~~~evSAktg~gI~eLf~  261 (617)
                       ++.+.+.       .....++|++|+.||+|..+..   ......-..++|         ..++++||++|+|+++|++
T Consensus        94 pQTiEAI~-------hak~a~vP~iVAiNKiDk~~~n---p~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~  163 (509)
T COG0532          94 PQTIEAIN-------HAKAAGVPIVVAINKIDKPEAN---PDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLE  163 (509)
T ss_pred             hhHHHHHH-------HHHHCCCCEEEEEecccCCCCC---HHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHH
Confidence             3333322       2222458999999999987432   222222222333         3789999999999999999


Q ss_pred             HHHHHH
Q psy3029         262 NVSKGL  267 (617)
Q Consensus       262 ~I~~~l  267 (617)
                      .|+-..
T Consensus       164 ~ill~a  169 (509)
T COG0532         164 LILLLA  169 (509)
T ss_pred             HHHHHH
Confidence            876544

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=99.05  E-value=1.5e-09  Score=112.85  Aligned_cols=161  Identities=16%  Similarity=0.206  Sum_probs=103.0

Q ss_pred             ccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEc
Q psy3029         170 SMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETS  249 (617)
Q Consensus       170 ~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evS  249 (617)
                      ..+...++.+|++|+|+|++.+.+...  .++..+..    +.|+++|.||+|+.+...  .+...++....+.+++.+|
T Consensus        16 ~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~~----~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vS   87 (287)
T PRK09563         16 REIKENLKLVDVVIEVLDARIPLSSEN--PMIDKIIG----NKPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAIN   87 (287)
T ss_pred             HHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHhC----CCCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEE
Confidence            345667889999999999988754322  22222221    368999999999954321  1233344445567889999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCC
Q psy3029         250 ALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVP  329 (617)
Q Consensus       250 Aktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~  329 (617)
                      |+++.|++++++.|...+........                               .........+++++|.|      
T Consensus        88 a~~~~gi~~L~~~l~~~l~~~~~~~~-------------------------------~~~~~~~~~~~~~~G~p------  130 (287)
T PRK09563         88 AKKGQGVKKILKAAKKLLKEKNERRK-------------------------------AKGMRPRAIRAMIIGIP------  130 (287)
T ss_pred             CCCcccHHHHHHHHHHHHHHHHhhhh-------------------------------hcccCcCceEEEEECCC------
Confidence            99999999999998877654321100                               00011124668888888      


Q ss_pred             cceeeeeeecccccccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                                +||||++++.+.+... .....|.++...  ..+.+++ .+.|--++|+.
T Consensus       131 ----------nvGKSsliN~l~~~~~~~~~~~~g~T~~~--~~~~~~~-~~~l~DtPGi~  177 (287)
T PRK09563        131 ----------NVGKSTLINRLAGKKIAKTGNRPGVTKAQ--QWIKLGK-GLELLDTPGIL  177 (287)
T ss_pred             ----------CCCHHHHHHHHhcCCccccCCCCCeEEEE--EEEEeCC-cEEEEECCCcC
Confidence                      9999999999997654 333344443333  3455544 46677788874

>KOG0090|consensus

Probab=99.02  E-value=2.2e-09  Score=103.07  Aligned_cols=146  Identities=18%  Similarity=0.267  Sum_probs=94.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhc---cCCEEEEEEeCCCh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR---NANAALLVFDITQY  191 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~---~ad~iIlV~Dis~~  191 (617)
                      .++|||+|+-+|..+.+...+.+. ...  .-.+....  -...++|.||+.+.+.....++.   .+-++|||+|..-.
T Consensus        47 ~dSGKT~LF~qL~~gs~~~TvtSi-epn--~a~~r~gs--~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f  121 (238)
T KOG0090|consen   47 SDSGKTSLFTQLITGSHRGTVTSI-EPN--EATYRLGS--ENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATF  121 (238)
T ss_pred             CCCCceeeeeehhcCCccCeeeee-ccc--eeeEeecC--cceEEEeCCCcHHHHHHHHHHccccccceeEEEEEecccc
Confidence            999999999999988654433221 111  11112222  23789999999988777777777   79999999996543


Q ss_pred             -hhHHHHHHHHHHHHhcC---CCCCeEEEEEECCCCCCccc--cC----HHHHHH-------------------------
Q psy3029         192 -HSFAAIKTWVKELKRNV---DEPLVLCVVGNKTDLESSRE--VN----REEAFH-------------------------  236 (617)
Q Consensus       192 -~S~~~l~~~l~~i~~~~---~~~iPvIlVgNK~DL~~~~~--v~----~~e~~~-------------------------  236 (617)
                       ....++.+++-.+.-..   ...+|++|++||.|+...+.  +.    +.|+..                         
T Consensus       122 ~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~~~~tlg~~  201 (238)
T KOG0090|consen  122 LKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIAKDFTLGKE  201 (238)
T ss_pred             chhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhcccccccccccccccc
Confidence             34566666666654333   46689999999999953211  00    001100                         


Q ss_pred             -----HH--HhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         237 -----YS--KSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       237 -----~~--~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                           |.  ....+.|.++|++++ +++++-+||.+.
T Consensus       202 g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  202 GEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             ccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                 00  001236889999988 899999998764

>KOG1490|consensus

Probab=99.02  E-value=6.4e-10  Score=118.16  Aligned_cols=155  Identities=19%  Similarity=0.138  Sum_probs=102.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc----cch----hhhc-cCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS----MAP----MYYR-NANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~----~~~----~~~~-~ad~iIlV  185 (617)
                      ||||||||+|.+........  |-...+..-...+++.+...++++||||..+...    .+.    .++. =-.+||++
T Consensus       177 PNVGKSSf~~~vtradvevq--pYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYf  254 (620)
T KOG1490|consen  177 PNVGKSSFNNKVTRADDEVQ--PYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYF  254 (620)
T ss_pred             CCCCcHhhcccccccccccC--CcccccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheee
Confidence            99999999999987654322  2222221222234456778899999999732210    000    1111 13478999


Q ss_pred             EeCCChh--hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH---HHHHHHhcCCeEEEEcCCCCCCHHHHH
Q psy3029         186 FDITQYH--SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE---AFHYSKSIGGTYYETSALQDQGIEDVF  260 (617)
Q Consensus       186 ~Dis~~~--S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e---~~~~~~~~g~~~~evSAktg~gI~eLf  260 (617)
                      .|++...  |...--+.+..|.-.... .|+|+|+||+|+.....++.+.   ...+....+++++++|+.+.+||.++.
T Consensus       255 mDLSe~CGySva~QvkLfhsIKpLFaN-K~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vr  333 (620)
T KOG1490|consen  255 MDLSEMCGYSVAAQVKLYHSIKPLFAN-KVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVR  333 (620)
T ss_pred             eechhhhCCCHHHHHHHHHHhHHHhcC-CceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchhceeeHH
Confidence            9999866  444444566777666544 5999999999997666555443   223344445899999999999999999


Q ss_pred             HHHHHHHHHhhh
Q psy3029         261 LNVSKGLICLSQ  272 (617)
Q Consensus       261 ~~I~~~l~~~~~  272 (617)
                      ...++.++...-
T Consensus       334 t~ACe~LLa~RV  345 (620)
T KOG1490|consen  334 TTACEALLAARV  345 (620)
T ss_pred             HHHHHHHHHHHH
Confidence            988888776543

>PRK12739 elongation factor G; Reviewed

Probab=99.02  E-value=3.2e-09  Score=123.08  Aligned_cols=107  Identities=19%  Similarity=0.125  Sum_probs=71.8

Q ss_pred             CCCCHHHHHHHHHcCC--C--CCccC------------CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGKM--F--SHHIS------------PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~--~--~~~~~------------~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      +++|||||+++|+...  .  ...+.            ...|.++......+......+.++||||+.+|...+..+++.
T Consensus        17 ~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~f~~e~~~al~~   96 (691)
T PRK12739         17 IDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVDFTIEVERSLRV   96 (691)
T ss_pred             CCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHHHHHHHHHHHHH
Confidence            9999999999997421  0  00000            123344443333443456789999999998887778888999


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      +|++|+|+|+.+...-... ..+..+..   ..+|+|+++||+|+..
T Consensus        97 ~D~~ilVvDa~~g~~~qt~-~i~~~~~~---~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         97 LDGAVAVFDAVSGVEPQSE-TVWRQADK---YGVPRIVFVNKMDRIG  139 (691)
T ss_pred             hCeEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECCCCCC
Confidence            9999999999876433322 22233332   3468999999999864

>PRK09866 hypothetical protein; Provisional

Probab=99.01  E-value=6.4e-09  Score=115.12  Aligned_cols=109  Identities=17%  Similarity=0.141  Sum_probs=72.4

Q ss_pred             EEEEEEecCCcccc-----cccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc
Q psy3029         155 VKLQVWDTAGQERF-----RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV  229 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~-----~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v  229 (617)
                      ..+.|+||||....     .......+..+|+||||+|+....+..+. ..+..+.+. ....|+++|+||+|+.+....
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~De-eIlk~Lkk~-~K~~PVILVVNKIDl~dreed  307 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDE-EVREAILAV-GQSVPLYVLVNKFDQQDRNSD  307 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHH-HHHHHHHhc-CCCCCEEEEEEcccCCCcccc
Confidence            35778999997532     22344578899999999999875444331 223333332 222599999999998643322


Q ss_pred             CHHHHHHHHH----hcC---CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         230 NREEAFHYSK----SIG---GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       230 ~~~e~~~~~~----~~g---~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      ..+....+..    ..+   ..+|+|||++|.|++++++.|..
T Consensus       308 dkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        308 DADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             hHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            2344444432    112   26999999999999999999876

>PRK12740 elongation factor G; Reviewed

Probab=99.01  E-value=3e-09  Score=123.21  Aligned_cols=109  Identities=17%  Similarity=0.130  Sum_probs=73.8

Q ss_pred             CCCCCCCHHHHHHHHHcCCCC----CccC------------CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhh
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFS----HHIS------------PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY  175 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~----~~~~------------~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~  175 (617)
                      +|.+++|||||+++|+...-.    ....            ...|.++......+....+.+.+|||||+.++...+..+
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~   80 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERA   80 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHH
Confidence            466999999999999532100    0000            012333333333344456789999999998887778888


Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      +..+|++|+|+|++.........-| ..+..   .++|+++|+||+|+.
T Consensus        81 l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~  125 (668)
T PRK12740         81 LRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRA  125 (668)
T ss_pred             HHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCC
Confidence            9999999999999887655443323 33332   347999999999985

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.00  E-value=1e-09  Score=96.52  Aligned_cols=132  Identities=20%  Similarity=0.189  Sum_probs=90.0

Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc----cccccchhhhccCCEEEEEEe
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE----RFRSMAPMYYRNANAALLVFD  187 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e----~~~~~~~~~~~~ad~iIlV~D  187 (617)
                      +|..|+|||||+++|.+...  .+..|..+++..       .    -.+||+|.-    ++...+-....++|++++|-.
T Consensus         7 vG~~gcGKTtL~q~L~G~~~--lykKTQAve~~d-------~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~   73 (148)
T COG4917           7 VGQVGCGKTTLFQSLYGNDT--LYKKTQAVEFND-------K----GDIDTPGEYFEHPRWYHALITTLQDADVIIYVHA   73 (148)
T ss_pred             ecccccCchhHHHHhhcchh--hhcccceeeccC-------c----cccCCchhhhhhhHHHHHHHHHhhccceeeeeec
Confidence            33399999999999988652  444444433311       1    146999852    222222334568999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         188 ITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       188 is~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +++++|.-.     ..+....  ..|+|=|++|+||.++.+  .+....|..+.|. ++|++|+.++.||++|++.|..
T Consensus        74 and~~s~f~-----p~f~~~~--~k~vIgvVTK~DLaed~d--I~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917          74 ANDPESRFP-----PGFLDIG--VKKVIGVVTKADLAEDAD--ISLVKRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             ccCccccCC-----ccccccc--ccceEEEEecccccchHh--HHHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence            999875211     1222222  246899999999986444  3455678888887 8999999999999999998754

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.95  E-value=6.8e-09  Score=122.68  Aligned_cols=140  Identities=24%  Similarity=0.246  Sum_probs=89.9

Q ss_pred             CCHHHHHHHHHcCCCCCccC----CCcceeEEEEEEEECC-e----------E-----EEEEEEecCCcccccccchhhh
Q psy3029         117 VGKTSMVVRYIGKMFSHHIS----PTIGASFFTAKINVGE-N----------K-----VKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       117 VGKSSLinrl~~~~~~~~~~----~t~g~~~~~~~i~~~~-~----------~-----~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      |+||||+.+|.+....+...    ..+|..+    +..+. .          .     -.+.||||||++.|..+....+
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~----v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~  547 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATE----IPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGG  547 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEE----EEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhc
Confidence            57999999998766533221    2233221    21111 0          0     1289999999999988887788


Q ss_pred             ccCCEEEEEEeCCC---hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC----------------HHHHH--
Q psy3029         177 RNANAALLVFDITQ---YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN----------------REEAF--  235 (617)
Q Consensus       177 ~~ad~iIlV~Dis~---~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~----------------~~e~~--  235 (617)
                      ..+|++++|+|+++   +.++..+.    .+..   .++|+++|+||+|+.......                .++..  
T Consensus       548 ~~aDivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~  620 (1049)
T PRK14845        548 SLADLAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIK  620 (1049)
T ss_pred             ccCCEEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHH
Confidence            89999999999987   34444433    2222   247999999999986321110                01110  


Q ss_pred             --HH---HHhc---------------CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         236 --HY---SKSI---------------GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       236 --~~---~~~~---------------g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                        .+   ..+.               .+++++|||++|+||++|+..|....
T Consensus       621 l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~  672 (1049)
T PRK14845        621 LYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA  672 (1049)
T ss_pred             HHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence              00   0111               24899999999999999998876543

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.95  E-value=2.3e-09  Score=109.50  Aligned_cols=97  Identities=18%  Similarity=0.165  Sum_probs=77.9

Q ss_pred             ccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++...+.+.-+.+.|-+++|+.+.+|+ +...++++|..+..   .++..+||+||+||.++.+...++...++..+|++
T Consensus        67 ~Rkn~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~  143 (301)
T COG1162          67 PRKNVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYP  143 (301)
T ss_pred             cccCceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcchHHHHHHHHHHHHhCCee
Confidence            466677788888899999999998887 77888888887766   33566788999999876543334566788889999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHH
Q psy3029         245 YYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~  265 (617)
                      ++.+|++++.++++|.+.+..
T Consensus       144 v~~~s~~~~~~~~~l~~~l~~  164 (301)
T COG1162         144 VLFVSAKNGDGLEELAELLAG  164 (301)
T ss_pred             EEEecCcCcccHHHHHHHhcC
Confidence            999999999999999887643

>KOG0084|consensus

Probab=98.94  E-value=6.2e-10  Score=105.55  Aligned_cols=57  Identities=25%  Similarity=0.269  Sum_probs=54.0

Q ss_pred             CCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         328 VPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       328 ~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ...||+++||+++|||||++.||..+.|.+.|.+|||+||..++++++|+.++|||=
T Consensus         7 dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIW   63 (205)
T KOG0084|consen    7 DYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIW   63 (205)
T ss_pred             ceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEee
Confidence            346899999999999999999999999999999999999999999999999999984

>KOG0094|consensus

Probab=98.94  E-value=6.1e-10  Score=105.22  Aligned_cols=58  Identities=26%  Similarity=0.358  Sum_probs=54.7

Q ss_pred             CCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ..+.||++++|+.+||||||++||+.+.|...|++|||+||..+++.+.|++|.||+=
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlW   76 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLW   76 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEE
Confidence            4566999999999999999999999999999999999999999999999999999973

>KOG1145|consensus

Probab=98.92  E-value=2.1e-08  Score=107.85  Aligned_cols=145  Identities=15%  Similarity=0.111  Sum_probs=99.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      .-=|||||+..|.+....+...-.+.-.+.-..+.+. ..-.+.|.||||+.-|..|+..-..-+|+++||+.+.|.---
T Consensus       162 VDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmp  240 (683)
T KOG1145|consen  162 VDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDGVMP  240 (683)
T ss_pred             ccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCCccH
Confidence            8899999999998776544333322222333444454 336789999999999999988888889999999999884321


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHH-------HhcC--CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYS-------KSIG--GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~-------~~~g--~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +.    ++.|......++|+||.+||+|....   ..+....-.       +.+|  .+++++||++|+|++.|-+.++-
T Consensus       241 QT----~EaIkhAk~A~VpiVvAinKiDkp~a---~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill  313 (683)
T KOG1145|consen  241 QT----LEAIKHAKSANVPIVVAINKIDKPGA---NPEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILL  313 (683)
T ss_pred             hH----HHHHHHHHhcCCCEEEEEeccCCCCC---CHHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHH
Confidence            11    12222222356899999999997542   233333222       2233  37899999999999999988765


Q ss_pred             HH
Q psy3029         266 GL  267 (617)
Q Consensus       266 ~l  267 (617)
                      ..
T Consensus       314 ~A  315 (683)
T KOG1145|consen  314 LA  315 (683)
T ss_pred             HH
Confidence            43

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.91  E-value=1.5e-08  Score=104.71  Aligned_cols=124  Identities=15%  Similarity=0.188  Sum_probs=70.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|.                      +|||||||+|+|++.+.. ......+.+.............++.+|||
T Consensus        37 ~~~rIllvGk----------------------tGVGKSSliNsIlG~~v~-~vs~f~s~t~~~~~~~~~~~G~~l~VIDT   93 (313)
T TIGR00991        37 SSLTILVMGK----------------------GGVGKSSTVNSIIGERIA-TVSAFQSEGLRPMMVSRTRAGFTLNIIDT   93 (313)
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHhCCCcc-cccCCCCcceeEEEEEEEECCeEEEEEEC
Confidence            4568999999                      999999999999987631 11111111111111111123467999999


Q ss_pred             CCccccccc-------chhhhc--cCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCC--CCeEEEEEECCCCCCccccC
Q psy3029         163 AGQERFRSM-------APMYYR--NANAALLVFDITQYHSFAAI-KTWVKELKRNVDE--PLVLCVVGNKTDLESSREVN  230 (617)
Q Consensus       163 ~G~e~~~~~-------~~~~~~--~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~--~iPvIlVgNK~DL~~~~~v~  230 (617)
                      ||..+....       .+.++.  ..|++|+|..++.. .+... ...+..+....+.  -.++|||.|++|.......+
T Consensus        94 PGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~-R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~  172 (313)
T TIGR00991        94 PGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAY-RVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLE  172 (313)
T ss_pred             CCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcc-cCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCC
Confidence            997643211       222222  58999999665432 12222 2233444433321  13689999999976443333

>PTZ00258 GTP-binding protein; Provisional

Probab=98.88  E-value=2e-08  Score=107.49  Aligned_cols=75  Identities=19%  Similarity=0.151  Sum_probs=44.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCe---------------EEEEEEEecCCccccc----ccc---
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN---------------KVKLQVWDTAGQERFR----SMA---  172 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~---------------~~~l~i~Dt~G~e~~~----~~~---  172 (617)
                      ||||||||+|+|++........|....+...-.+.+.+.               ...+.++||||...-.    .+.   
T Consensus        30 PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga~~g~gLg~~f  109 (390)
T PTZ00258         30 PNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGASEGEGLGNAF  109 (390)
T ss_pred             CCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCCcchhHHHHHH
Confidence            999999999999876532221122111111222222221               2358999999964211    122   


Q ss_pred             hhhhccCCEEEEEEeCC
Q psy3029         173 PMYYRNANAALLVFDIT  189 (617)
Q Consensus       173 ~~~~~~ad~iIlV~Dis  189 (617)
                      -..++++|++++|+|..
T Consensus       110 L~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        110 LSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             HHHHHHCCEEEEEEeCC
Confidence            22456899999999973

>PRK00007 elongation factor G; Reviewed

Probab=98.87  E-value=1.5e-08  Score=117.44  Aligned_cols=133  Identities=16%  Similarity=0.125  Sum_probs=83.2

Q ss_pred             CCCCHHHHHHHHHc--CCCCC--ccC------------CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIG--KMFSH--HIS------------PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~--~~~~~--~~~------------~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      +++|||||+++|+.  +....  .+.            ...|.++......+......+.++||||+.+|.......+..
T Consensus        19 ~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~f~~ev~~al~~   98 (693)
T PRK00007         19 IDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRV   98 (693)
T ss_pred             CCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHHHHHHHHHHHHH
Confidence            99999999999973  11100  010            133444444444444456789999999998776667777889


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC----eEEEEcCCCC
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG----TYYETSALQD  253 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~----~~~evSAktg  253 (617)
                      +|++|+|+|+......+...- +..+..   .++|+|+++||+|+....  ..+....+...++.    ..+.+||..+
T Consensus        99 ~D~~vlVvda~~g~~~qt~~~-~~~~~~---~~~p~iv~vNK~D~~~~~--~~~~~~~i~~~l~~~~~~~~ipisa~~~  171 (693)
T PRK00007         99 LDGAVAVFDAVGGVEPQSETV-WRQADK---YKVPRIAFVNKMDRTGAD--FYRVVEQIKDRLGANPVPIQLPIGAEDD  171 (693)
T ss_pred             cCEEEEEEECCCCcchhhHHH-HHHHHH---cCCCEEEEEECCCCCCCC--HHHHHHHHHHHhCCCeeeEEecCccCCc
Confidence            999999999877644333222 223333   346889999999987533  12222333333333    3566777665

>PRK13796 GTPase YqeH; Provisional

Probab=98.85  E-value=9.5e-09  Score=110.22  Aligned_cols=92  Identities=24%  Similarity=0.348  Sum_probs=60.9

Q ss_pred             cccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH----HHHHhcC
Q psy3029         167 RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF----HYSKSIG  242 (617)
Q Consensus       167 ~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~----~~~~~~g  242 (617)
                      .|.......-...++|++|+|+.+..     ..|...+.+... +.|+++|+||+||... ....++..    .+++.++
T Consensus        58 ~~~~~l~~i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~-~kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k~~g  130 (365)
T PRK13796         58 DFLKLLNGIGDSDALVVNVVDIFDFN-----GSWIPGLHRFVG-NNPVLLVGNKADLLPK-SVKKNKVKNWLRQEAKELG  130 (365)
T ss_pred             HHHHHHHhhcccCcEEEEEEECccCC-----CchhHHHHHHhC-CCCEEEEEEchhhCCC-ccCHHHHHHHHHHHHHhcC
Confidence            34443333333344999999998744     234555554443 3689999999999642 23333333    3355667


Q ss_pred             C---eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         243 G---TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       243 ~---~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +   .++.+||+++.|++++++.|.+
T Consensus       131 ~~~~~v~~vSAk~g~gI~eL~~~I~~  156 (365)
T PRK13796        131 LRPVDVVLISAQKGHGIDELLEAIEK  156 (365)
T ss_pred             CCcCcEEEEECCCCCCHHHHHHHHHH
Confidence            6   6899999999999999998865

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=98.84  E-value=3e-08  Score=100.71  Aligned_cols=120  Identities=16%  Similarity=0.181  Sum_probs=69.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|.                      +|||||||+|+|++...... ....+.+.....+........+.+|||
T Consensus        30 ~~~~IllvG~----------------------tGvGKSSliNaLlg~~~~~v-~~~~~~T~~~~~~~~~~~g~~i~vIDT   86 (249)
T cd01853          30 FSLTILVLGK----------------------TGVGKSSTINSIFGERKAAT-SAFQSETLRVREVSGTVDGFKLNIIDT   86 (249)
T ss_pred             CCeEEEEECC----------------------CCCcHHHHHHHHhCCCCccc-CCCCCceEEEEEEEEEECCeEEEEEEC
Confidence            3469999999                      99999999999998764221 111111222222222223467899999


Q ss_pred             CCcccccc----------cchhhhc--cCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCC--CCeEEEEEECCCCCCc
Q psy3029         163 AGQERFRS----------MAPMYYR--NANAALLVFDITQYH-SFAAIKTWVKELKRNVDE--PLVLCVVGNKTDLESS  226 (617)
Q Consensus       163 ~G~e~~~~----------~~~~~~~--~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~--~iPvIlVgNK~DL~~~  226 (617)
                      ||......          ....|+.  ..+++++|..++... ...+ ...+..|.+..+.  -.+++||.||+|...+
T Consensus        87 PGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p  164 (249)
T cd01853          87 PGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAASSPP  164 (249)
T ss_pred             CCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCccCCC
Confidence            99754410          1223443  578888887665422 2221 1233344333221  1368999999998643

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.82  E-value=1.3e-08  Score=118.41  Aligned_cols=114  Identities=18%  Similarity=0.183  Sum_probs=79.5

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC---------------CCCCc---cCCCcceeEEEE
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK---------------MFSHH---ISPTIGASFFTA  146 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~---------------~~~~~---~~~t~g~~~~~~  146 (617)
                      .+|+++|.                      .++|||||+++|+..               .+...   ...|+.......
T Consensus        20 rnI~ivGh----------------------~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~   77 (720)
T TIGR00490        20 RNIGIVAH----------------------IDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSM   77 (720)
T ss_pred             cEEEEEEe----------------------CCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhccccee
Confidence            38999999                      999999999999742               11111   122443333333


Q ss_pred             EEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         147 KINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       147 ~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      .+.+++..+.+.+|||||+.+|......+++.+|++|+|+|+......+...-| ..+..   .++|+++|+||+|..
T Consensus        78 ~~~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~-~~~~~---~~~p~ivviNKiD~~  151 (720)
T TIGR00490        78 VHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVL-RQALK---ENVKPVLFINKVDRL  151 (720)
T ss_pred             EEeecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHH-HHHHH---cCCCEEEEEEChhcc
Confidence            444667788999999999999888888899999999999998875332222222 22222   336788999999985

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>PRK13768 GTPase; Provisional

Probab=98.81  E-value=1.7e-08  Score=102.87  Aligned_cols=109  Identities=17%  Similarity=0.169  Sum_probs=70.8

Q ss_pred             EEEEEecCCcccc---cccchhhhc---c--CCEEEEEEeCCChhhHHHH--HHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         156 KLQVWDTAGQERF---RSMAPMYYR---N--ANAALLVFDITQYHSFAAI--KTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       156 ~l~i~Dt~G~e~~---~~~~~~~~~---~--ad~iIlV~Dis~~~S~~~l--~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      .+.+||+||+.+.   ......+++   .  .+++++|+|++......++  ..|+....... .++|+++|+||+|+..
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~-~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLR-LGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHH-cCCCEEEEEEhHhhcC
Confidence            5889999998653   233333333   2  8999999999765433332  23333322222 3479999999999875


Q ss_pred             ccccCHHHHHH----------------------------HHHhcC--CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         226 SREVNREEAFH----------------------------YSKSIG--GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       226 ~~~v~~~e~~~----------------------------~~~~~g--~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+.  ++...                            .++..+  .+++++||+++.|+++++++|.+.+
T Consensus       177 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        177 EEEL--ERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             chhH--HHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            4332  11111                            122334  5889999999999999999998766

>cd01882 BMS1 Bms1

Probab=98.78  E-value=3.8e-08  Score=98.57  Aligned_cols=130  Identities=18%  Similarity=0.224  Sum_probs=74.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|+|||||++.+++..-........|.    ..+ ......++.++||+|..  ..+ -...+.+|++++|+|.+.....
T Consensus        48 ~~~GKstl~~~l~~~~~~~~~~~~~g~----i~i-~~~~~~~i~~vDtPg~~--~~~-l~~ak~aDvVllviDa~~~~~~  119 (225)
T cd01882          48 PGVGKTTLIKSLVKNYTKQNISDIKGP----ITV-VTGKKRRLTFIECPNDI--NAM-IDIAKVADLVLLLIDASFGFEM  119 (225)
T ss_pred             CCCCHHHHHHHHHhhcccCcccccccc----EEE-EecCCceEEEEeCCchH--HHH-HHHHHhcCEEEEEEecCcCCCH
Confidence            999999999999864222112222221    111 11245678899999864  222 2346789999999998765432


Q ss_pred             HHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCccc-cC--HHHHHH-HHHh--cCCeEEEEcCCCCCCH
Q psy3029         195 AAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSRE-VN--REEAFH-YSKS--IGGTYYETSALQDQGI  256 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~-v~--~~e~~~-~~~~--~g~~~~evSAktg~gI  256 (617)
                      .. ..++..+..   ..+| +++|+||+|+..... ..  .+++.. +..+  -+.+++.+||++...+
T Consensus       120 ~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~~  184 (225)
T cd01882         120 ET-FEFLNILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGRY  184 (225)
T ss_pred             HH-HHHHHHHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCCC
Confidence            22 223333333   2246 455999999864321 10  112222 2221  2358999999987443

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.77  E-value=4.8e-08  Score=102.70  Aligned_cols=144  Identities=22%  Similarity=0.214  Sum_probs=91.7

Q ss_pred             CCCCHHHHHHHHHcC--CCCC---------------------------ccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGK--MFSH---------------------------HISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--~~~~---------------------------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      ..+|||||+-||+-+  .+..                           ....-.|+++......+.-..+.|.|+|+||+
T Consensus        16 VD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k~~~tIiDaPGH   95 (428)
T COG5256          16 VDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDKYNFTIIDAPGH   95 (428)
T ss_pred             CCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCCceEEEeeCCch
Confidence            999999999998632  1000                           01123456666666666667788999999998


Q ss_pred             ccccccchhhhccCCEEEEEEeCCChh---hHHH--HHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH----HHH
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYH---SFAA--IKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE----AFH  236 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~~~--l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e----~~~  236 (617)
                      .+|-.-.-.-...||+.|||+|+++.+   +|..  ..+--..+.+...- -.+||+.||+|+.+-++-..++    ...
T Consensus        96 rdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi-~~lIVavNKMD~v~wde~rf~ei~~~v~~  174 (428)
T COG5256          96 RDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGI-KQLIVAVNKMDLVSWDEERFEEIVSEVSK  174 (428)
T ss_pred             HHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcCC-ceEEEEEEcccccccCHHHHHHHHHHHHH
Confidence            777654444566899999999998864   2211  11111122222222 3688999999997643322222    233


Q ss_pred             HHHhcCC-----eEEEEcCCCCCCHHHH
Q psy3029         237 YSKSIGG-----TYYETSALQDQGIEDV  259 (617)
Q Consensus       237 ~~~~~g~-----~~~evSAktg~gI~eL  259 (617)
                      +.+..|+     +|++|||..|.|+.+.
T Consensus       175 l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         175 LLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHcCCCccCCeEEecccccCCccccc
Confidence            4445554     6999999999998653

>KOG1707|consensus

Probab=98.76  E-value=9.6e-08  Score=103.79  Aligned_cols=151  Identities=13%  Similarity=0.163  Sum_probs=107.5

Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY  191 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~  191 (617)
                      +|..++|||.|++.|+++.+...+..+....+....+.+.+....+.+-|.+-. ....+...- ..||++.++||.+++
T Consensus       431 ~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~p  508 (625)
T KOG1707|consen  431 VGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSNP  508 (625)
T ss_pred             EcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCCc
Confidence            466999999999999998887766666666666666666676666777776644 222222222 679999999999999


Q ss_pred             hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         192 HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       192 ~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .+|..+...+......  ..+|+++|++|+|+.+..+...-.-.+++.++++ +.+.+|.++... .++|..|+...
T Consensus       509 ~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL~~~A  582 (625)
T KOG1707|consen  509 RSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKLATMA  582 (625)
T ss_pred             hHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHHHHhh
Confidence            9998877655443332  5689999999999975543222222689999998 466778775323 78888887654

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.76  E-value=3.2e-08  Score=97.84  Aligned_cols=55  Identities=18%  Similarity=0.120  Sum_probs=40.5

Q ss_pred             CeEEEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         212 LVLCVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      .|.++|+||+|+........++..+..++.+  .+++++||+++.|++++++++.+.
T Consensus       149 ~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       149 EADLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4679999999996532222333444444443  689999999999999999999764

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR00101 ureG urease accessory protein UreG

Probab=98.75  E-value=6.4e-08  Score=95.08  Aligned_cols=102  Identities=14%  Similarity=0.103  Sum_probs=62.0

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      ....++++.|..-.... ...+  ++.+|.|+|+.+..+...  ++..++..      .=++|+||+|+.+......+..
T Consensus        92 ~D~iiIEt~G~~l~~~~-~~~l--~~~~i~vvD~~~~~~~~~--~~~~qi~~------ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        92 LEMVFIESGGDNLSATF-SPEL--ADLTIFVIDVAAGDKIPR--KGGPGITR------SDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CCEEEEECCCCCccccc-chhh--hCcEEEEEEcchhhhhhh--hhHhHhhh------ccEEEEEhhhccccccccHHHH
Confidence            34556777774211111 1222  578999999987554221  11122211      1178999999974212223333


Q ss_pred             HHHHHh--cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         235 FHYSKS--IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       235 ~~~~~~--~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .+..+.  .+.+++++||++|+|++++|++|.+++
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            344443  356999999999999999999998754

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>KOG0092|consensus

Probab=98.71  E-value=1.5e-08  Score=95.94  Aligned_cols=58  Identities=33%  Similarity=0.535  Sum_probs=54.9

Q ss_pred             CCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +...||++++|.++||||+|+.||..+.|.+...||||+.|++|++.+++..|+|+|=
T Consensus         2 ~~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIW   59 (200)
T KOG0092|consen    2 ATREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIW   59 (200)
T ss_pred             CcceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEE
Confidence            3567999999999999999999999999999999999999999999999999999984

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.71  E-value=1.7e-07  Score=99.30  Aligned_cols=43  Identities=9%  Similarity=-0.002  Sum_probs=29.7

Q ss_pred             CeEEEEEECCCCC-CccccCHHHHHHHHHhcCCeEEEEcCCCCC
Q psy3029         212 LVLCVVGNKTDLE-SSREVNREEAFHYSKSIGGTYYETSALQDQ  254 (617)
Q Consensus       212 iPvIlVgNK~DL~-~~~~v~~~e~~~~~~~~g~~~~evSAktg~  254 (617)
                      .|+++|+|+.|.. .......+++.+++...+.+++.+||+-..
T Consensus       200 KP~i~v~N~~e~~~~~~~~~~~~i~~~~~~~~~~~i~~sa~~E~  243 (364)
T PRK09601        200 KPVLYVANVDEDDLADGNPYVKKVREIAAKEGAEVVVICAKIEA  243 (364)
T ss_pred             CCeEEEEECCccccccccHHHHHHHHHHHHcCCeEEEEEHHHHH
Confidence            8999999999852 111222355666777778899999986433

>cd01900 YchF YchF subfamily

Probab=98.68  E-value=6.6e-08  Score=99.18  Aligned_cols=80  Identities=14%  Similarity=0.020  Sum_probs=48.3

Q ss_pred             cCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCe---------------EEEEEEEecCCccccc----c
Q psy3029         110 ANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN---------------KVKLQVWDTAGQERFR----S  170 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~---------------~~~l~i~Dt~G~e~~~----~  170 (617)
                      +|+|.||||||||+|+|++.+......|....+...-.+.+.+.               ...+.++|+||..+-.    .
T Consensus         2 givG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~g   81 (274)
T cd01900           2 GIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEG   81 (274)
T ss_pred             eEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhhH
Confidence            56677999999999999987653222222221222222233222               1358999999964311    1


Q ss_pred             cchh---hhccCCEEEEEEeCC
Q psy3029         171 MAPM---YYRNANAALLVFDIT  189 (617)
Q Consensus       171 ~~~~---~~~~ad~iIlV~Dis  189 (617)
                      +...   .++++|++++|+|..
T Consensus        82 lg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          82 LGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHhCCEEEEEEeCc
Confidence            2222   356899999999864

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.68  E-value=6.5e-08  Score=103.40  Aligned_cols=83  Identities=17%  Similarity=0.169  Sum_probs=61.0

Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCC
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQG  255 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~g  255 (617)
                      ..|+|.+++|+++..+.+...+++++..+...   +++++||+||+||.++.....+....+  ..+++++.+||+++.|
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~---~i~piIVLNK~DL~~~~~~~~~~~~~~--~~g~~Vi~vSa~~g~g  184 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES---GAEPVIVLTKADLCEDAEEKIAEVEAL--APGVPVLAVSALDGEG  184 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc---CCCEEEEEEChhcCCCHHHHHHHHHHh--CCCCcEEEEECCCCcc
Confidence            57999999999997555666788888777663   367789999999975321011122222  4578999999999999


Q ss_pred             HHHHHHHH
Q psy3029         256 IEDVFLNV  263 (617)
Q Consensus       256 I~eLf~~I  263 (617)
                      +++|..+|
T Consensus       185 l~~L~~~L  192 (356)
T PRK01889        185 LDVLAAWL  192 (356)
T ss_pred             HHHHHHHh
Confidence            99988876

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.67  E-value=2.2e-07  Score=98.40  Aligned_cols=155  Identities=15%  Similarity=0.181  Sum_probs=95.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC----CCC----------CccCCCcc---eeEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK----MFS----------HHISPTIG---ASFF  144 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~----~~~----------~~~~~t~g---~~~~  144 (617)
                      ..++.|+++|+                      .++|||||+|+|.+.    ...          +...+..|   .+..
T Consensus        15 ~G~IyIGvvGp----------------------vrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTe   72 (492)
T TIGR02836        15 QGDIYIGVVGP----------------------VRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTE   72 (492)
T ss_pred             CCcEEEEEEcC----------------------CCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCC
Confidence            34578888888                      999999999999987    322          13344455   2222


Q ss_pred             EEE-------EEE-CCeEEEEEEEecCCccc--------ccc--c-------------------chhhhc-cCCEEEEEE
Q psy3029         145 TAK-------INV-GENKVKLQVWDTAGQER--------FRS--M-------------------APMYYR-NANAALLVF  186 (617)
Q Consensus       145 ~~~-------i~~-~~~~~~l~i~Dt~G~e~--------~~~--~-------------------~~~~~~-~ad~iIlV~  186 (617)
                      .+.       +.. ++-...+.++||+|...        -..  +                   ++..+. .+|+.|+|.
T Consensus        73 PkfvP~kAvEI~~~~~~~~~VrlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVt  152 (492)
T TIGR02836        73 PKFVPNEAVEININEGTKFKVRLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVT  152 (492)
T ss_pred             CccccCcceEEeccCCCcccEEEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEE
Confidence            222       222 34457889999998621        111  0                   334455 899999998


Q ss_pred             -eCC----ChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCC--CCCHHH
Q psy3029         187 -DIT----QYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQ--DQGIED  258 (617)
Q Consensus       187 -Dis----~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAkt--g~gI~e  258 (617)
                       |.+    .++.+... .+|+.++++   .++|+++|.||+|-..+.  ..+....+...++.+++.+|+..  ...|..
T Consensus       153 TDgsi~dI~Re~y~~aEe~~i~eLk~---~~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~  227 (492)
T TIGR02836       153 TDGTITDIPREDYVEAEERVIEELKE---LNKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILS  227 (492)
T ss_pred             cCCCccccccccchHHHHHHHHHHHh---cCCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHH
Confidence             764    12233333 467777766   447999999999932221  33344466677888988888763  233444


Q ss_pred             HHHHH
Q psy3029         259 VFLNV  263 (617)
Q Consensus       259 Lf~~I  263 (617)
                      +++.+
T Consensus       228 il~~v  232 (492)
T TIGR02836       228 VLEEV  232 (492)
T ss_pred             HHHHH
Confidence            44433

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.65  E-value=2.3e-07  Score=95.32  Aligned_cols=142  Identities=18%  Similarity=0.155  Sum_probs=91.1

Q ss_pred             CCCCCCHHHHHHHHHcCCCC------------Cc-------------------cCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029         113 FWLGVGKTSMVVRYIGKMFS------------HH-------------------ISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~~~------------~~-------------------~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      |..-=||||||-||+.+.-.            ..                   -....|++++.-.-.+.-.+-+|.|.|
T Consensus        13 GSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT~KRkFIiAD   92 (431)
T COG2895          13 GSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFSTEKRKFIIAD   92 (431)
T ss_pred             ccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecccccceEEEec
Confidence            33788999999999754210            00                   001123333333333444566899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH----HHHHHH
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR----EEAFHY  237 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~----~e~~~~  237 (617)
                      |||+++|..-+-.-...||++|+++|+...- ++.-. --..|.....- ..++|..||+||.+-.+-..    .+...|
T Consensus        93 TPGHeQYTRNMaTGASTadlAIlLVDAR~Gv-l~QTr-RHs~I~sLLGI-rhvvvAVNKmDLvdy~e~~F~~I~~dy~~f  169 (431)
T COG2895          93 TPGHEQYTRNMATGASTADLAILLVDARKGV-LEQTR-RHSFIASLLGI-RHVVVAVNKMDLVDYSEEVFEAIVADYLAF  169 (431)
T ss_pred             CCcHHHHhhhhhcccccccEEEEEEecchhh-HHHhH-HHHHHHHHhCC-cEEEEEEeeecccccCHHHHHHHHHHHHHH
Confidence            9999999766666667899999999986532 11111 11222222222 36889999999976544333    334567


Q ss_pred             HHhcCC---eEEEEcCCCCCCHH
Q psy3029         238 SKSIGG---TYYETSALQDQGIE  257 (617)
Q Consensus       238 ~~~~g~---~~~evSAktg~gI~  257 (617)
                      +.++++   .++++||..|.||-
T Consensus       170 a~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         170 AAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHcCCCcceEEechhccCCccc
Confidence            778876   79999999999984

>KOG0394|consensus

Probab=98.64  E-value=1e-08  Score=96.13  Aligned_cols=54  Identities=37%  Similarity=0.490  Sum_probs=49.7

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .||.++|+++|||||+++||..+.|+..|..|||+||.+|.+.+|++.++|||=
T Consensus        10 LKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiW   63 (210)
T KOG0394|consen   10 LKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIW   63 (210)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEE
Confidence            455666666999999999999999999999999999999999999999999985

>KOG0095|consensus

Probab=98.64  E-value=3.8e-08  Score=88.88  Aligned_cols=56  Identities=30%  Similarity=0.368  Sum_probs=53.0

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      -||++++|..+|||+|++.||.++-|+....+|||+||..|+|+++|..|+|||-.
T Consensus         7 lfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwd   62 (213)
T KOG0095|consen    7 LFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWD   62 (213)
T ss_pred             eEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEee
Confidence            47899999999999999999999999999999999999999999999999999853

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.63  E-value=2.1e-07  Score=97.98  Aligned_cols=107  Identities=18%  Similarity=0.139  Sum_probs=66.8

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc--CH
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV--NR  231 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v--~~  231 (617)
                      .+.+.|+||+|.-.-.   ......+|.+++|.+......+..+.   ..+.+     +.-++|+||+|+......  ..
T Consensus       148 g~d~viieT~Gv~qs~---~~i~~~aD~vlvv~~p~~gd~iq~~k---~gi~E-----~aDIiVVNKaDl~~~~~a~~~~  216 (332)
T PRK09435        148 GYDVILVETVGVGQSE---TAVAGMVDFFLLLQLPGAGDELQGIK---KGIME-----LADLIVINKADGDNKTAARRAA  216 (332)
T ss_pred             CCCEEEEECCCCccch---hHHHHhCCEEEEEecCCchHHHHHHH---hhhhh-----hhheEEeehhcccchhHHHHHH
Confidence            4678899999975322   12466799999997644443333322   22222     123799999998653221  11


Q ss_pred             HHHHHHHHh-------cCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         232 EEAFHYSKS-------IGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       232 ~e~~~~~~~-------~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      .+.......       +..+++.+||+++.||++|++.|.+.+....
T Consensus       217 ~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l~  263 (332)
T PRK09435        217 AEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAALT  263 (332)
T ss_pred             HHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            122222221       2258999999999999999999998766443

>KOG0078|consensus

Probab=98.61  E-value=3.6e-08  Score=94.91  Aligned_cols=57  Identities=28%  Similarity=0.285  Sum_probs=52.2

Q ss_pred             CCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         328 VPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       328 ~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ..-+|++++|+++|||||++.||.+++|...|..|||+||..++|+++++.|+|||=
T Consensus        10 d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiW   66 (207)
T KOG0078|consen   10 DYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIW   66 (207)
T ss_pred             ceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEE
Confidence            344677778888999999999999999999999999999999999999999999974

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.59  E-value=3.3e-08  Score=99.70  Aligned_cols=112  Identities=17%  Similarity=0.162  Sum_probs=57.0

Q ss_pred             EEEEEecCCcccccccchhhh--------ccCCEEEEEEeCCChhh-HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         156 KLQVWDTAGQERFRSMAPMYY--------RNANAALLVFDITQYHS-FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       156 ~l~i~Dt~G~e~~~~~~~~~~--------~~ad~iIlV~Dis~~~S-~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      .+.++|||||.+....+....        ...-++++++|.....+ ...+..++..+........|.|.|.||+|+..+
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            688999999976654443332        34558888999754332 122222333322222234799999999999762


Q ss_pred             cc------------c-------CH---HHHHHHHHhcCC--eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         227 RE------------V-------NR---EEAFHYSKSIGG--TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       227 ~~------------v-------~~---~e~~~~~~~~g~--~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..            .       ..   +....+...++.  .++.+|+++++|+++|+..|-+.+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            10            0       00   011111122233  799999999999999998886643

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=98.59  E-value=2.6e-07  Score=91.70  Aligned_cols=150  Identities=17%  Similarity=0.106  Sum_probs=79.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccC--CCcceeEEEEEEEECCeEEEEEEEecCCccccc-------ccchh----hhccCCE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHIS--PTIGASFFTAKINVGENKVKLQVWDTAGQERFR-------SMAPM----YYRNANA  181 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~--~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~-------~~~~~----~~~~ad~  181 (617)
                      .|+||||++|.+++........  .............+++  ..+.++||||..+..       ..+..    .....++
T Consensus         9 tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha   86 (212)
T PF04548_consen    9 TGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHA   86 (212)
T ss_dssp             TTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESE
T ss_pred             CCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeE
Confidence            9999999999999876432221  1111122233334555  457899999963221       11111    2346899


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhcCCC--CCeEEEEEECCCCCCccccC-------HHHHHHHHHhcCCeEEEEcCC-
Q psy3029         182 ALLVFDITQYHSFAAIKTWVKELKRNVDE--PLVLCVVGNKTDLESSREVN-------REEAFHYSKSIGGTYYETSAL-  251 (617)
Q Consensus       182 iIlV~Dis~~~S~~~l~~~l~~i~~~~~~--~iPvIlVgNK~DL~~~~~v~-------~~e~~~~~~~~g~~~~evSAk-  251 (617)
                      +|||+.+. +-+-.+. ..+..+....+.  -..++||.|.+|...+..+.       .+....+.+..+-.|+.++.+ 
T Consensus        87 ~llVi~~~-r~t~~~~-~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R~~~f~n~~  164 (212)
T PF04548_consen   87 FLLVIPLG-RFTEEDR-EVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGRYHVFNNKT  164 (212)
T ss_dssp             EEEEEETT-B-SHHHH-HHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTCEEECCTTH
T ss_pred             EEEEEecC-cchHHHH-HHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCEEEEEeccc
Confidence            99999987 3232221 222233222221  12578899999865443311       122445666677788888776 


Q ss_pred             -----CCCCHHHHHHHHHHHHH
Q psy3029         252 -----QDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       252 -----tg~gI~eLf~~I~~~l~  268 (617)
                           ....+.+|++.|-+.+.
T Consensus       165 ~~~~~~~~qv~~Ll~~ie~mv~  186 (212)
T PF04548_consen  165 KDKEKDESQVSELLEKIEEMVQ  186 (212)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhHHHHHHHHHHHHHHHH
Confidence                 22346666666655443

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.58  E-value=9.2e-07  Score=89.91  Aligned_cols=113  Identities=19%  Similarity=0.153  Sum_probs=72.3

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc--cCHH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE--VNRE  232 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--v~~~  232 (617)
                      -.+.|+|.||++-.-...-.-..-.|++|||++++.+..--.-.+.|..+.-. .- ..+|||-||+||...+.  ...+
T Consensus        86 R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi-gi-k~iiIvQNKIDlV~~E~AlE~y~  163 (415)
T COG5257          86 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII-GI-KNIIIVQNKIDLVSRERALENYE  163 (415)
T ss_pred             EEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh-cc-ceEEEEecccceecHHHHHHHHH
Confidence            36789999998753322111122368999999998764322222222222221 12 36899999999965432  1234


Q ss_pred             HHHHHHHh---cCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         233 EAFHYSKS---IGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       233 e~~~~~~~---~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++.+|.+.   -+.+++.+||.++.||+.|++.|.+.+..
T Consensus       164 qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         164 QIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             HHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            44455442   24599999999999999999999887743

>KOG0080|consensus

Probab=98.57  E-value=5.4e-08  Score=89.15  Aligned_cols=68  Identities=24%  Similarity=0.342  Sum_probs=57.0

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee--cCCCceeeeccC
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR--TGLKVSKIPVPT  396 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~--~~~~~~~~~~~~  396 (617)
                      .-+|+.+||.++||||+++.+|..+.|......|||+||..|.+.++|+.++|.|-  +|+-.=+.-+|+
T Consensus        10 ~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpS   79 (209)
T KOG0080|consen   10 TTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPS   79 (209)
T ss_pred             eeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHh
Confidence            34677888888999999999999999999998999999999999999999999974  455444444444

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=98.57  E-value=7.3e-07  Score=94.52  Aligned_cols=151  Identities=19%  Similarity=0.203  Sum_probs=104.2

Q ss_pred             CCCCHHHHHHHHHcC--CCCC------------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGK--MFSH------------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--~~~~------------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      .-=|||||+.+|+.+  .|.+            ......|+++..+...+..+.++++|+||||+.+|....+..++-.|
T Consensus        14 VDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEVERvl~MVD   93 (603)
T COG1217          14 VDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEVERVLSMVD   93 (603)
T ss_pred             ecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchhhhhhhhcc
Confidence            678999999999853  2211            12234677777777777778899999999999999999999999999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc-cCHHHHHHHHHh-------cCCeEEEEcCCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE-VNREEAFHYSKS-------IGGTYYETSALQ  252 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~-v~~~e~~~~~~~-------~g~~~~evSAkt  252 (617)
                      ++++++|+.+..--+. .-.+.....   ...+.|||+||+|....+. .-.++...++-.       +.+++++.||+.
T Consensus        94 gvlLlVDA~EGpMPQT-rFVlkKAl~---~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~  169 (603)
T COG1217          94 GVLLLVDASEGPMPQT-RFVLKKALA---LGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPIVYASARN  169 (603)
T ss_pred             eEEEEEEcccCCCCch-hhhHHHHHH---cCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEEEeeccC
Confidence            9999999987431110 001122222   2356679999999875432 112334444433       456899999987


Q ss_pred             CC----------CHHHHHHHHHHHHHH
Q psy3029         253 DQ----------GIEDVFLNVSKGLIC  269 (617)
Q Consensus       253 g~----------gI~eLf~~I~~~l~~  269 (617)
                      |.          ++.-||+.|++.+..
T Consensus       170 G~a~~~~~~~~~~m~pLfe~I~~hvp~  196 (603)
T COG1217         170 GTASLDPEDEADDMAPLFETILDHVPA  196 (603)
T ss_pred             ceeccCccccccchhHHHHHHHHhCCC
Confidence            64          577788888877643

>KOG1486|consensus

Probab=98.56  E-value=1.3e-06  Score=85.88  Aligned_cols=161  Identities=17%  Similarity=0.106  Sum_probs=103.2

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .+.|+-.|+              .|++++|+|.||||||+..++..... +.|.-| ..+.-.-.+..  +...+++.|.
T Consensus        54 GFeV~KsGd--------------aRValIGfPSVGKStlLs~iT~T~SeaA~yeFT-TLtcIpGvi~y--~ga~IQllDL  116 (364)
T KOG1486|consen   54 GFEVLKSGD--------------ARVALIGFPSVGKSTLLSKITSTHSEAASYEFT-TLTCIPGVIHY--NGANIQLLDL  116 (364)
T ss_pred             CeeeeccCC--------------eEEEEecCCCccHHHHHHHhhcchhhhhceeee-EEEeecceEEe--cCceEEEecC
Confidence            456776777              67888888999999999999865422 222211 11111222233  4457899999


Q ss_pred             CCccccc-------ccchhhhccCCEEEEEEeCCChhhHHH-HHHHHHHHHhcC---CCC--------------------
Q psy3029         163 AGQERFR-------SMAPMYYRNANAALLVFDITQYHSFAA-IKTWVKELKRNV---DEP--------------------  211 (617)
Q Consensus       163 ~G~e~~~-------~~~~~~~~~ad~iIlV~Dis~~~S~~~-l~~~l~~i~~~~---~~~--------------------  211 (617)
                      ||..+-.       .+.-...+.+|+++.|.|++..+.-.. +.+-+..+--..   +.+                    
T Consensus       117 PGIieGAsqgkGRGRQviavArtaDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT  196 (364)
T KOG1486|consen  117 PGIIEGASQGKGRGRQVIAVARTADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLT  196 (364)
T ss_pred             cccccccccCCCCCceEEEEeecccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccc
Confidence            9964322       122234568999999999987654332 233333221000   000                    


Q ss_pred             ------------------------------------------CeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEc
Q psy3029         212 ------------------------------------------LVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETS  249 (617)
Q Consensus       212 ------------------------------------------iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evS  249 (617)
                                                                ++++.|-||+|.     ++.++...++++-+  -+-+|
T Consensus       197 ~~~ek~i~~ILheykI~Naevl~ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID~-----vs~eevdrlAr~Pn--svViS  269 (364)
T KOG1486|consen  197 HCDEKLIYTILHEYKIHNAEVLFREDCTVDDFIDVIEGNRVYIKCLYVYNKIDQ-----VSIEEVDRLARQPN--SVVIS  269 (364)
T ss_pred             cccHHHHHHHHHHHeeccceEEEecCCChHHHHHHHhccceEEEEEEEeeccce-----ecHHHHHHHhcCCC--cEEEE
Confidence                                                      788899999995     55677777877643  45578


Q ss_pred             CCCCCCHHHHHHHHHHHHH
Q psy3029         250 ALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       250 Aktg~gI~eLf~~I~~~l~  268 (617)
                      +.-+.|++.+++.|.+.+.
T Consensus       270 C~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  270 CNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             eccccCHHHHHHHHHHHhc
Confidence            8899999999999988764

>PF06741 LsmAD: LsmAD domain; InterPro: IPR009604 This entry represents a conserved region approximately 250 residues long located on eukaryotic ataxin-2 []

Probab=98.54  E-value=4.2e-08  Score=78.86  Aligned_cols=31  Identities=19%  Similarity=0.155  Sum_probs=24.9

Q ss_pred             ccCCCCccCCccccccccCCCC-CchHHHHHHHHh
Q psy3029         578 NHNVGTATSSIKMFIFPLIQVA-PYTMEESVLAIQ  611 (617)
Q Consensus       578 ~~~~st~de~l~~yt~~l~~~~-~~~~~~~~~~~~  611 (617)
                      |||+|||||+|  |||||+++. .|+++| +.|++
T Consensus         1 FGV~stydE~l--YTT~Ld~~~~~~k~~~-~~A~r   32 (72)
T PF06741_consen    1 FGVKSTYDENL--YTTPLDRSDPDYKERE-AEAER   32 (72)
T ss_pred             CCCCCccCchh--ceeeccCCCcchHHHH-HHHHH
Confidence            89999999999  999999975 555555 44544

Ataxin-2 is a protein of unknown function, within which expansion of a polyglutamine tract (due to expansion of unstable CAG repeats in the coding region of the SCA2 gene) causes spinocerebellar ataxia type 2 (SCA2), a late-onset neurodegenerative disorder []. The expanded polyglutamine repeat in ataxin-2 causes disruption of the normal morphology of the Golgi complex and increased incidence of cell death []. Ataxin-2 is predicted to consist of mostly non-globular domains [].

>KOG0079|consensus

Probab=98.54  E-value=2.8e-08  Score=89.74  Aligned_cols=55  Identities=29%  Similarity=0.381  Sum_probs=51.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ++.+|||+++||||+++.+|..+.|+..|..|||+||..++|.++|..|+|||-.
T Consensus         9 fkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwD   63 (198)
T KOG0079|consen    9 FKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWD   63 (198)
T ss_pred             HHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEee
Confidence            5667778889999999999999999999999999999999999999999999854

>KOG0098|consensus

Probab=98.53  E-value=6.4e-08  Score=91.01  Aligned_cols=58  Identities=24%  Similarity=0.251  Sum_probs=54.3

Q ss_pred             CCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +...+|+.++|+.+|||||++.||.++.|...+..|||++|..+.+.+|+++|+|||=
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiw   60 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIW   60 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEE
Confidence            4456888999999999999999999999999999999999999999999999999985

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.53  E-value=3.4e-07  Score=87.85  Aligned_cols=54  Identities=26%  Similarity=0.357  Sum_probs=34.6

Q ss_pred             hhheeeeccCCCCCCCcceeeeeeecccccccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         314 ETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       314 ~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      .++++++|.|                ++|||++++++.+.. ......|.+...+  ..+.++. .+.|--+||
T Consensus       117 ~~~~~~vG~p----------------nvGKSslin~l~~~~~~~~~~~pg~T~~~--~~~~~~~-~~~l~DtPG  171 (172)
T cd04178         117 SITVGVVGFP----------------NVGKSSLINSLKRSRACNVGATPGVTKSM--QEVHLDK-KVKLLDSPG  171 (172)
T ss_pred             CcEEEEEcCC----------------CCCHHHHHHHHhCcccceecCCCCeEcce--EEEEeCC-CEEEEECcC
Confidence            3678888888                999999999999654 3444455554443  3344443 355554555

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.52  E-value=3.9e-07  Score=96.67  Aligned_cols=160  Identities=14%  Similarity=0.170  Sum_probs=79.5

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcce---eEEEEEEEECCeEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGA---SFFTAKINVGENKVKL  157 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~---~~~~~~i~~~~~~~~l  157 (617)
                      ...+++|+|+|+                      +|+|||||||.|.+-...+......|+   +.....+... ..-.+
T Consensus        32 ~~~~l~IaV~G~----------------------sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p-~~pnv   88 (376)
T PF05049_consen   32 DNAPLNIAVTGE----------------------SGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHP-KFPNV   88 (376)
T ss_dssp             HH--EEEEEEES----------------------TTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-S-S-TTE
T ss_pred             hcCceEEEEECC----------------------CCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCC-CCCCC
Confidence            446689999999                      999999999999753221111111111   1112222211 11248


Q ss_pred             EEEecCCcccccccchhh-----hccCCEEEEEEeCCChhhHHHHHHHHH-HHHhcCCCCCeEEEEEECCCCC-------
Q psy3029         158 QVWDTAGQERFRSMAPMY-----YRNANAALLVFDITQYHSFAAIKTWVK-ELKRNVDEPLVLCVVGNKTDLE-------  224 (617)
Q Consensus       158 ~i~Dt~G~e~~~~~~~~~-----~~~ad~iIlV~Dis~~~S~~~l~~~l~-~i~~~~~~~iPvIlVgNK~DL~-------  224 (617)
                      .+||.||..........|     +..-|.+|++.+-.    |...+-|+. .+.+   .+.|+.+|-+|+|..       
T Consensus        89 ~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~s~r----f~~ndv~La~~i~~---~gK~fyfVRTKvD~Dl~~~~~~  161 (376)
T PF05049_consen   89 TLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIISSER----FTENDVQLAKEIQR---MGKKFYFVRTKVDSDLYNERRR  161 (376)
T ss_dssp             EEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEESSS------HHHHHHHHHHHH---TT-EEEEEE--HHHHHHHHHCC
T ss_pred             eEEeCCCCCCCCCCHHHHHHHccccccCEEEEEeCCC----CchhhHHHHHHHHH---cCCcEEEEEecccccHhhhhcc
Confidence            899999974332223333     44789988887732    444443333 3443   236999999999961       


Q ss_pred             CccccCH----HHHHHHHH----hcCC---eEEEEcCCCC--CCHHHHHHHHHHHHHHh
Q psy3029         225 SSREVNR----EEAFHYSK----SIGG---TYYETSALQD--QGIEDVFLNVSKGLICL  270 (617)
Q Consensus       225 ~~~~v~~----~e~~~~~~----~~g~---~~~evSAktg--~gI~eLf~~I~~~l~~~  270 (617)
                      ..+....    +++++.|.    ..|+   ++|.||+.+-  .....|.+.|.+.+...
T Consensus       162 ~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~  220 (376)
T PF05049_consen  162 KPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAH  220 (376)
T ss_dssp             -STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GG
T ss_pred             CCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHH
Confidence            1112222    23333332    2343   6899998854  55778888887766544

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.52  E-value=3.7e-07  Score=95.51  Aligned_cols=104  Identities=15%  Similarity=0.076  Sum_probs=64.4

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--  231 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--  231 (617)
                      .+.+.|+||+|.-...   ...+..+|.++++.+.   .+-+++..+...+.     .+|.++|+||+|+........  
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~---~~~~el~~~~~~l~-----~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIP---GTGDDLQGIKAGLM-----EIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecC---CccHHHHHHHHHHh-----hhccEEEEEcccccchhHHHHHH
Confidence            4678899999853211   2346678888888543   33344444433332     257799999999864322110  


Q ss_pred             HH----HHHHHH---hcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         232 EE----AFHYSK---SIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       232 ~e----~~~~~~---~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..    ...+..   .+..+++.+||+++.|+++++++|.+.+.
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            00    011111   12236999999999999999999988654

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>KOG0705|consensus

Probab=98.52  E-value=2.3e-07  Score=99.68  Aligned_cols=150  Identities=25%  Similarity=0.407  Sum_probs=112.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      .++|||+|++|++.+.|.....|.-|  .+.+++.+++....+.+.|.+|..     ...|...+|++||||.+.+..+|
T Consensus        39 ~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~~-----~aQft~wvdavIfvf~~~d~~s~  111 (749)
T KOG0705|consen   39 SQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGHP-----DAQFCQWVDAVVFVFSVEDEQSF  111 (749)
T ss_pred             ccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCCc-----hhhhhhhccceEEEEEeccccCH
Confidence            99999999999999988665554433  356677788888899999998843     34577789999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCC--CccccCHHHHHHHH-HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLE--SSREVNREEAFHYS-KSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~--~~~~v~~~e~~~~~-~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +.+..+...+..+. ...+|+++|+++.-..  ..+.+...+..+++ ....+.+|+.+|.+|.+++..|..+..++...
T Consensus       112 q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k~i~~  191 (749)
T KOG0705|consen  112 QAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQKIVQL  191 (749)
T ss_pred             HHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHHHHHH
Confidence            98876555544332 2457889999875442  22334444454444 34456899999999999999999998877665


Q ss_pred             h
Q psy3029         271 S  271 (617)
Q Consensus       271 ~  271 (617)
                      .
T Consensus       192 ~  192 (749)
T KOG0705|consen  192 R  192 (749)
T ss_pred             H
Confidence            4

>KOG1144|consensus

Probab=98.51  E-value=2.7e-07  Score=102.07  Aligned_cols=164  Identities=21%  Similarity=0.251  Sum_probs=107.5

Q ss_pred             CCCCCCccccCCCCCCCCHHHHHHHHHcCCCCC----ccCCCcceeEEEEE--------EEECC----eEEEEEEEecCC
Q psy3029         101 NSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSH----HISPTIGASFFTAK--------INVGE----NKVKLQVWDTAG  164 (617)
Q Consensus       101 ~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~----~~~~t~g~~~~~~~--------i~~~~----~~~~l~i~Dt~G  164 (617)
                      ...+++..|||+|-.-.|||-|+..+.+.....    -....+|.+|....        +.-+.    .-=-+.++||||
T Consensus       470 ~~~lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpg  549 (1064)
T KOG1144|consen  470 TENLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPG  549 (1064)
T ss_pred             chhcCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCC
Confidence            346888889999999999999999997644321    12234555544322        00011    111377899999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCCh---hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc------cc------
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQY---HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR------EV------  229 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~---~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~------~v------  229 (617)
                      ++.|..++......||++|+|+|+.+.   .+.+.+    ..++   ..+.|+||.+||+|..-..      .+      
T Consensus       550 hEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi----~lLR---~rktpFivALNKiDRLYgwk~~p~~~i~~~lkk  622 (1064)
T KOG1144|consen  550 HESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESI----NLLR---MRKTPFIVALNKIDRLYGWKSCPNAPIVEALKK  622 (1064)
T ss_pred             chhhhhhhhccccccceEEEEeehhccCCcchhHHH----HHHH---hcCCCeEEeehhhhhhcccccCCCchHHHHHHH
Confidence            999999999999999999999999874   333332    2222   2457999999999963110      00      


Q ss_pred             -----C-------HHHHHHHHHh-cC-------------CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         230 -----N-------REEAFHYSKS-IG-------------GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       230 -----~-------~~e~~~~~~~-~g-------------~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                           .       ...+.+|+.+ ++             +.++++||.+|+||-+|+.+|++......
T Consensus       623 Q~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m  690 (1064)
T KOG1144|consen  623 QKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTM  690 (1064)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHH
Confidence                 0       0011122211 00             25689999999999999999988765544

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.48  E-value=1.3e-06  Score=102.17  Aligned_cols=106  Identities=17%  Similarity=0.132  Sum_probs=67.9

Q ss_pred             CCCCHHHHHHHHHcCCC--CCc---------cCC---CcceeEEE----EEEEECCeEEEEEEEecCCcccccccchhhh
Q psy3029         115 LGVGKTSMVVRYIGKMF--SHH---------ISP---TIGASFFT----AKINVGENKVKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~--~~~---------~~~---t~g~~~~~----~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      .++|||||+.+|+...-  ...         +.+   ..|.++..    ..+...+..+.+.|+||||+.+|.......+
T Consensus        29 ~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l  108 (731)
T PRK07560         29 IDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAM  108 (731)
T ss_pred             CCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCccChHHHHHHHH
Confidence            99999999999974210  000         000   01111111    1122344568899999999999888888889


Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      +.+|++|+|+|+..........-|. .+.+   ..+|+|+++||+|+.
T Consensus       109 ~~~D~avlVvda~~g~~~~t~~~~~-~~~~---~~~~~iv~iNK~D~~  152 (731)
T PRK07560        109 RAVDGAIVVVDAVEGVMPQTETVLR-QALR---ERVKPVLFINKVDRL  152 (731)
T ss_pred             HhcCEEEEEEECCCCCCccHHHHHH-HHHH---cCCCeEEEEECchhh
Confidence            9999999999987754332222222 2222   235778999999975

>KOG0410|consensus

Probab=98.47  E-value=1.2e-07  Score=96.32  Aligned_cols=151  Identities=17%  Similarity=0.115  Sum_probs=91.5

Q ss_pred             CccccCCCCCCCCHHHHHHHHHcCCCCCc--cCCCcceeEEEEEEEECCeEEEEEEEecCCccc---------ccccchh
Q psy3029         106 NCFEANWFWLGVGKTSMVVRYIGKMFSHH--ISPTIGASFFTAKINVGENKVKLQVWDTAGQER---------FRSMAPM  174 (617)
Q Consensus       106 ~~~~~i~G~~nVGKSSLinrl~~~~~~~~--~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~---------~~~~~~~  174 (617)
                      ...++++|+.|+|||||+++|+.......  ...|...+  .+..+... ...+.+.||-|...         |... -.
T Consensus       178 ~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT--~h~a~Lps-g~~vlltDTvGFisdLP~~LvaAF~AT-Le  253 (410)
T KOG0410|consen  178 SPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPT--LHSAHLPS-GNFVLLTDTVGFISDLPIQLVAAFQAT-LE  253 (410)
T ss_pred             CceEEEEeecCccHHHHHHHHHhhhcCccchhheeccch--hhhccCCC-CcEEEEeechhhhhhCcHHHHHHHHHH-HH
Confidence            34455556699999999999985433221  12233222  22233332 23577889998532         2221 22


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe----EEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcC
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV----LCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSA  250 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP----vIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSA  250 (617)
                      -+..+|++|-|.|+++|.--......+.-+....-.+.|    ++=|-||+|..+... .       .+.+  ..+.+||
T Consensus       254 eVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~-e-------~E~n--~~v~isa  323 (410)
T KOG0410|consen  254 EVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEV-E-------EEKN--LDVGISA  323 (410)
T ss_pred             HHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccC-c-------cccC--Ccccccc
Confidence            355899999999999997655555455555443322223    455678888743221 1       1122  2677999


Q ss_pred             CCCCCHHHHHHHHHHHHHHh
Q psy3029         251 LQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       251 ktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++|+|++++++.+-..+...
T Consensus       324 ltgdgl~el~~a~~~kv~~~  343 (410)
T KOG0410|consen  324 LTGDGLEELLKAEETKVASE  343 (410)
T ss_pred             ccCccHHHHHHHHHHHhhhh
Confidence            99999999999887766543

>smart00053 DYNc Dynamin, GTPase

Probab=98.43  E-value=1.3e-06  Score=87.90  Aligned_cols=69  Identities=17%  Similarity=0.118  Sum_probs=44.5

Q ss_pred             EEEEEEecCCccc-------------ccccchhhhc-cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         155 VKLQVWDTAGQER-------------FRSMAPMYYR-NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       155 ~~l~i~Dt~G~e~-------------~~~~~~~~~~-~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      ..|.++||||...             ...+...|++ ..+++++|+|++....-.+..++...+.   +...|+++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld---~~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVD---PQGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHH---HcCCcEEEEEEC
Confidence            4688999999742             2235667788 4569999999865332222222222222   244699999999


Q ss_pred             CCCCCc
Q psy3029         221 TDLESS  226 (617)
Q Consensus       221 ~DL~~~  226 (617)
                      +|....
T Consensus       202 ~D~~~~  207 (240)
T smart00053      202 LDLMDE  207 (240)
T ss_pred             CCCCCc
Confidence            998653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>KOG3886|consensus

Probab=98.43  E-value=3.8e-07  Score=88.71  Aligned_cols=141  Identities=23%  Similarity=0.333  Sum_probs=86.9

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC---CCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF---SHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~---~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      -||+++|+                      +|+||||+-..+..+..   ......|+.++  .-.+.+- +++.+.+||
T Consensus         5 kKvlLMGr----------------------sGsGKsSmrsiiF~ny~a~D~~rlg~tidve--Hsh~Rfl-Gnl~LnlwD   59 (295)
T KOG3886|consen    5 KKVLLMGR----------------------SGSGKSSMRSIIFANYIARDTRRLGATIDVE--HSHVRFL-GNLVLNLWD   59 (295)
T ss_pred             ceEEEecc----------------------CCCCccccchhhhhhhhhhhhhccCCcceee--ehhhhhh-hhheeehhc
Confidence            38999999                      99999998765553321   11222333322  2222222 357899999


Q ss_pred             cCCccccc-----ccchhhhccCCEEEEEEeCCChhhHHHH---HHHHHHHHhcCCCCCeEEEEEECCCCCCcc--ccCH
Q psy3029         162 TAGQERFR-----SMAPMYYRNANAALLVFDITQYHSFAAI---KTWVKELKRNVDEPLVLCVVGNKTDLESSR--EVNR  231 (617)
Q Consensus       162 t~G~e~~~-----~~~~~~~~~ad~iIlV~Dis~~~S~~~l---~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~--~v~~  231 (617)
                      .+|++.+-     ......+++.+++++|||+...+-..++   ++-|+.+.++.+. ..+++..+|.||....  +...
T Consensus        60 cGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~-AkiF~l~hKmDLv~~d~r~~if  138 (295)
T KOG3886|consen   60 CGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPE-AKIFCLLHKMDLVQEDARELIF  138 (295)
T ss_pred             cCCcHHHHHHHHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCc-ceEEEEEeechhcccchHHHHH
Confidence            99997432     2456678899999999999887643444   4445556666554 6789999999996432  2211


Q ss_pred             HH----HHHHHHhcCCeEEEEcCC
Q psy3029         232 EE----AFHYSKSIGGTYYETSAL  251 (617)
Q Consensus       232 ~e----~~~~~~~~g~~~~evSAk  251 (617)
                      ++    ...+.+..++.++.+|..
T Consensus       139 ~~r~~~l~~~s~~~~~~~f~Tsiw  162 (295)
T KOG3886|consen  139 QRRKEDLRRLSRPLECKCFPTSIW  162 (295)
T ss_pred             HHHHHHHHHhcccccccccccchh
Confidence            21    222233344567777654

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=98.42  E-value=1.4e-06  Score=82.49  Aligned_cols=63  Identities=21%  Similarity=0.228  Sum_probs=44.4

Q ss_pred             EEEEEecCCcc----cccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECC
Q psy3029         156 KLQVWDTAGQE----RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKT  221 (617)
Q Consensus       156 ~l~i~Dt~G~e----~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~  221 (617)
                      .+.|+||||..    ....++..|+..+|++|+|.++....+-.+...|........   ..+++|.||+
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~---~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDK---SRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTC---SSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCC---CeEEEEEcCC
Confidence            47899999973    234677888999999999999988665455554444443322   2488999985

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>KOG2486|consensus

Probab=98.41  E-value=5.6e-07  Score=89.99  Aligned_cols=150  Identities=15%  Similarity=0.074  Sum_probs=90.2

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCCCCCccCC-CcceeEEEEEEEECCeEEEEEEEecCCc----------ccccccchhh
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKMFSHHISP-TIGASFFTAKINVGENKVKLQVWDTAGQ----------ERFRSMAPMY  175 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~-t~g~~~~~~~i~~~~~~~~l~i~Dt~G~----------e~~~~~~~~~  175 (617)
                      .+++++|.+|||||||+|-++..+....... +.|.   ++.++...-...+.++|.+|.          +.+..+...|
T Consensus       137 pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~---Tq~in~f~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y  213 (320)
T KOG2486|consen  137 PELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGK---TQAINHFHVGKSWYEVDLPGYGRAGYGFELPADWDKFTKSY  213 (320)
T ss_pred             ceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCcc---ceeeeeeeccceEEEEecCCcccccCCccCcchHhHhHHHH
Confidence            3455556699999999999987655443333 5563   334444444557889999993          3455566666


Q ss_pred             hcc---CCEEEEEEeCCChhh-H-HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc----cCHHHHHH-------HHH
Q psy3029         176 YRN---ANAALLVFDITQYHS-F-AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE----VNREEAFH-------YSK  239 (617)
Q Consensus       176 ~~~---ad~iIlV~Dis~~~S-~-~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~----v~~~e~~~-------~~~  239 (617)
                      +.+   .-.+++++|++.+-. . .....|+.+      .++|..+|.||||....-.    -....+..       -+.
T Consensus       214 ~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge------~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f  287 (320)
T KOG2486|consen  214 LLERENLVRVFLLVDASVPIQPTDNPEIAWLGE------NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVF  287 (320)
T ss_pred             HHhhhhhheeeeeeeccCCCCCCChHHHHHHhh------cCCCeEEeeehhhhhhhccccccCccccceeehhhccccce
Confidence            653   334556667655421 1 122345443      4589999999999742211    00011111       111


Q ss_pred             hcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         240 SIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       240 ~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      ....+++.+|+.++.|+++|+-.|..
T Consensus       288 ~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  288 LVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             eccCCceeeecccccCceeeeeehhh
Confidence            22347888999999999998766543

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.37  E-value=7.9e-06  Score=86.90  Aligned_cols=149  Identities=16%  Similarity=0.083  Sum_probs=96.2

Q ss_pred             CCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      ---|||||+..+.+..-. .......|.+.+....+....+..+.|+|.+|++++-.-.-..+...|.++||+|.++.-.
T Consensus         9 idHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~   88 (447)
T COG3276           9 IDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLM   88 (447)
T ss_pred             eeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcc
Confidence            677999999999865421 1122334455555555555555689999999999876555555668999999999965432


Q ss_pred             HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc---CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         194 FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI---GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       194 ~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~---g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      -+..+ .+..+.. ... ...++|+||+|..++..+ .+...++....   ..++|.+|+++|+||++|.+.|.+..
T Consensus        89 ~qtgE-hL~iLdl-lgi-~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276          89 AQTGE-HLLILDL-LGI-KNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             hhhHH-HHHHHHh-cCC-CceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccccccCCCHHHHHHHHHHhh
Confidence            22211 1222222 222 246899999998764321 11222222222   34789999999999999999998866

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.36  E-value=9.9e-07  Score=104.40  Aligned_cols=68  Identities=21%  Similarity=0.199  Sum_probs=52.0

Q ss_pred             eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         153 NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      ..+.++++||||+.+|.......++.+|++|+|+|+.......... .+..+..   .++|+|+++||+|+.
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~-~~~~~~~---~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTET-VLRQALG---ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHH-HHHHHHH---CCCCEEEEEECCccc
Confidence            3678899999999999888888899999999999998764333222 2223322   347999999999986

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.36  E-value=6.1e-06  Score=86.53  Aligned_cols=41  Identities=10%  Similarity=-0.066  Sum_probs=30.9

Q ss_pred             CeEEEEEECCCCCCccc-cCHHHHHHHHHhcCCeEEEEcCCC
Q psy3029         212 LVLCVVGNKTDLESSRE-VNREEAFHYSKSIGGTYYETSALQ  252 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~-v~~~e~~~~~~~~g~~~~evSAkt  252 (617)
                      .|+++|+||.|...... -..+...+++...+.+++.+||+-
T Consensus       207 KP~lyvaN~~e~~~~~~n~~~~~i~~~~~~~~~~vV~~sA~~  248 (372)
T COG0012         207 KPMLYVANVSEDDLANLNEYVKRLKELAAKENAEVVPVSAAI  248 (372)
T ss_pred             CCeEEEEECCcccccchhHHHHHHHHHhhhcCCcEEEeeHHH
Confidence            89999999999764332 114556677788888999999874

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=98.36  E-value=3e-06  Score=87.65  Aligned_cols=139  Identities=17%  Similarity=0.206  Sum_probs=74.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCc----------cCCCcceeEEEEEEEECCe
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHH----------ISPTIGASFFTAKINVGEN  153 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~----------~~~t~g~~~~~~~i~~~~~  153 (617)
                      .++|+|+|.                      +|+|||||||.|++......          ...+..+......+.-++.
T Consensus         4 ~fnImVvG~----------------------sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~   61 (281)
T PF00735_consen    4 NFNIMVVGE----------------------SGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGV   61 (281)
T ss_dssp             EEEEEEEEC----------------------TTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCE
T ss_pred             eEEEEEECC----------------------CCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCc
Confidence            468899998                      99999999999997654222          1123333333444455677


Q ss_pred             EEEEEEEecCCccccc--------------ccchhhh-------------ccCCEEEEEEeCCChhhHHHHH-HHHHHHH
Q psy3029         154 KVKLQVWDTAGQERFR--------------SMAPMYY-------------RNANAALLVFDITQYHSFAAIK-TWVKELK  205 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~--------------~~~~~~~-------------~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~  205 (617)
                      .+.+.|+||+|.....              .....++             ...|++|++++.+.. .+..++ +.+..+.
T Consensus        62 ~l~LtiiDTpGfGd~i~n~~~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~-~L~~~Di~~mk~Ls  140 (281)
T PF00735_consen   62 KLNLTIIDTPGFGDNIDNSDCWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGH-GLKPLDIEFMKRLS  140 (281)
T ss_dssp             EEEEEEEEEC-CSSSSTHCHHHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSS-SS-HHHHHHHHHHT
T ss_pred             ceEEEEEeCCCccccccchhhhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCc-cchHHHHHHHHHhc
Confidence            8999999999942100              0001111             157899999997652 222322 2344443


Q ss_pred             hcCCCCCeEEEEEECCCCCCccccC--HHHHHHHHHhcCCeEEEEc
Q psy3029         206 RNVDEPLVLCVVGNKTDLESSREVN--REEAFHYSKSIGGTYYETS  249 (617)
Q Consensus       206 ~~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~~~~~~~g~~~~evS  249 (617)
                          ..+++|-|+.|+|.....+..  .+.+..-....++.+|...
T Consensus       141 ----~~vNvIPvIaKaD~lt~~el~~~k~~i~~~l~~~~I~~f~f~  182 (281)
T PF00735_consen  141 ----KRVNVIPVIAKADTLTPEELQAFKQRIREDLEENNIKIFDFP  182 (281)
T ss_dssp             ----TTSEEEEEESTGGGS-HHHHHHHHHHHHHHHHHTT--S----
T ss_pred             ----ccccEEeEEecccccCHHHHHHHHHHHHHHHHHcCceeeccc
Confidence                337899999999986543321  1223344455677666543

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>KOG0087|consensus

Probab=98.35  E-value=3.6e-07  Score=87.88  Aligned_cols=67  Identities=25%  Similarity=0.253  Sum_probs=58.5

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe--ecCCCceeeeccC
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL--RTGLKVSKIPVPT  396 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI--~~~~~~~~~~~~~  396 (617)
                      -||+++||+++||||-++.||..+.|.-...+|||++|.++++.+|++.|+.||  ++|+---|.-+++
T Consensus        14 lFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSa   82 (222)
T KOG0087|consen   14 LFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSA   82 (222)
T ss_pred             EEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccch
Confidence            378899999999999999999999999999999999999999999999999997  4566655544433

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.35  E-value=9.7e-07  Score=93.09  Aligned_cols=170  Identities=20%  Similarity=0.158  Sum_probs=102.7

Q ss_pred             ecCCc-ccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHH-HH
Q psy3029         161 DTAGQ-ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH-YS  238 (617)
Q Consensus       161 Dt~G~-e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~-~~  238 (617)
                      +.+|+ .++.......+..+|+|+.|+|+.+|.+...     ..+.+.... .|.++|+||+||.+...  .++..+ +.
T Consensus        16 ~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~-----~~l~~~v~~-k~~i~vlNK~DL~~~~~--~~~W~~~~~   87 (322)
T COG1161          16 WFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRN-----PELERIVKE-KPKLLVLNKADLAPKEV--TKKWKKYFK   87 (322)
T ss_pred             CCCCchHHHHHHHHHhcccCCEEEEEEeccccccccC-----ccHHHHHcc-CCcEEEEehhhcCCHHH--HHHHHHHHH
Confidence            33554 4566677888899999999999999875432     222222222 35699999999976433  233333 33


Q ss_pred             HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhhee
Q psy3029         239 KSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKF  318 (617)
Q Consensus       239 ~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~  318 (617)
                      .+.+...+.++++++.+...+...+............                               .........++.
T Consensus        88 ~~~~~~~~~v~~~~~~~~~~i~~~~~~~~~~~i~~~~-------------------------------~~~~~~~~~~v~  136 (322)
T COG1161          88 KEEGIKPIFVSAKSRQGGKKIRKALEKLSEEKIKRLK-------------------------------KKGLLKRKIRVG  136 (322)
T ss_pred             hcCCCccEEEEeecccCccchHHHHHHHHHHHHHHHh-------------------------------hcCCCccceEEE
Confidence            3446778889999998888777544432211110000                               011112245678


Q ss_pred             eeccCCCCCCCcceeeeeeecccccccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         319 VVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       319 ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      +||-|                +||||+++++++...- .+...|++....  ..|.++.. +.|--+||..
T Consensus       137 vvG~P----------------NVGKSslIN~L~~k~~~~~s~~PG~Tk~~--q~i~~~~~-i~LlDtPGii  188 (322)
T COG1161         137 VVGYP----------------NVGKSTLINRLLGKKVAKTSNRPGTTKGI--QWIKLDDG-IYLLDTPGII  188 (322)
T ss_pred             EEcCC----------------CCcHHHHHHHHhcccceeeCCCCceecce--EEEEcCCC-eEEecCCCcC
Confidence            88877                9999999999997654 444456444333  44555555 3333355553

>PTZ00416 elongation factor 2; Provisional

Probab=98.35  E-value=1.5e-06  Score=102.84  Aligned_cols=67  Identities=21%  Similarity=0.223  Sum_probs=51.3

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      ...+.|+||||+.+|.......++.+|++|+|+|+......... ..+..+..   .++|+|+++||+|+.
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHHH---cCCCEEEEEEChhhh
Confidence            57799999999998887778889999999999998875433322 22333333   347999999999985

>KOG1532|consensus

Probab=98.33  E-value=6.2e-06  Score=82.34  Aligned_cols=113  Identities=20%  Similarity=0.191  Sum_probs=66.5

Q ss_pred             EEEEEEEecCCccccc------ccchhhhc--cCCEEEEEEeCCC---hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         154 KVKLQVWDTAGQERFR------SMAPMYYR--NANAALLVFDITQ---YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~------~~~~~~~~--~ad~iIlV~Dis~---~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      .....++||||+.+..      .++-..+.  .--++++|+|...   +.+|-.  ..+-...-....++|.|+|.||+|
T Consensus       115 ~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMS--NMlYAcSilyktklp~ivvfNK~D  192 (366)
T KOG1532|consen  115 EFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMS--NMLYACSILYKTKLPFIVVFNKTD  192 (366)
T ss_pred             ccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHH--HHHHHHHHHHhccCCeEEEEeccc
Confidence            3468899999985321      12222222  3457778888543   333432  222222222235589999999999


Q ss_pred             CCCccc----cC----HHHHH--------------------HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         223 LESSRE----VN----REEAF--------------------HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       223 L~~~~~----v~----~~e~~--------------------~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +.+..-    ..    .+++.                    +|+  .++..+-|||.+|.|.+++|..+...+.+.
T Consensus       193 v~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY--~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  193 VSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFY--RSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHH--hhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            965311    00    01111                    111  135789999999999999999998766554

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.32  E-value=4.7e-06  Score=93.09  Aligned_cols=109  Identities=15%  Similarity=0.127  Sum_probs=63.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEE-EEEEEECCeEEEEEEEecCCccccc-------c---cchhhhc--cCCE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFF-TAKINVGENKVKLQVWDTAGQERFR-------S---MAPMYYR--NANA  181 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~-~~~i~~~~~~~~l~i~Dt~G~e~~~-------~---~~~~~~~--~ad~  181 (617)
                      +|||||||+|.|++...........+.+.. ......+  ...+.|+||||.....       .   .+..+++  ..|+
T Consensus       127 TGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~id--G~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDV  204 (763)
T TIGR00993       127 SGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQ--GVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDI  204 (763)
T ss_pred             CCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEEC--CceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCE
Confidence            999999999999987532221111222211 1122223  3568999999975421       1   1222434  4899


Q ss_pred             EEEEEeCCChhhHHHHHHHHHHHHhcCCCC--CeEEEEEECCCCCC
Q psy3029         182 ALLVFDITQYHSFAAIKTWVKELKRNVDEP--LVLCVVGNKTDLES  225 (617)
Q Consensus       182 iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~--iPvIlVgNK~DL~~  225 (617)
                      +|+|..+........-..++..|.+.+...  .-+|||.|+.|...
T Consensus       205 VLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       205 VLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             EEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            999988754322212224566665554421  25799999999864

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>KOG0458|consensus

Probab=98.30  E-value=5.7e-06  Score=90.33  Aligned_cols=143  Identities=20%  Similarity=0.187  Sum_probs=93.1

Q ss_pred             CCCCHHHHHHHHHcC--------------------CCC---------CccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGK--------------------MFS---------HHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--------------------~~~---------~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      ..+|||||+-+++..                    +..         .....-.|++.......++-....+.|+|+||+
T Consensus       186 VdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~~~~~tliDaPGh  265 (603)
T KOG0458|consen  186 VDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESKSKIVTLIDAPGH  265 (603)
T ss_pred             cccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecCceeEEEecCCCc
Confidence            999999999998632                    000         012234566677777777777788999999998


Q ss_pred             ccccccchhhhccCCEEEEEEeCCChh---hHHH---HHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH----H
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYH---SFAA---IKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA----F  235 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~~~---l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~----~  235 (617)
                      ..|..-.-.-...+|+++||+|++-..   +|+.   ..+.. .+.+...- ..+||++||+|+.+-.+-..+++    .
T Consensus       266 kdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha-~llr~Lgi-~qlivaiNKmD~V~Wsq~RF~eIk~~l~  343 (603)
T KOG0458|consen  266 KDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHA-LLLRSLGI-SQLIVAINKMDLVSWSQDRFEEIKNKLS  343 (603)
T ss_pred             cccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHH-HHHHHcCc-ceEEEEeecccccCccHHHHHHHHHHHH
Confidence            877654444556899999999987643   2331   12222 22333332 36899999999976443333332    2


Q ss_pred             HHH-HhcC-----CeEEEEcCCCCCCHHHH
Q psy3029         236 HYS-KSIG-----GTYYETSALQDQGIEDV  259 (617)
Q Consensus       236 ~~~-~~~g-----~~~~evSAktg~gI~eL  259 (617)
                      .|. +..|     +.|++||+.+|+|+-..
T Consensus       344 ~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  344 SFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             HHHHHhcCcccCCcceEecccccCCccccc
Confidence            334 3344     37999999999997544

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.29  E-value=9.4e-07  Score=90.86  Aligned_cols=55  Identities=15%  Similarity=0.114  Sum_probs=39.6

Q ss_pred             CeEEEEEECCCCCCccccCHHHHHHHHHhc--CCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         212 LVLCVVGNKTDLESSREVNREEAFHYSKSI--GGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~--g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      ..-++|+||+|+........+...+.++..  ..+++.+||++|+|+++++++|..+
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            355899999999753222233344444443  4689999999999999999999764

>KOG0086|consensus

Probab=98.29  E-value=4.1e-07  Score=82.64  Aligned_cols=55  Identities=31%  Similarity=0.362  Sum_probs=51.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|.+++|+++.||||++++|+++.|.+....|||++|.++.|.++++.|+|||-.
T Consensus        10 fKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWD   64 (214)
T KOG0086|consen   10 FKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWD   64 (214)
T ss_pred             heeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEee
Confidence            6788889999999999999999999999999999999999999999999999853

>cd00066 G-alpha G protein alpha subunit

Probab=98.26  E-value=1.2e-05  Score=84.76  Aligned_cols=118  Identities=18%  Similarity=0.182  Sum_probs=80.8

Q ss_pred             eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh----------hhHHHHHHHHHHHHhcC-CCCCeEEEEEECC
Q psy3029         153 NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY----------HSFAAIKTWVKELKRNV-DEPLVLCVVGNKT  221 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~----------~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~  221 (617)
                      ..+.+.+||++|+...+..|..++.+++++|||+|+++.          ..+.+....+..+.... -.++|++|++||.
T Consensus       159 ~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~  238 (317)
T cd00066         159 KNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKK  238 (317)
T ss_pred             cceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccCh
Confidence            468899999999999999999999999999999999874          12333333333333221 1457999999999


Q ss_pred             CCCCcc----------------ccCHHHHHHHHHh----------cCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         222 DLESSR----------------EVNREEAFHYSKS----------IGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       222 DL~~~~----------------~v~~~e~~~~~~~----------~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      |+..++                .-..+.+..|...          ..+-++.++|..-.++..+|+.+.+.+...
T Consensus       239 D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         239 DLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             HHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence            973211                1223444433321          123456788888899999998888877653

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>KOG0461|consensus

Probab=98.26  E-value=6.5e-06  Score=84.34  Aligned_cols=158  Identities=18%  Similarity=0.230  Sum_probs=91.6

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC----CCCCccC-CCcceeE----EEEEEEE---
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK----MFSHHIS-PTIGASF----FTAKINV---  150 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~----~~~~~~~-~t~g~~~----~~~~i~~---  150 (617)
                      .++++.++|-                      --+|||||..+|..-    .|..... .+.|.+.    ....+..   
T Consensus         6 ~n~N~GiLGH----------------------vDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~par   63 (522)
T KOG0461|consen    6 SNLNLGILGH----------------------VDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPAR   63 (522)
T ss_pred             ceeeeeeEee----------------------ccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccc
Confidence            3467888888                      899999999999632    2222211 1122221    1111111   


Q ss_pred             --CCeEEEEEEEecCCcccccccchhhhc---cCCEEEEEEeCCChhhHHHHHH-HHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         151 --GENKVKLQVWDTAGQERFRSMAPMYYR---NANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       151 --~~~~~~l~i~Dt~G~e~~~~~~~~~~~---~ad~iIlV~Dis~~~S~~~l~~-~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                        .+....+.++|+||+..   +++..+-   -.|..++|+|+.....-+..+- .+.++.  +   ...|||+||+|+.
T Consensus        64 Lpq~e~lq~tlvDCPGHas---LIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~--c---~klvvvinkid~l  135 (522)
T KOG0461|consen   64 LPQGEQLQFTLVDCPGHAS---LIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL--C---KKLVVVINKIDVL  135 (522)
T ss_pred             cCccccceeEEEeCCCcHH---HHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhh--c---cceEEEEeccccc
Confidence              34567899999999854   3444443   4688899999876432121111 122221  1   2467889999986


Q ss_pred             Ccccc--CH-HHHHHHHHhc-------CCeEEEEcCCCC----CCHHHHHHHHHHHHHHh
Q psy3029         225 SSREV--NR-EEAFHYSKSI-------GGTYYETSALQD----QGIEDVFLNVSKGLICL  270 (617)
Q Consensus       225 ~~~~v--~~-~e~~~~~~~~-------g~~~~evSAktg----~gI~eLf~~I~~~l~~~  270 (617)
                      .+.+-  .. +...++.+.+       +.|++++||+.|    ++|.+|.+.|...+...
T Consensus       136 pE~qr~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P  195 (522)
T KOG0461|consen  136 PENQRASKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEP  195 (522)
T ss_pred             cchhhhhHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCC
Confidence            54221  11 1122222221       258999999999    77888877777766543

>KOG0093|consensus

Probab=98.24  E-value=9.2e-07  Score=80.03  Aligned_cols=57  Identities=25%  Similarity=0.263  Sum_probs=52.7

Q ss_pred             CCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         328 VPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       328 ~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .-.+|+.++|.++|||++++.||++++|...|..|+|++|..|+|.-.++.|+|||-
T Consensus        19 DymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiw   75 (193)
T KOG0093|consen   19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIW   75 (193)
T ss_pred             cceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEE
Confidence            334688889999999999999999999999999999999999999999999999984

>smart00275 G_alpha G protein alpha subunit

Probab=98.22  E-value=2e-05  Score=83.87  Aligned_cols=132  Identities=19%  Similarity=0.158  Sum_probs=87.4

Q ss_pred             cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh----------hHHHHHHHHHHH
Q psy3029         135 ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH----------SFAAIKTWVKEL  204 (617)
Q Consensus       135 ~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~----------S~~~l~~~l~~i  204 (617)
                      ..||.|+.....  .+  ..+.+.+||.+|+...+..|..++.+++++|||+|+++..          .+.+....+..+
T Consensus       168 r~~T~Gi~~~~f--~~--~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l  243 (342)
T smart00275      168 RVPTTGIQETAF--IV--KKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESI  243 (342)
T ss_pred             eCCccceEEEEE--EE--CCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHH
Confidence            346777653332  22  4577899999999988999999999999999999999732          233333334443


Q ss_pred             Hhc-CCCCCeEEEEEECCCCCCcc---------------ccCHHHHHHHHHh-----------cCCeEEEEcCCCCCCHH
Q psy3029         205 KRN-VDEPLVLCVVGNKTDLESSR---------------EVNREEAFHYSKS-----------IGGTYYETSALQDQGIE  257 (617)
Q Consensus       205 ~~~-~~~~iPvIlVgNK~DL~~~~---------------~v~~~e~~~~~~~-----------~g~~~~evSAktg~gI~  257 (617)
                      ... .-.++|++|++||.|+..+.               ....+.+..|...           ..+-++.++|.+-.++.
T Consensus       244 ~~~~~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~  323 (342)
T smart00275      244 CNSRWFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIR  323 (342)
T ss_pred             HcCccccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHH
Confidence            332 12458999999999984221               0123333333221           11345678899999999


Q ss_pred             HHHHHHHHHHHHh
Q psy3029         258 DVFLNVSKGLICL  270 (617)
Q Consensus       258 eLf~~I~~~l~~~  270 (617)
                      .+|+.+...+...
T Consensus       324 ~v~~~v~~~I~~~  336 (342)
T smart00275      324 VVFDAVKDIILQR  336 (342)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999888777654

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG1547|consensus

Probab=98.01  E-value=5.2e-05  Score=74.41  Aligned_cols=130  Identities=22%  Similarity=0.265  Sum_probs=73.4

Q ss_pred             CCCCHHHHHHHHHcCCCCC---------ccCCCcceeEEEEEEEECCeEEEEEEEecCCccc-------------c-ccc
Q psy3029         115 LGVGKTSMVVRYIGKMFSH---------HISPTIGASFFTAKINVGENKVKLQVWDTAGQER-------------F-RSM  171 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~---------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~-------------~-~~~  171 (617)
                      +|.|||||+|.+.......         .+..|..+...+..+.-++-..++.++||||.-+             | +.+
T Consensus        55 SglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncWePI~kyIneQ  134 (336)
T KOG1547|consen   55 SGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCWEPIEKYINEQ  134 (336)
T ss_pred             CCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchhHHHHHHHHHH
Confidence            9999999999986433211         1223333333334444466778999999999521             1 122


Q ss_pred             chhhhc--------------cCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCC--ccccCHHHH
Q psy3029         172 APMYYR--------------NANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLES--SREVNREEA  234 (617)
Q Consensus       172 ~~~~~~--------------~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~--~~~v~~~e~  234 (617)
                      ...|++              .++++++.+..+. .++..++ ++++.+.+.    +.||-|+-|+|-..  ++..-.+.+
T Consensus       135 ye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~v----vNvvPVIakaDtlTleEr~~FkqrI  209 (336)
T KOG1547|consen  135 YEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTEV----VNVVPVIAKADTLTLEERSAFKQRI  209 (336)
T ss_pred             HHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhhh----heeeeeEeecccccHHHHHHHHHHH
Confidence            223332              4778888887654 3455444 344444332    45677889999642  222223344


Q ss_pred             HHHHHhcCCeEEEEc
Q psy3029         235 FHYSKSIGGTYYETS  249 (617)
Q Consensus       235 ~~~~~~~g~~~~evS  249 (617)
                      ++-...+++.++.--
T Consensus       210 ~~el~~~~i~vYPq~  224 (336)
T KOG1547|consen  210 RKELEKHGIDVYPQD  224 (336)
T ss_pred             HHHHHhcCccccccc
Confidence            445556677666443

>cd04128 Spg1 Spg1p

Probab=98.01  E-value=5.7e-06  Score=80.01  Aligned_cols=53  Identities=21%  Similarity=0.344  Sum_probs=48.7

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|..+||||+++.+|+.+.|...|.||+|.+|..+.+.++++.++|+|-
T Consensus         2 Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iw   54 (182)
T cd04128           2 KIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIW   54 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEE
Confidence            56777777999999999999999999999999999999999999999999975

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=98.00  E-value=4.7e-05  Score=73.06  Aligned_cols=53  Identities=19%  Similarity=0.155  Sum_probs=41.8

Q ss_pred             EEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         215 CVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       215 IlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++|+||.||.+.-..+.+...+-+++.+  .+++++|+++|+|++++++++....
T Consensus       146 llVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         146 LLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             EEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            6899999997665555565555565554  5999999999999999999987643

>KOG0097|consensus

Probab=98.00  E-value=3.9e-06  Score=75.25  Aligned_cols=55  Identities=31%  Similarity=0.338  Sum_probs=51.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ||-.+||+.+|||||++++|.++.|...-..|||+.|.++.|++-|+.++|||-.
T Consensus        12 fkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwd   66 (215)
T KOG0097|consen   12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWD   66 (215)
T ss_pred             EEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEee
Confidence            5667889999999999999999999998889999999999999999999999854

>KOG0083|consensus

Probab=97.99  E-value=4e-06  Score=74.58  Aligned_cols=52  Identities=27%  Similarity=0.349  Sum_probs=47.1

Q ss_pred             eeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         334 ANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       334 ~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +++|++++||+|++.||-.+.|. ..+.+|+|.||..|.+.++++.|+|||-.
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwd   53 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWD   53 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEee
Confidence            46788999999999999999885 56799999999999999999999999853

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.98  E-value=1.3e-05  Score=74.08  Aligned_cols=53  Identities=23%  Similarity=0.241  Sum_probs=38.9

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      ++++|.+|||||||+|+|++.... ......|.+.....+.+++   .+.||||||.
T Consensus        86 ~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          86 IGLVGYPNVGKSSLINALVGKKKV-SVSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEECCCCCCHHHHHHHHhCCCce-eeCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            444444999999999999987753 4555666666666666654   4799999996

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>KOG2655|consensus

Probab=97.98  E-value=9.7e-05  Score=77.75  Aligned_cols=133  Identities=19%  Similarity=0.226  Sum_probs=77.3

Q ss_pred             CCCCHHHHHHHHHcCCCCC---------ccCCCcceeEEEEEEEECCeEEEEEEEecCCccc-------c-------ccc
Q psy3029         115 LGVGKTSMVVRYIGKMFSH---------HISPTIGASFFTAKINVGENKVKLQVWDTAGQER-------F-------RSM  171 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~---------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~-------~-------~~~  171 (617)
                      +|.|||||+|.|+...+..         ....+..+......+.-++-.+.+.++||||.-+       |       ...
T Consensus        30 sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~pi~~yi~~q  109 (366)
T KOG2655|consen   30 SGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWRPIVNYIDSQ  109 (366)
T ss_pred             CCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccchhhhHHHHHH
Confidence            9999999999998764432         1223444444444444467788999999998521       0       011


Q ss_pred             chhh-----------hc--cCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccccC--HHHHH
Q psy3029         172 APMY-----------YR--NANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSREVN--REEAF  235 (617)
Q Consensus       172 ~~~~-----------~~--~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~  235 (617)
                      .+.|           +.  .++++|+.+..+.. .+..++ ..+..+.    ..+.+|-|+-|+|.....+..  .+.+.
T Consensus       110 ~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~Di~~Mk~l~----~~vNiIPVI~KaD~lT~~El~~~K~~I~  184 (366)
T KOG2655|consen  110 FDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLDIEFMKKLS----KKVNLIPVIAKADTLTKDELNQFKKRIR  184 (366)
T ss_pred             HHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhhHHHHHHHh----ccccccceeeccccCCHHHHHHHHHHHH
Confidence            1122           22  57899999886542 233333 2223332    336778888999986543321  23344


Q ss_pred             HHHHhcCCeEEEEcCCC
Q psy3029         236 HYSKSIGGTYYETSALQ  252 (617)
Q Consensus       236 ~~~~~~g~~~~evSAkt  252 (617)
                      +.....++++|....-.
T Consensus       185 ~~i~~~nI~vf~fp~~~  201 (366)
T KOG2655|consen  185 QDIEEHNIKVFDFPTDE  201 (366)
T ss_pred             HHHHHcCcceecCCCCc
Confidence            45556667666554443

>cd01858 NGP_1 NGP-1

Probab=97.97  E-value=1.8e-05  Score=74.52  Aligned_cols=47  Identities=21%  Similarity=0.295  Sum_probs=34.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      ||||||||+|+|.+.. .....++.|.+.....+....   .+.++||||.
T Consensus       111 ~nvGKStliN~l~~~~-~~~~~~~~g~T~~~~~~~~~~---~~~liDtPGi  157 (157)
T cd01858         111 PNVGKSSIINTLRSKK-VCKVAPIPGETKVWQYITLMK---RIYLIDCPGV  157 (157)
T ss_pred             CCCChHHHHHHHhcCC-ceeeCCCCCeeEeEEEEEcCC---CEEEEECcCC
Confidence            9999999999999876 445566777766554444332   3779999994

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=97.97  E-value=5.1e-05  Score=79.23  Aligned_cols=128  Identities=22%  Similarity=0.286  Sum_probs=77.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCc----------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccc--------------cc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHH----------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERF--------------RS  170 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~----------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~--------------~~  170 (617)
                      .|.|||||+|.|++......          ..+++.+......+.-++..+.+.++||+|.-++              ..
T Consensus        32 sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~we~I~~yI~~  111 (373)
T COG5019          32 SGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDD  111 (373)
T ss_pred             CCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccHHHHHHHHHH
Confidence            99999999999987633211          3355555555555555777899999999995211              11


Q ss_pred             cchhhhc--------------cCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCcccc--CHHH
Q psy3029         171 MAPMYYR--------------NANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSREV--NREE  233 (617)
Q Consensus       171 ~~~~~~~--------------~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v--~~~e  233 (617)
                      +.+.|+.              .++++|+.+-.+. ..+..++ +.+..+..    .+-+|-|+-|+|.....+.  ..+.
T Consensus       112 q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptg-h~l~~~DIe~Mk~ls~----~vNlIPVI~KaD~lT~~El~~~K~~  186 (373)
T COG5019         112 QFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTG-HGLKPLDIEAMKRLSK----RVNLIPVIAKADTLTDDELAEFKER  186 (373)
T ss_pred             HHHHHHHHhhccccccccccCceEEEEEEecCCC-CCCCHHHHHHHHHHhc----ccCeeeeeeccccCCHHHHHHHHHH
Confidence            1222221              4789999887654 2333333 23333333    2567778899998654332  1234


Q ss_pred             HHHHHHhcCCeEEE
Q psy3029         234 AFHYSKSIGGTYYE  247 (617)
Q Consensus       234 ~~~~~~~~g~~~~e  247 (617)
                      +.+....+++++|.
T Consensus       187 I~~~i~~~nI~vf~  200 (373)
T COG5019         187 IREDLEQYNIPVFD  200 (373)
T ss_pred             HHHHHHHhCCceeC
Confidence            44555666777773

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.93  E-value=2e-05  Score=75.61  Aligned_cols=47  Identities=19%  Similarity=0.336  Sum_probs=36.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      ||||||||+|+|.+.. .....+.+|.+.....+.++.   .+.++||||.
T Consensus       126 pnvGKSslin~l~~~~-~~~~~~~pg~T~~~~~~~~~~---~~~l~DtPGi  172 (172)
T cd04178         126 PNVGKSSLINSLKRSR-ACNVGATPGVTKSMQEVHLDK---KVKLLDSPGI  172 (172)
T ss_pred             CCCCHHHHHHHHhCcc-cceecCCCCeEcceEEEEeCC---CEEEEECcCC
Confidence            9999999999999876 345567778877665555432   4789999984

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>KOG1487|consensus

Probab=97.91  E-value=2.2e-05  Score=77.76  Aligned_cols=153  Identities=16%  Similarity=0.043  Sum_probs=90.6

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc-------cccchhhhccC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF-------RSMAPMYYRNA  179 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~-------~~~~~~~~~~a  179 (617)
                      .+|.++|+|.||||||+..+++-..  ....-.+.+..+..-.+..+.-++++.|.||..+-       ..+.-...+.|
T Consensus        60 a~vg~vgFPSvGksTl~~~l~g~~s--~vasyefttl~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg~qviavartc  137 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKLTGTFS--EVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAVARTC  137 (358)
T ss_pred             eeeeEEecCccchhhhhhhhcCCCC--ccccccceeEEEecceEeccccceeeecCcchhcccccCCCCccEEEEEeecc
Confidence            5788889999999999999987532  11111121211211112223457999999986321       11222345579


Q ss_pred             CEEEEEEeCCChhhHHHH-HHHHHHHHhcC---C----------------------------------------------
Q psy3029         180 NAALLVFDITQYHSFAAI-KTWVKELKRNV---D----------------------------------------------  209 (617)
Q Consensus       180 d~iIlV~Dis~~~S~~~l-~~~l~~i~~~~---~----------------------------------------------  209 (617)
                      +++++|.|+-.|-+-..+ ++-++.+--..   +                                              
T Consensus       138 nli~~vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rsil~eyR~hsAdi~Lr~DaT  217 (358)
T KOG1487|consen  138 NLIFIVLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRSILSEYRIHSADIALRFDAT  217 (358)
T ss_pred             cEEEEEeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHHHHHHhhhcchheeeecCcc
Confidence            999999998876553332 12221110000   0                                              


Q ss_pred             ------------CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         210 ------------EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       210 ------------~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                                  .-+|.+.+.||+|-..     .++..-+++  ....+.+||.++.|++++++.+.+.+.
T Consensus       218 ~DdLIdvVegnr~yVp~iyvLNkIdsIS-----iEELdii~~--iphavpISA~~~wn~d~lL~~mweyL~  281 (358)
T KOG1487|consen  218 ADDLIDVVEGNRIYVPCIYVLNKIDSIS-----IEELDIIYT--IPHAVPISAHTGWNFDKLLEKMWEYLK  281 (358)
T ss_pred             hhhhhhhhccCceeeeeeeeecccceee-----eeccceeee--ccceeecccccccchHHHHHHHhhcch
Confidence                        0178888899998643     222211111  125789999999999999998877653

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.91  E-value=9.1e-05  Score=75.48  Aligned_cols=107  Identities=18%  Similarity=0.178  Sum_probs=63.4

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      +.+.|+.|.|.-+-.   -....-+|.+++|.-..-.+..+-++.   .+.+..     =|+|+||.|...... ...+.
T Consensus       144 ~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~---GimEia-----Di~vINKaD~~~A~~-a~r~l  211 (323)
T COG1703         144 YDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKA---GIMEIA-----DIIVINKADRKGAEK-AAREL  211 (323)
T ss_pred             CCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHh---hhhhhh-----heeeEeccChhhHHH-HHHHH
Confidence            456777776642211   112345888888886655555555553   222222     178999999643211 11111


Q ss_pred             ---HHHH----Hh--cCCeEEEEcCCCCCCHHHHHHHHHHHHHHhhhc
Q psy3029         235 ---FHYS----KS--IGGTYYETSALQDQGIEDVFLNVSKGLICLSQE  273 (617)
Q Consensus       235 ---~~~~----~~--~g~~~~evSAktg~gI~eLf~~I~~~l~~~~~~  273 (617)
                         ..+.    ..  +.-+++.+||.+|+|+++|++.|.+........
T Consensus       212 ~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~s  259 (323)
T COG1703         212 RSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTES  259 (323)
T ss_pred             HHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHhc
Confidence               1111    11  123899999999999999999998877655433

>cd04120 Rab12 Rab12 subfamily

Probab=97.90  E-value=1.1e-05  Score=79.56  Aligned_cols=52  Identities=25%  Similarity=0.372  Sum_probs=47.4

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..+|||||++.||..+.|...|.||+|.+|..+.+.++++.++|+|-
T Consensus         3 vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iw   54 (202)
T cd04120           3 VIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIW   54 (202)
T ss_pred             EEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEE
Confidence            4566777999999999999999999999999999999999999999999875

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=97.90  E-value=1.2e-05  Score=76.67  Aligned_cols=54  Identities=26%  Similarity=0.290  Sum_probs=48.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ||++++|..++|||+++++|+.+.|...|.||+|.+|..+.+.+++..+.|+|-
T Consensus         1 ~ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   54 (170)
T cd04108           1 SKVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLW   54 (170)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEE
Confidence            467777777999999999999999999999999999988999999988888863

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>KOG0468|consensus

Probab=97.89  E-value=5e-05  Score=83.73  Aligned_cols=107  Identities=20%  Similarity=0.257  Sum_probs=73.5

Q ss_pred             CCCCCCHHHHHHHHHcCCCCCc---------cC------CCcceeEEEEEEEE-----CCeEEEEEEEecCCcccccccc
Q psy3029         113 FWLGVGKTSMVVRYIGKMFSHH---------IS------PTIGASFFTAKINV-----GENKVKLQVWDTAGQERFRSMA  172 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~~~~~---------~~------~t~g~~~~~~~i~~-----~~~~~~l~i~Dt~G~e~~~~~~  172 (617)
                      |.-+.|||+|+.-|..+....-         |.      ...|..+......+     .++.+-++++||+|+-.|....
T Consensus       135 GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTPGHVnF~DE~  214 (971)
T KOG0468|consen  135 GHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTPGHVNFSDET  214 (971)
T ss_pred             eccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCCCcccchHHH
Confidence            3499999999999976543221         11      11222222222221     4567889999999999888878


Q ss_pred             hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCC
Q psy3029         173 PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL  223 (617)
Q Consensus       173 ~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL  223 (617)
                      -..++-+|++++|+|+.+.-.+.. .+.++...   ....|+++|+||+|.
T Consensus       215 ta~l~~sDgvVlvvDv~EGVmlnt-Er~ikhai---q~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  215 TASLRLSDGVVLVVDVAEGVMLNT-ERIIKHAI---QNRLPIVVVINKVDR  261 (971)
T ss_pred             HHHhhhcceEEEEEEcccCceeeH-HHHHHHHH---hccCcEEEEEehhHH
Confidence            888999999999999988766543 22233322   245799999999996

>cd04131 Rnd Rnd subfamily

Probab=97.86  E-value=1.4e-05  Score=77.05  Aligned_cols=53  Identities=21%  Similarity=0.344  Sum_probs=47.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+||||+++.+|..+.|...|.||++.+| .+.+.++++.++|+|-
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iw   54 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLW   54 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEE
Confidence            5677888889999999999999999999999999888 5789999999999875

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=97.83  E-value=0.00016  Score=83.09  Aligned_cols=107  Identities=18%  Similarity=0.187  Sum_probs=75.7

Q ss_pred             CCCCHHHHHHHHHcC--CCCC--c------------cCCCcceeEEEEEEEECCe-EEEEEEEecCCcccccccchhhhc
Q psy3029         115 LGVGKTSMVVRYIGK--MFSH--H------------ISPTIGASFFTAKINVGEN-KVKLQVWDTAGQERFRSMAPMYYR  177 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--~~~~--~------------~~~t~g~~~~~~~i~~~~~-~~~l~i~Dt~G~e~~~~~~~~~~~  177 (617)
                      -..|||||..+++-.  ....  .            .....|+++......+... .+.++++||||+-+|.......++
T Consensus        19 idaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGHVDFt~EV~rslr   98 (697)
T COG0480          19 IDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLR   98 (697)
T ss_pred             cCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCccccHHHHHHHHH
Confidence            899999999999621  1110  1            1123455555555555555 589999999999999999999999


Q ss_pred             cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       178 ~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      -+|++|+|+|+...-..+.-.-|... .   ...+|.++++||+|...
T Consensus        99 vlDgavvVvdaveGV~~QTEtv~rqa-~---~~~vp~i~fiNKmDR~~  142 (697)
T COG0480          99 VLDGAVVVVDAVEGVEPQTETVWRQA-D---KYGVPRILFVNKMDRLG  142 (697)
T ss_pred             hhcceEEEEECCCCeeecHHHHHHHH-h---hcCCCeEEEEECccccc
Confidence            99999999999876443332233332 2   24589999999999753

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=97.83  E-value=1.6e-05  Score=77.02  Aligned_cols=53  Identities=21%  Similarity=0.314  Sum_probs=47.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+|||||++.+|+.+.|...|.||++.+| .+.+.++++.++|+|-
T Consensus         6 ~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iw   58 (182)
T cd04172           6 CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLW   58 (182)
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEE
Confidence            5666777779999999999999999999999999888 6889999999999975

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=97.83  E-value=1.6e-05  Score=80.05  Aligned_cols=55  Identities=24%  Similarity=0.273  Sum_probs=48.8

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ..+|++++|..+||||+++.+|+.+.|...|.||||.+| .+.+.++++.++|+|-
T Consensus        12 ~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~-~~~i~~~~~~v~l~iw   66 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TAGLETEEQRVELSLW   66 (232)
T ss_pred             eeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeee-EEEEEECCEEEEEEEE
Confidence            346777778889999999999999999999999999998 5679999999999875

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd01856 YlqF YlqF

Probab=97.82  E-value=4.2e-05  Score=73.15  Aligned_cols=47  Identities=23%  Similarity=0.326  Sum_probs=35.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      +|||||||+|+|++..+. ...+..+.++....+.++   ..+.+|||||.
T Consensus       124 ~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         124 PNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            999999999999987753 445566666666555554   35789999995

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>cd04133 Rop_like Rop subfamily

Probab=97.81  E-value=1.9e-05  Score=76.09  Aligned_cols=53  Identities=30%  Similarity=0.326  Sum_probs=47.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+||||+++.+|+.+.|...|.||+|..| .+.+.++++.++|+|-
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~   54 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLW   54 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEE
Confidence            4677777889999999999999999999999999888 6778999999999987

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd01859 MJ1464 MJ1464

Probab=97.81  E-value=5.2e-05  Score=71.15  Aligned_cols=47  Identities=28%  Similarity=0.371  Sum_probs=34.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      +|||||||+|+|.+.. ...+.++.|.+.....+..+.   .+.+|||||.
T Consensus       110 ~~~Gkssl~~~l~~~~-~~~~~~~~~~t~~~~~~~~~~---~~~~~DtpGi  156 (156)
T cd01859         110 PNVGKSSIINALKGRH-SASTSPSPGYTKGEQLVKITS---KIYLLDTPGV  156 (156)
T ss_pred             CCCCHHHHHHHHhCCC-ccccCCCCCeeeeeEEEEcCC---CEEEEECcCC
Confidence            9999999999999765 456677888765443333332   5899999994

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>KOG0091|consensus

Probab=97.80  E-value=3.7e-06  Score=77.54  Aligned_cols=55  Identities=27%  Similarity=0.323  Sum_probs=49.8

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEE-CCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~-d~~~v~LqI~  384 (617)
                      .+.+.+||++-|||||++.+|.++.|.+...||+|+||+.+.+++ +|..|+||+-
T Consensus         8 qfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlw   63 (213)
T KOG0091|consen    8 QFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLW   63 (213)
T ss_pred             EEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEe
Confidence            356778899999999999999999999999999999999999998 5789999974

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=97.78  E-value=0.0001  Score=78.19  Aligned_cols=125  Identities=18%  Similarity=0.161  Sum_probs=84.6

Q ss_pred             CCCCHHHHHHHHH--cCCC----------CC--------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchh
Q psy3029         115 LGVGKTSMVVRYI--GKMF----------SH--------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM  174 (617)
Q Consensus       115 ~nVGKSSLinrl~--~~~~----------~~--------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~  174 (617)
                      |-+|||||-.+|+  ++-.          ..        ......|+.+.+-.+.++...+.+++.||||+++|..-+-.
T Consensus        21 PDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPGHeDFSEDTYR  100 (528)
T COG4108          21 PDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPGHEDFSEDTYR  100 (528)
T ss_pred             CCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCCccccchhHHH
Confidence            9999999999985  1111          00        11234566667777788888899999999999999887777


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeE
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTY  245 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~  245 (617)
                      -+.-+|.+|.|+|+...---+. .+.+.-.   .-.++||+-.+||.|-....  +.+...++-+.+++..
T Consensus       101 tLtAvDsAvMVIDaAKGiE~qT-~KLfeVc---rlR~iPI~TFiNKlDR~~rd--P~ELLdEiE~~L~i~~  165 (528)
T COG4108         101 TLTAVDSAVMVIDAAKGIEPQT-LKLFEVC---RLRDIPIFTFINKLDREGRD--PLELLDEIEEELGIQC  165 (528)
T ss_pred             HHHhhheeeEEEecccCccHHH-HHHHHHH---hhcCCceEEEeeccccccCC--hHHHHHHHHHHhCcce
Confidence            7888999999999876422111 1222222   12568999999999975432  2344445555565543

>cd01892 Miro2 Miro2 subfamily

Probab=97.78  E-value=2.2e-05  Score=74.79  Aligned_cols=54  Identities=26%  Similarity=0.348  Sum_probs=48.3

Q ss_pred             ceeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+||||+++++|+.+.|. ..|.||+|.+|..+.+.++++.+.|++.
T Consensus         5 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~   59 (169)
T cd01892           5 FLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILR   59 (169)
T ss_pred             EEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEE
Confidence            56667777799999999999999998 8899999999988899999988888875

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=97.77  E-value=2.2e-05  Score=78.54  Aligned_cols=53  Identities=17%  Similarity=0.295  Sum_probs=47.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ||++++|..+||||+++.+|..+.|+..|.||++.+| .+.+.++++.+.|+|-
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~-~~~~~~~~~~v~L~iw   54 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENY-TASFEIDKRRIELNMW   54 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccce-EEEEEECCEEEEEEEE
Confidence            5777888889999999999999999999999999988 5789999999999874

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>cd04121 Rab40 Rab40 subfamily

Probab=97.76  E-value=2.8e-05  Score=75.74  Aligned_cols=55  Identities=20%  Similarity=0.061  Sum_probs=49.7

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|..+||||+++.+|..+.|...|.||+|.+|..+++.+++..++|++-
T Consensus         6 ~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iw   60 (189)
T cd04121           6 LLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLW   60 (189)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEE
Confidence            3677777777999999999999999999999999999999999999999999975

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.73  E-value=5.4e-05  Score=79.95  Aligned_cols=48  Identities=25%  Similarity=0.335  Sum_probs=40.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE  166 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e  166 (617)
                      ||||||||||+|++.. ...+.+.+|.+.....+.++..   +.++||||.-
T Consensus       141 PNVGKSslIN~L~~k~-~~~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGii  188 (322)
T COG1161         141 PNVGKSTLINRLLGKK-VAKTSNRPGTTKGIQWIKLDDG---IYLLDTPGII  188 (322)
T ss_pred             CCCcHHHHHHHHhccc-ceeeCCCCceecceEEEEcCCC---eEEecCCCcC
Confidence            9999999999999887 4677788898877777766654   8899999973

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.73  E-value=8.3e-05  Score=77.33  Aligned_cols=48  Identities=27%  Similarity=0.387  Sum_probs=37.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE  166 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e  166 (617)
                      ||||||||+|+|++.+. ....+.+|.+.....+..+.   .+.++||||..
T Consensus       130 pnvGKSsliN~l~~~~~-~~~~~~~g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        130 PNVGKSTLINRLAGKKI-AKTGNRPGVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             CCCCHHHHHHHHhcCCc-cccCCCCCeEEEEEEEEeCC---cEEEEECCCcC
Confidence            99999999999998763 35567778777666555543   47899999973

>KOG2484|consensus

Probab=97.73  E-value=6.4e-05  Score=78.92  Aligned_cols=83  Identities=19%  Similarity=0.108  Sum_probs=52.4

Q ss_pred             ccccccchhhhccCCEEEEEEeCCChhhH--HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYHSF--AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~S~--~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      ..|....+..++.+|+||.|.|++||.+-  ..+++|+...    ..+...|+|+||+||...+.  .+++..+.+..+-
T Consensus       134 kaY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V~~~----~gnKkLILVLNK~DLVPrEv--~e~Wl~YLr~~~p  207 (435)
T KOG2484|consen  134 KAYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAVLQA----HGNKKLILVLNKIDLVPREV--VEKWLVYLRREGP  207 (435)
T ss_pred             HHHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHHHhc----cCCceEEEEeehhccCCHHH--HHHHHHHHHhhCC
Confidence            34555556667789999999999999863  3455554332    22357899999999965332  2344455555555


Q ss_pred             eEEEEcCCCCC
Q psy3029         244 TYYETSALQDQ  254 (617)
Q Consensus       244 ~~~evSAktg~  254 (617)
                      .+.+..+....
T Consensus       208 tv~fkast~~~  218 (435)
T KOG2484|consen  208 TVAFKASTQMQ  218 (435)
T ss_pred             cceeecccccc
Confidence            55555444433

>cd01874 Cdc42 Cdc42 subfamily

Probab=97.72  E-value=3.2e-05  Score=74.20  Aligned_cols=53  Identities=21%  Similarity=0.226  Sum_probs=45.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+||||+++.+|..+.|...|.||+|.+| .+.+.++++.++|+|-
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~l~i~   54 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLF   54 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeee-EEEEEECCEEEEEEEE
Confidence            3566667779999999999999999999999999888 5678899999998875

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>cd01875 RhoG RhoG subfamily

Probab=97.71  E-value=3.2e-05  Score=75.28  Aligned_cols=53  Identities=25%  Similarity=0.246  Sum_probs=46.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|.++||||+++.+|..+.|...|.||+|.+| .+.+.++++.+.|+|-
T Consensus         4 ~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   56 (191)
T cd01875           4 IKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLW   56 (191)
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEE
Confidence            5677777779999999999999999999999999877 5678899999999874

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=97.70  E-value=3.9e-05  Score=71.90  Aligned_cols=54  Identities=28%  Similarity=0.373  Sum_probs=49.7

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      |++++|..++|||+++.+|..+.|...+.||+|.++..+.+.++++.+.|+|--
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D   54 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWD   54 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccc
Confidence            566777779999999999999999999999999999999999999999999865

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.70  E-value=8.5e-05  Score=76.84  Aligned_cols=47  Identities=26%  Similarity=0.381  Sum_probs=35.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      ||||||||+|+|.+... ....+.+|.+.....+.+..   .+.++||||.
T Consensus       127 ~nvGKSslin~l~~~~~-~~~~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       127 PNVGKSTLINRLAGKKV-AKVGNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCCHHHHHHHHhCCCc-cccCCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            99999999999998763 34456677776666555543   4789999997

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=97.68  E-value=0.00015  Score=73.20  Aligned_cols=141  Identities=18%  Similarity=0.105  Sum_probs=84.8

Q ss_pred             ccccCCCCCCCCHHHHHHHHHc---CC-------CC----CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccc
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIG---KM-------FS----HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMA  172 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~---~~-------~~----~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~  172 (617)
                      ..+..+|--.=|||||..+++.   ..       |.    +....-.|+++.+..+.+.-.....-.+|+||+.+|-...
T Consensus        13 VNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDYvKNM   92 (394)
T COG0050          13 VNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYVKNM   92 (394)
T ss_pred             eEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHHHHHH
Confidence            3333344499999999988752   11       10    1111234555555555555455567889999998876443


Q ss_pred             hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCC-eEEEEEECCCCCCccccC---HHHHHHHHHhcCC-----
Q psy3029         173 PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPL-VLCVVGNKTDLESSREVN---REEAFHYSKSIGG-----  243 (617)
Q Consensus       173 ~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~i-PvIlVgNK~DL~~~~~v~---~~e~~~~~~~~g~-----  243 (617)
                      -.-..+.|+.|||+++++..--+..+.. - +.+.  -.+ -++++.||+|+.++++..   ..+.+++..++++     
T Consensus        93 ItgAaqmDgAILVVsA~dGpmPqTrEHi-L-larq--vGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~  168 (394)
T COG0050          93 ITGAAQMDGAILVVAATDGPMPQTREHI-L-LARQ--VGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPGDDT  168 (394)
T ss_pred             hhhHHhcCccEEEEEcCCCCCCcchhhh-h-hhhh--cCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCCCCc
Confidence            3344578999999999985422221211 1 1111  123 467888999998754422   2455677777776     


Q ss_pred             eEEEEcCC
Q psy3029         244 TYYETSAL  251 (617)
Q Consensus       244 ~~~evSAk  251 (617)
                      |++.-||.
T Consensus       169 Pii~gSal  176 (394)
T COG0050         169 PIIRGSAL  176 (394)
T ss_pred             ceeechhh
Confidence            67777765

>cd04117 Rab15 Rab15 subfamily

Probab=97.67  E-value=4.6e-05  Score=71.81  Aligned_cols=54  Identities=30%  Similarity=0.310  Sum_probs=48.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||+|.++..+.+.+++..++|+|-
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   54 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIW   54 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEE
Confidence            356677777999999999999999999999999999988999999988888865

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>KOG1954|consensus

Probab=97.67  E-value=0.00034  Score=72.67  Aligned_cols=157  Identities=18%  Similarity=0.172  Sum_probs=90.4

Q ss_pred             HHHHHHHHhhhhhhccCCCccccccCCccccccccccccCCcccccccccccceEEEEEccCcccccccCCCCCCccccC
Q psy3029          32 SKEQLRRKQKEGKIQTSSLTEVSVNLPKLNYQKNNKNKKKTLIPYLEMLVSNKIKVGLLSDKFVVGLSINSRVPNCFEAN  111 (617)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i  111 (617)
                      +....+-.++.|+-+.++|+..--... .+.      .....+.+     ..+-=|+++|.                   
T Consensus        18 ~~tv~~glkrlY~~kl~PLE~~Yrf~d-f~s------p~l~d~df-----d~KPmill~Gq-------------------   66 (532)
T KOG1954|consen   18 LQTVSEGLKRLYKQKLLPLEELYRFHD-FHS------PALEDPDF-----DAKPMILLVGQ-------------------   66 (532)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHhhhh-ccc------ccccCccc-----ccCceEEEEec-------------------
Confidence            444556667777777777765432211 111      11111111     23335888898                   


Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCc-cCCCcceeEEEEEEEEC------CeE------------------------------
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHH-ISPTIGASFFTAKINVG------ENK------------------------------  154 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~-~~~t~g~~~~~~~i~~~------~~~------------------------------  154 (617)
                         =..||||+|+.|+...|... ..|.+..++....+.-+      |..                              
T Consensus        67 ---yStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf~csqmp~  143 (532)
T KOG1954|consen   67 ---YSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRFMCSQLPN  143 (532)
T ss_pred             ---cccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHHHHhcCCh
Confidence               88999999999998887532 22222233332222211      110                              


Q ss_pred             ---EEEEEEecCCcc-----------cccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         155 ---VKLQVWDTAGQE-----------RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       155 ---~~l~i~Dt~G~e-----------~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                         -.+.|+||||.-           .|....+-|...+|.||++||....+--++..+.+..++   ...-.+-||.||
T Consensus       144 ~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLk---G~EdkiRVVLNK  220 (532)
T KOG1954|consen  144 QVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALK---GHEDKIRVVLNK  220 (532)
T ss_pred             hhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhh---CCcceeEEEecc
Confidence               157899999962           244556677889999999999755432233333334433   333357789999


Q ss_pred             CCCCC
Q psy3029         221 TDLES  225 (617)
Q Consensus       221 ~DL~~  225 (617)
                      +|..+
T Consensus       221 ADqVd  225 (532)
T KOG1954|consen  221 ADQVD  225 (532)
T ss_pred             ccccC
Confidence            99754

>cd04122 Rab14 Rab14 subfamily

Probab=97.66  E-value=5e-05  Score=71.76  Aligned_cols=54  Identities=31%  Similarity=0.345  Sum_probs=48.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||++++++..+.|...+.+|+|.+|..+.+.++++.++|+|-
T Consensus         3 ~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   56 (166)
T cd04122           3 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIW   56 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEE
Confidence            466677777999999999999999999999999999998999999999988874

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>KOG4273|consensus

Probab=97.64  E-value=0.0003  Score=69.38  Aligned_cols=151  Identities=19%  Similarity=0.250  Sum_probs=92.0

Q ss_pred             CCCCC--CHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC--eEEEEEEEecCCcccccccchhhhccCCEEEEEEeC
Q psy3029         113 FWLGV--GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE--NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDI  188 (617)
Q Consensus       113 G~~nV--GKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~--~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Di  188 (617)
                      |.+||  ||-+|+.||....|.......-...++.+++.-..  ..+.+.|.-.+  +++..-.........++++|||+
T Consensus        11 g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwtid~kyysadi~lcishic--de~~lpn~~~a~pl~a~vmvfdl   88 (418)
T KOG4273|consen   11 GCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTIDNKYYSADINLCISHIC--DEKFLPNAEIAEPLQAFVMVFDL   88 (418)
T ss_pred             cccccccchHHHHHHhcchhheeeccccCceeeeceEecceeeecceeEEeeccc--chhccCCcccccceeeEEEEEec
Confidence            44899  99999999998887655555444555555543211  12233332221  22221122223356789999999


Q ss_pred             CChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc-----------------------------------------
Q psy3029         189 TQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR-----------------------------------------  227 (617)
Q Consensus       189 s~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~-----------------------------------------  227 (617)
                      +....+..+..|+....-. .-. -++.+|||.|.....                                         
T Consensus        89 se~s~l~alqdwl~htdin-sfd-illcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisetegssllgse  166 (418)
T KOG4273|consen   89 SEKSGLDALQDWLPHTDIN-SFD-ILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETEGSSLLGSE  166 (418)
T ss_pred             cchhhhHHHHhhccccccc-cch-hheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccccccccccc
Confidence            9999999999998853221 111 245678999863210                                         


Q ss_pred             ---ccCHHHHHHHHHhcCCeEEEEcCCC------------CCCHHHHHHHHHHHH
Q psy3029         228 ---EVNREEAFHYSKSIGGTYYETSALQ------------DQGIEDVFLNVSKGL  267 (617)
Q Consensus       228 ---~v~~~e~~~~~~~~g~~~~evSAkt------------g~gI~eLf~~I~~~l  267 (617)
                         -.....+.+|+.++|+.|++.+|.+            ..||+.+|..|-..+
T Consensus       167 dasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahm  221 (418)
T KOG4273|consen  167 DASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHM  221 (418)
T ss_pred             cchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhcc
Confidence               0112345688888899999998843            246777776665433

>cd01855 YqeH YqeH

Probab=97.64  E-value=7.9e-05  Score=72.43  Aligned_cols=54  Identities=24%  Similarity=0.232  Sum_probs=37.2

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCC-------CCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMF-------SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~-------~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      ++++|.+|||||||+|+|++...       .....+.+|.+.....+.+..   .+.|+||||.
T Consensus       130 ~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG~  190 (190)
T cd01855         130 VYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPGI  190 (190)
T ss_pred             EEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcCC
Confidence            33444499999999999997542       123445567776666665543   4789999994

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=97.63  E-value=9.1e-05  Score=74.48  Aligned_cols=102  Identities=20%  Similarity=0.179  Sum_probs=57.5

Q ss_pred             EEEEEEecCC--cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         155 VKLQVWDTAG--QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       155 ~~l~i~Dt~G--~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      +.+.|+.|.|  |.+.     ....-+|.+++|.-..-.+..+.++.   .+.+.     .=|+|+||+|+...+. ...
T Consensus       122 ~D~IiiETVGvGQsE~-----~I~~~aD~~v~v~~Pg~GD~iQ~~Ka---GimEi-----aDi~vVNKaD~~gA~~-~~~  187 (266)
T PF03308_consen  122 FDVIIIETVGVGQSEV-----DIADMADTVVLVLVPGLGDEIQAIKA---GIMEI-----ADIFVVNKADRPGADR-TVR  187 (266)
T ss_dssp             -SEEEEEEESSSTHHH-----HHHTTSSEEEEEEESSTCCCCCTB-T---THHHH------SEEEEE--SHHHHHH-HHH
T ss_pred             CCEEEEeCCCCCccHH-----HHHHhcCeEEEEecCCCccHHHHHhh---hhhhh-----ccEEEEeCCChHHHHH-HHH
Confidence            4566777755  3221     12445899999998766555544432   22221     2278999999643221 112


Q ss_pred             HHHHHHH---h----cCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         233 EAFHYSK---S----IGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       233 e~~~~~~---~----~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +......   .    +..+++.+||.++.||++|++.|.+.....
T Consensus       188 ~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~l  232 (266)
T PF03308_consen  188 DLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRDYL  232 (266)
T ss_dssp             HHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            2222221   1    224899999999999999999998755443

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=97.62  E-value=5.2e-05  Score=74.32  Aligned_cols=53  Identities=40%  Similarity=0.476  Sum_probs=46.5

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEEC-CEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d-~~~v~LqI~  384 (617)
                      |++++|..++|||+++++|+.+.|...+.||+|.+|..+.+.++ ++.+.|+|-
T Consensus         2 KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~   55 (201)
T cd04107           2 KVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLW   55 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEE
Confidence            55666666999999999999999999999999999988999998 788888764

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=97.62  E-value=5.8e-05  Score=70.70  Aligned_cols=53  Identities=26%  Similarity=0.375  Sum_probs=46.3

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|.+++|||+++++++.+.|...+.||+|.+|..+.+.++++.+.|+|-
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   54 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFF   54 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEE
Confidence            34455555999999999999999999999999999999999999998888875

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=97.61  E-value=6e-05  Score=71.34  Aligned_cols=54  Identities=28%  Similarity=0.338  Sum_probs=47.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||++++++..+.|...|.||+|.+|..+.+.+++..++|++-
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~   57 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIW   57 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEE
Confidence            456666666999999999999999999999999999998999999988888764

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.61  E-value=0.0016  Score=60.86  Aligned_cols=146  Identities=18%  Similarity=0.281  Sum_probs=82.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+|.|.                      ||||||||+.++...= ...-..--|  +.+..+.-++..+-|.++|+
T Consensus         4 ~~mki~ITG~----------------------PGvGKtTl~~ki~e~L-~~~g~kvgG--f~t~EVR~gGkR~GF~Ivdl   58 (179)
T COG1618           4 MAMKIFITGR----------------------PGVGKTTLVLKIAEKL-REKGYKVGG--FITPEVREGGKRIGFKIVDL   58 (179)
T ss_pred             cceEEEEeCC----------------------CCccHHHHHHHHHHHH-HhcCceeee--EEeeeeecCCeEeeeEEEEc
Confidence            4578999999                      9999999999987421 111011122  45666777778888889888


Q ss_pred             C-Ccc--------------cc-------c----ccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEE
Q psy3029         163 A-GQE--------------RF-------R----SMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV  216 (617)
Q Consensus       163 ~-G~e--------------~~-------~----~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIl  216 (617)
                      . |.+              +|       .    ..++.+++.+|++|+  |=--+--|. ..++...+.+......|+|.
T Consensus        59 ~tg~~~~la~~~~~~~rvGkY~V~v~~le~i~~~al~rA~~~aDvIII--DEIGpMElk-s~~f~~~ve~vl~~~kplia  135 (179)
T COG1618          59 ATGEEGILARVGFSRPRVGKYGVNVEGLEEIAIPALRRALEEADVIII--DEIGPMELK-SKKFREAVEEVLKSGKPLIA  135 (179)
T ss_pred             cCCceEEEEEcCCCCcccceEEeeHHHHHHHhHHHHHHHhhcCCEEEE--ecccchhhc-cHHHHHHHHHHhcCCCcEEE
Confidence            6 321              11       1    123344556776654  522221111 12344445554445568888


Q ss_pred             EEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         217 VGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       217 VgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +..+.+-..        ..+-++..+.-++.   .+-+|-+.++..|+..+
T Consensus       136 tlHrrsr~P--------~v~~ik~~~~v~v~---lt~~NR~~i~~~Il~~L  175 (179)
T COG1618         136 TLHRRSRHP--------LVQRIKKLGGVYVF---LTPENRNRILNEILSVL  175 (179)
T ss_pred             EEecccCCh--------HHHHhhhcCCEEEE---EccchhhHHHHHHHHHh
Confidence            888776311        12233344443433   56666668888877665

>KOG1143|consensus

Probab=97.58  E-value=0.00032  Score=72.89  Aligned_cols=153  Identities=12%  Similarity=0.108  Sum_probs=89.2

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCCCC-----------------------CccCCCcceeEEEEEEEEC----------Ce
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKMFS-----------------------HHISPTIGASFFTAKINVG----------EN  153 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~~~-----------------------~~~~~t~g~~~~~~~i~~~----------~~  153 (617)
                      .|+|++|..-+|||||+--|..+...                       .....++|.+-..+.+++.          ..
T Consensus       168 vRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e~S  247 (591)
T KOG1143|consen  168 VRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVEKS  247 (591)
T ss_pred             EEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHhhh
Confidence            44444444999999999877654321                       1122344444333333321          12


Q ss_pred             EEEEEEEecCCcccccccchhhhc--cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc---
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYR--NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE---  228 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~--~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~---  228 (617)
                      .-.+.|+|.+|+.+|....-..+.  --+..++|+++...-.... .+.+..+..   -++|++++.+|+|+.+...   
T Consensus       248 SKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~A---L~iPfFvlvtK~Dl~~~~~~~~  323 (591)
T KOG1143|consen  248 SKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAA---LNIPFFVLVTKMDLVDRQGLKK  323 (591)
T ss_pred             cceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHH---hCCCeEEEEEeeccccchhHHH
Confidence            235789999999988765444333  3577888888766543221 222333333   3489999999999965411   


Q ss_pred             ---------------------cCHHHHHHHHHh----cCCeEEEEcCCCCCCHHHHHHHH
Q psy3029         229 ---------------------VNREEAFHYSKS----IGGTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       229 ---------------------v~~~e~~~~~~~----~g~~~~evSAktg~gI~eLf~~I  263 (617)
                                           -+.+++...+.+    .-.|+|.+|+.+|+|++-+...|
T Consensus       324 tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~fL  383 (591)
T KOG1143|consen  324 TVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTFL  383 (591)
T ss_pred             HHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHHH
Confidence                                 111222222222    12389999999999987665443

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=97.57  E-value=0.00048  Score=72.00  Aligned_cols=104  Identities=19%  Similarity=0.149  Sum_probs=64.5

Q ss_pred             EEEEEecCCcccccccc--hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--H
Q psy3029         156 KLQVWDTAGQERFRSMA--PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--R  231 (617)
Q Consensus       156 ~l~i~Dt~G~e~~~~~~--~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~  231 (617)
                      -+.|+||.|+|.|-...  -..-.+.|-.++++.+++..+-.. .+.+-.+..   ..+|+|+|.||+|+..+..+.  .
T Consensus       202 lVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kEHLgi~~a---~~lPviVvvTK~D~~~ddr~~~v~  277 (527)
T COG5258         202 LVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KEHLGIALA---MELPVIVVVTKIDMVPDDRFQGVV  277 (527)
T ss_pred             EEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hHhhhhhhh---hcCCEEEEEEecccCcHHHHHHHH
Confidence            57899999999886422  233347999999999988654221 122222211   347999999999996542211  1


Q ss_pred             HHHHHHHH----------------------hcC---CeEEEEcCCCCCCHHHHHHHH
Q psy3029         232 EEAFHYSK----------------------SIG---GTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       232 ~e~~~~~~----------------------~~g---~~~~evSAktg~gI~eLf~~I  263 (617)
                      +++..+.+                      +.+   .|+|.+|+.+|+|++-|.+.+
T Consensus       278 ~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f  334 (527)
T COG5258         278 EEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFF  334 (527)
T ss_pred             HHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHH
Confidence            11111111                      111   389999999999986555443

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=97.57  E-value=6.7e-05  Score=73.90  Aligned_cols=53  Identities=23%  Similarity=0.031  Sum_probs=46.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEEC-----CEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-----ENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d-----~~~v~LqI~  384 (617)
                      |++++|+++|||||++++|+.+.|...+.||||.+|..+.+.++     ++.+.|+|-
T Consensus         2 KIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~Iw   59 (202)
T cd04102           2 RVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELW   59 (202)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEE
Confidence            56777788999999999999999999999999999988888885     577888764

RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>cd04125 RabA_like RabA-like subfamily

Probab=97.56  E-value=8e-05  Score=72.04  Aligned_cols=53  Identities=28%  Similarity=0.359  Sum_probs=47.0

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..+||||++++++..+.|...+.||+|.++..+.+.++++.+.|++-
T Consensus         2 ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   54 (188)
T cd04125           2 KVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIW   54 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEE
Confidence            56666777999999999999999998899999999998999999988888765

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>KOG1424|consensus

Probab=97.54  E-value=0.00021  Score=77.39  Aligned_cols=72  Identities=19%  Similarity=0.184  Sum_probs=52.7

Q ss_pred             hhccCCEEEEEEeCCChhhHH--HHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCC
Q psy3029         175 YYRNANAALLVFDITQYHSFA--AIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQ  252 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~--~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAkt  252 (617)
                      .++.+|+||.++|+++|--|.  ++.+|..++..    ....+|++||+||....+  ......++...+++++..||..
T Consensus       171 VlErSDivvqIVDARnPllfr~~dLe~Yvke~d~----~K~~~LLvNKaDLl~~~q--r~aWa~YF~~~ni~~vf~SA~~  244 (562)
T KOG1424|consen  171 VLERSDIVVQIVDARNPLLFRSPDLEDYVKEVDP----SKANVLLVNKADLLPPEQ--RVAWAEYFRQNNIPVVFFSALA  244 (562)
T ss_pred             HHhhcceEEEEeecCCccccCChhHHHHHhcccc----ccceEEEEehhhcCCHHH--HHHHHHHHHhcCceEEEEeccc
Confidence            466899999999999987553  45555555432    235789999999976544  3345566777789999999986

>cd01865 Rab3 Rab3 subfamily

Probab=97.54  E-value=9.1e-05  Score=69.92  Aligned_cols=54  Identities=28%  Similarity=0.319  Sum_probs=46.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||++++++..+.|...|.||+|.+|..+++..+++.+.+++-
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   55 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIW   55 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEE
Confidence            456666666999999999999999999999999999988899889888877754

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=97.54  E-value=8.5e-05  Score=74.09  Aligned_cols=54  Identities=22%  Similarity=0.175  Sum_probs=46.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+||||+++.+++.+.|...|.||+|.++..+.+..++..++|+|-
T Consensus        14 ~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~   67 (219)
T PLN03071         14 FKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCW   67 (219)
T ss_pred             eEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEE
Confidence            444555555999999999999999999999999999988888888888888864

>PLN00023 GTP-binding protein; Provisional

Probab=97.52  E-value=8.8e-05  Score=77.52  Aligned_cols=56  Identities=21%  Similarity=0.100  Sum_probs=46.1

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC-------------EEEEEEee
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-------------NKVKLQLR  384 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~-------------~~v~LqI~  384 (617)
                      ..+|++++|..+|||||++.+|+.+.|...+.||||.+|..+.+.+++             +.++|+|-
T Consensus        20 ~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIW   88 (334)
T PLN00023         20 GQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELW   88 (334)
T ss_pred             cceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEE
Confidence            335556666669999999999999999999999999999889898863             56777764

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=97.52  E-value=8.8e-05  Score=70.90  Aligned_cols=53  Identities=19%  Similarity=0.286  Sum_probs=45.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..+||||+++.+|..+.|...+.||++..| .+.+.++++.+.|+|-
T Consensus         3 ~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   55 (172)
T cd04141           3 YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDIL   55 (172)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEE
Confidence            4666677779999999999999999999999999777 6778999999988874

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=97.50  E-value=0.00011  Score=69.18  Aligned_cols=54  Identities=24%  Similarity=0.332  Sum_probs=46.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||+++++++.+.|...+.||+|.+|..+.+.+++..++++|-
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   56 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW   56 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            456666666999999999999999999999999999999999999988877754

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>KOG0448|consensus

Probab=97.50  E-value=0.001  Score=74.36  Aligned_cols=92  Identities=15%  Similarity=0.259  Sum_probs=55.9

Q ss_pred             EEEEEecCCcc---cccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         156 KLQVWDTAGQE---RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       156 ~l~i~Dt~G~e---~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      .+.++|.||..   .....+..+..++|++|||..+.+..+... .+++....+.   +..++|+.||+|....++...+
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~~---KpniFIlnnkwDasase~ec~e  282 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSEE---KPNIFILNNKWDASASEPECKE  282 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhcc---CCcEEEEechhhhhcccHHHHH
Confidence            46678888864   334456677889999999998766543332 3455554442   3467888999998755433333


Q ss_pred             HHHHHHHhcC--------CeEEEEcCC
Q psy3029         233 EAFHYSKSIG--------GTYYETSAL  251 (617)
Q Consensus       233 e~~~~~~~~g--------~~~~evSAk  251 (617)
                      .+..-..++.        -.+|.|||+
T Consensus       283 ~V~~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  283 DVLKQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             HHHHHHHhcCcccHhhhcCeeEEEecc
Confidence            3322222222        257888854

>cd04109 Rab28 Rab28 subfamily

Probab=97.48  E-value=0.0001  Score=73.11  Aligned_cols=53  Identities=28%  Similarity=0.313  Sum_probs=45.6

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC-EEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~-~~v~LqI~  384 (617)
                      |++++|..++|||+++++|..+.|...|.||+|.+|..+.+.+++ ..++|+|-
T Consensus         2 Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~   55 (215)
T cd04109           2 KIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVW   55 (215)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEE
Confidence            556666669999999999999999999999999999999999975 56777765

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>cd04118 Rab24 Rab24 subfamily

Probab=97.48  E-value=0.00011  Score=71.22  Aligned_cols=53  Identities=36%  Similarity=0.400  Sum_probs=45.5

Q ss_pred             eeeeeeecccccccceeccccCcccC-ccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~-~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|.++||||+++++++.+.|.. .|.+|+|.+|..+.+.++++.++|+|-
T Consensus         2 ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   55 (193)
T cd04118           2 KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIW   55 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEE
Confidence            44555555999999999999999975 689999999988999999999998874

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>PLN03110 Rab GTPase; Provisional

Probab=97.48  E-value=0.00012  Score=72.82  Aligned_cols=54  Identities=28%  Similarity=0.300  Sum_probs=46.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||+++++++.+.|...+.||+|.+|..+.+.+++..+.++|-
T Consensus        13 ~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~   66 (216)
T PLN03110         13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIW   66 (216)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEE
Confidence            345555555999999999999999988889999999999999999998888874

>cd04142 RRP22 RRP22 subfamily

Probab=97.48  E-value=8.9e-05  Score=72.77  Aligned_cols=52  Identities=21%  Similarity=0.296  Sum_probs=44.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +++++|..+||||+++++|+.+.|...|.||++.++..+.+.++++.+.|+|
T Consensus         2 kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i   53 (198)
T cd04142           2 RVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHI   53 (198)
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEE
Confidence            3445555599999999999999999999999999887888899998888775

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>KOG0081|consensus

Probab=97.48  E-value=5.4e-05  Score=69.52  Aligned_cols=42  Identities=26%  Similarity=0.324  Sum_probs=36.4

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEE
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV  374 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~  374 (617)
                      ...+|+++|||+|++.+|.++.|...+++|+|+||..|.+..
T Consensus        12 fLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY   53 (219)
T KOG0081|consen   12 FLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVY   53 (219)
T ss_pred             HHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEE
Confidence            344567799999999999999999999999999998776654

>KOG0088|consensus

Probab=97.47  E-value=2.1e-05  Score=72.16  Aligned_cols=58  Identities=29%  Similarity=0.303  Sum_probs=54.5

Q ss_pred             CCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +.-+||++++|..+||||+++.||+++.|+..+.+|+-+.|.+|.+.++|+.+.|.|-
T Consensus        10 ~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IW   67 (218)
T KOG0088|consen   10 KSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIW   67 (218)
T ss_pred             CceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeee
Confidence            4567999999999999999999999999999999999999999999999999999985

>KOG0395|consensus

Probab=97.46  E-value=0.00016  Score=70.83  Aligned_cols=53  Identities=19%  Similarity=0.291  Sum_probs=45.7

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +++++|..+||||+++.+|+.+.|...|.|||+ |+..+.+.++++.+.|+|..
T Consensus         5 kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilD   57 (196)
T KOG0395|consen    5 KVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILD   57 (196)
T ss_pred             EEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEc
Confidence            344444559999999999999999999999998 55599999999999999765

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=97.46  E-value=0.00084  Score=67.25  Aligned_cols=82  Identities=12%  Similarity=0.088  Sum_probs=49.0

Q ss_pred             cCCCCCCCCHHHHHHHHHcC--CCCC---ccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc------ccchhhhcc
Q psy3029         110 ANWFWLGVGKTSMVVRYIGK--MFSH---HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR------SMAPMYYRN  178 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~--~~~~---~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~------~~~~~~~~~  178 (617)
                      +|+|.+++|||+|+|+|++.  .|..   ....|.|+-.....+.. +....+.++||+|.....      ......+.-
T Consensus        11 sv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~-~~~~~v~~lDteG~~~~~~~~~~~~~~~~~l~~   89 (224)
T cd01851          11 SVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKL-GKEHAVLLLDTEGTDGRERGEFEDDARLFALAT   89 (224)
T ss_pred             EEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccC-CCcceEEEEecCCcCccccCchhhhhHHHHHHH
Confidence            34444999999999999988  5532   22334443322222211 235679999999974322      122233334


Q ss_pred             --CCEEEEEEeCCChh
Q psy3029         179 --ANAALLVFDITQYH  192 (617)
Q Consensus       179 --ad~iIlV~Dis~~~  192 (617)
                        ++++|+..+.....
T Consensus        90 llss~~i~n~~~~~~~  105 (224)
T cd01851          90 LLSSVLIYNSWETILG  105 (224)
T ss_pred             HHhCEEEEeccCcccH
Confidence              88888888765543

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>cd04136 Rap_like Rap-like subfamily

Probab=97.46  E-value=0.00011  Score=68.78  Aligned_cols=53  Identities=23%  Similarity=0.347  Sum_probs=44.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++. +..+.+.+++..+.|+|-
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~   54 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIED-SYRKQIEVDGQQCMLEIL   54 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhh-hEEEEEEECCEEEEEEEE
Confidence            45556666699999999999999999999999985 447889999988888764

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd04111 Rab39 Rab39 subfamily

Probab=97.44  E-value=0.00012  Score=72.49  Aligned_cols=54  Identities=30%  Similarity=0.372  Sum_probs=46.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEE-CCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~-d~~~v~LqI~  384 (617)
                      +|++++|..+||||+++++++.+.|...+.||+|.+|..+.+.+ ++..++|+|-
T Consensus         3 ~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~   57 (211)
T cd04111           3 FRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLW   57 (211)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEE
Confidence            56667777799999999999999999989999999999999988 4677887763

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.42  E-value=0.00036  Score=65.54  Aligned_cols=47  Identities=21%  Similarity=0.360  Sum_probs=31.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      +|||||||+|.+++... .......+.+.....+.+.   ..+.++||||.
T Consensus       109 ~~~GKstlin~l~~~~~-~~~~~~~~~t~~~~~~~~~---~~~~liDtPG~  155 (155)
T cd01849         109 PNVGKSSVINALLNKLK-LKVGNVPGTTTSQQEVKLD---NKIKLLDTPGI  155 (155)
T ss_pred             CCCCHHHHHHHHHcccc-ccccCCCCcccceEEEEec---CCEEEEECCCC
Confidence            99999999999998652 2233334444444444443   35889999984

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>KOG1424|consensus

Probab=97.41  E-value=0.0001  Score=79.70  Aligned_cols=51  Identities=22%  Similarity=0.255  Sum_probs=40.8

Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE  166 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e  166 (617)
                      +|+|||||||+||.|.+.+ ...+..|+|-+..-.++.+...   +.+.|+||.-
T Consensus       320 VGYPNVGKSSTINaLvG~K-kVsVS~TPGkTKHFQTi~ls~~---v~LCDCPGLV  370 (562)
T KOG1424|consen  320 VGYPNVGKSSTINALVGRK-KVSVSSTPGKTKHFQTIFLSPS---VCLCDCPGLV  370 (562)
T ss_pred             ecCCCCchhHHHHHHhcCc-eeeeecCCCCcceeEEEEcCCC---ceecCCCCcc
Confidence            4559999999999999988 5677899998876666665543   6788999963

>cd04116 Rab9 Rab9 subfamily

Probab=97.41  E-value=0.00018  Score=68.09  Aligned_cols=53  Identities=30%  Similarity=0.386  Sum_probs=45.5

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.+|+|.+|..+.+.++++.+.|+|-
T Consensus         7 ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~   59 (170)
T cd04116           7 KVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIW   59 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEE
Confidence            34444444999999999999999998889999999999999999999988864

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>cd01868 Rab11_like Rab11-like

Probab=97.40  E-value=0.00018  Score=67.64  Aligned_cols=53  Identities=26%  Similarity=0.327  Sum_probs=45.6

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||++++++..+.|...+.||+|.+|..+.+.++++.+.+++-
T Consensus         5 ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   57 (165)
T cd01868           5 KIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIW   57 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEE
Confidence            44555555999999999999999998899999999999999999988887764

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=97.39  E-value=0.00018  Score=68.27  Aligned_cols=54  Identities=24%  Similarity=0.302  Sum_probs=47.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+++++|.+++|||+++.+++.+.|...+.+|++.+|..+.+.++++.+.++|-
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   56 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLW   56 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEE
Confidence            456666666999999999999999999899999999999999999988888764

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd04106 Rab23_lke Rab23-like subfamily

Probab=97.39  E-value=0.00017  Score=67.41  Aligned_cols=53  Identities=28%  Similarity=0.389  Sum_probs=45.3

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEEC--CEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG--ENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d--~~~v~LqI~  384 (617)
                      |++++|.+++|||++++++..+.|...+.||++.+|..+.+.++  +..++|+|-
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~   56 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLW   56 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEe
Confidence            45566666999999999999999999999999999988888888  777777754

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd01871 Rac1_like Rac1-like subfamily

Probab=97.38  E-value=0.00017  Score=69.02  Aligned_cols=53  Identities=25%  Similarity=0.246  Sum_probs=45.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+++++|..+||||+++.+|+.+.|...|.||++..| .+.+.++++.++|+|-
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   54 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLW   54 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeee-EEEEEECCEEEEEEEE
Confidence            4566677779999999999999999999999997655 6788899999998864

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd04110 Rab35 Rab35 subfamily

Probab=97.38  E-value=0.00017  Score=70.55  Aligned_cols=54  Identities=30%  Similarity=0.374  Sum_probs=45.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+++++|..++|||+++++|....|...+.||+|.+|..+.+.+++..+.|+|-
T Consensus         7 ~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~   60 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIW   60 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEE
Confidence            345555555999999999999999998999999999988999999988777753

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>PTZ00369 Ras-like protein; Provisional

Probab=97.37  E-value=0.00017  Score=69.98  Aligned_cols=54  Identities=22%  Similarity=0.300  Sum_probs=46.5

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|..++|||++++++..+.|...+.||++..| .+.+.+++..+.|+|-
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   58 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDIL   58 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEE
Confidence            35666666669999999999999999999999999888 7889999999888873

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=97.37  E-value=0.00017  Score=67.05  Aligned_cols=51  Identities=22%  Similarity=0.302  Sum_probs=43.5

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +++++|..++|||+++++++.+.|...+.||++..| .+.+.+++..+.++|
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i   53 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDI   53 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEE
Confidence            455556669999999999999999999999998777 778899998888876

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04143 Rhes_like Rhes_like subfamily

Probab=97.37  E-value=0.00015  Score=73.81  Aligned_cols=52  Identities=25%  Similarity=0.337  Sum_probs=45.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..+||||+++++|+.+.|...|.||++ ++..+.+.++++.+.|+|-
T Consensus         2 KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~   53 (247)
T cd04143           2 RMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDIL   53 (247)
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEE
Confidence            566667779999999999999999999999997 7778999999998888874

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>cd01864 Rab19 Rab19 subfamily

Probab=97.36  E-value=0.0002  Score=67.41  Aligned_cols=55  Identities=29%  Similarity=0.285  Sum_probs=47.5

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++++++|..++|||++++++..+.|...+.+|+|.++..+.+.+++..+.|+|-
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   57 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIW   57 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEE
Confidence            3566777777999999999999999999999999999988999999987777754

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04175 Rap1 Rap1 subgroup

Probab=97.36  E-value=0.00018  Score=67.58  Aligned_cols=53  Identities=23%  Similarity=0.367  Sum_probs=45.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||+++++++.+.|...+.||++..| .+.+.+++..+.|+|-
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   54 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEIL   54 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEE
Confidence            3555666669999999999999999999999999877 6889999998888865

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>KOG0460|consensus

Probab=97.34  E-value=0.0025  Score=65.89  Aligned_cols=148  Identities=17%  Similarity=0.080  Sum_probs=90.6

Q ss_pred             CCCCCCccccCCCCCCCCHHHHHHHHHc-------CCC---C----CccCCCcceeEEEEEEEECCeEEEEEEEecCCcc
Q psy3029         101 NSRVPNCFEANWFWLGVGKTSMVVRYIG-------KMF---S----HHISPTIGASFFTAKINVGENKVKLQVWDTAGQE  166 (617)
Q Consensus       101 ~~~~~~~~~~i~G~~nVGKSSLinrl~~-------~~~---~----~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e  166 (617)
                      .+..|+|.+.-+|-.-=|||||-.++..       .++   .    +......|+++....+.+.-..-..--.|+||+.
T Consensus        49 ~R~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHA  128 (449)
T KOG0460|consen   49 VRDKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHA  128 (449)
T ss_pred             ccCCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchH
Confidence            3567888888888899999999888752       111   1    1112234555555555444444455678999998


Q ss_pred             cccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc---CHHHHHHHHHhcCC
Q psy3029         167 RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV---NREEAFHYSKSIGG  243 (617)
Q Consensus       167 ~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v---~~~e~~~~~~~~g~  243 (617)
                      +|-...-.-....|+.|+|+.++|..--+. .+.+-..++..-  ..+++.+||.|+.++.+.   -.-+++++..++|+
T Consensus       129 DYIKNMItGaaqMDGaILVVaatDG~MPQT-rEHlLLArQVGV--~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf  205 (449)
T KOG0460|consen  129 DYIKNMITGAAQMDGAILVVAATDGPMPQT-REHLLLARQVGV--KHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGF  205 (449)
T ss_pred             HHHHHhhcCccccCceEEEEEcCCCCCcch-HHHHHHHHHcCC--ceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCC
Confidence            775433333447899999999999542221 222222233222  257888999999854332   22356677777775


Q ss_pred             -----eEEEEcCC
Q psy3029         244 -----TYYETSAL  251 (617)
Q Consensus       244 -----~~~evSAk  251 (617)
                           |++.=||.
T Consensus       206 ~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  206 DGDNTPVIRGSAL  218 (449)
T ss_pred             CCCCCCeeecchh
Confidence                 77765554

>cd04176 Rap2 Rap2 subgroup

Probab=97.33  E-value=0.0002  Score=67.19  Aligned_cols=53  Identities=25%  Similarity=0.382  Sum_probs=44.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++ ++..+.+.+++..+.|+|-
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~   54 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEIL   54 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEE
Confidence            4556666669999999999999999999999997 5657899999988888764

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=97.32  E-value=0.00024  Score=67.39  Aligned_cols=54  Identities=19%  Similarity=0.196  Sum_probs=46.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||+++++++.+.|...+.||++.++..+.+..+++.+.|++.
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   54 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVW   54 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEE
Confidence            356677777999999999999999999999999999988888888888888764

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>PLN03108 Rab family protein; Provisional

Probab=97.32  E-value=0.00023  Score=70.45  Aligned_cols=53  Identities=26%  Similarity=0.316  Sum_probs=47.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +|++++|..++|||+++++++...|...+.||+|.+|..+.+.++++.+.|++
T Consensus         7 ~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l   59 (210)
T PLN03108          7 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQI   59 (210)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEE
Confidence            56677777799999999999999999889999999999999999998888776

>TIGR00092 GTP-binding protein YchF

Probab=97.29  E-value=0.00077  Score=71.84  Aligned_cols=74  Identities=15%  Similarity=0.042  Sum_probs=45.7

Q ss_pred             CCCCCHHHHHHHHHcCCC-CC-ccC-CCcceeEEEEEEEECCe---------------EEEEEEEecCCcccc----cc-
Q psy3029         114 WLGVGKTSMVVRYIGKMF-SH-HIS-PTIGASFFTAKINVGEN---------------KVKLQVWDTAGQERF----RS-  170 (617)
Q Consensus       114 ~~nVGKSSLinrl~~~~~-~~-~~~-~t~g~~~~~~~i~~~~~---------------~~~l~i~Dt~G~e~~----~~-  170 (617)
                      .||||||||+|.|++... .. .|. .|+.....  .+.+.+.               ...+.++|+||...-    .. 
T Consensus        10 lPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g--~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs~g~Gl   87 (368)
T TIGR00092        10 LPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAG--VVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGASKGEGL   87 (368)
T ss_pred             CCCCChHHHHHHHhCCCccccCCCCCCCCCCcee--EEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchhcccCc
Confidence            399999999999998764 22 222 12222222  2233221               236889999996432    12 


Q ss_pred             --cchhhhccCCEEEEEEeCC
Q psy3029         171 --MAPMYYRNANAALLVFDIT  189 (617)
Q Consensus       171 --~~~~~~~~ad~iIlV~Dis  189 (617)
                        ..-..++++|++++|++..
T Consensus        88 gn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        88 GNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             chHHHHHHHhCCEEEEEEeCC
Confidence              2233467999999999975

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd01860 Rab5_related Rab5-related subfamily

Probab=97.29  E-value=0.00029  Score=65.88  Aligned_cols=54  Identities=31%  Similarity=0.458  Sum_probs=47.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||+++++++.+.+...+.+|+|.+|..+.+.+++..++|+|-
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~   55 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIW   55 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            456666666999999999999999988889999999999999999988888854

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>KOG1191|consensus

Probab=97.28  E-value=0.00034  Score=75.46  Aligned_cols=60  Identities=20%  Similarity=0.203  Sum_probs=53.1

Q ss_pred             hhheeeeccCCCCCCCcceeeeeeecccccccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCCc
Q psy3029         314 ETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLKV  389 (617)
Q Consensus       314 ~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~  389 (617)
                      ++.++|+|+|                |||||+++|.+..+.- .....|.+..|.....++++|..|.|--++|+..
T Consensus       268 gl~iaIvGrP----------------NvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe  328 (531)
T KOG1191|consen  268 GLQIAIVGRP----------------NVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIRE  328 (531)
T ss_pred             CCeEEEEcCC----------------CCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCeEEEEEecccccc
Confidence            4779999999                9999999999997653 4566888889999999999999999999999987

>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation

Probab=97.27  E-value=0.0022  Score=53.43  Aligned_cols=72  Identities=15%  Similarity=0.191  Sum_probs=57.1

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      ++.++.+++|++|+|.+|||..|+|++.++.+-+.++|+=|...++...  .. -.-.+.+.|.+..|.-|..+|
T Consensus         2 ~~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNi~L~n~~~~~~~~~--~~-~~~~~~v~IRG~~I~~I~lp~   73 (81)
T cd01725           2 FFSFFKTLVGKEVTVELKNDLSIRGTLHSVDQYLNIKLTNISVTDPEKY--PH-MLSVKNCFIRGSVVRYVQLPA   73 (81)
T ss_pred             hhHHHHhCCCCEEEEEECCCcEEEEEEEEECCCcccEEEEEEEEcCCCc--cc-ccccCeEEEECCEEEEEEeCh
Confidence            3567889999999999999999999999999999999999876543221  11 112267889999999888876

Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm2 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.

>cd01861 Rab6 Rab6 subfamily

Probab=97.26  E-value=0.00031  Score=65.53  Aligned_cols=53  Identities=28%  Similarity=0.403  Sum_probs=45.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|.+++|||+++++++...+...+.||++.+|..+.+.+++..++|++-
T Consensus         2 ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~   54 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLW   54 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEE
Confidence            45555666999999999999999998899999999999999999988877754

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd04134 Rho3 Rho3 subfamily

Probab=97.26  E-value=0.00027  Score=68.52  Aligned_cols=52  Identities=21%  Similarity=0.173  Sum_probs=44.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|..++|||+++.+|..+.|...|.||++..| .+.+.++++.+.|+|-
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~-~~~i~~~~~~~~l~i~   53 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-VHDIFVDGLHIELSLW   53 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeee-EEEEEECCEEEEEEEE
Confidence            455666669999999999999999999999999988 5678889988888874

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd01862 Rab7 Rab7 subfamily

Probab=97.24  E-value=0.00035  Score=65.93  Aligned_cols=52  Identities=38%  Similarity=0.516  Sum_probs=44.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +++++|..++|||++++++....+...+.+|++.+|..+.+.+++..+.|++
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~   53 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQI   53 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEE
Confidence            4555666699999999999999999889999999999999999998877663

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd04127 Rab27A Rab27a subfamily

Probab=97.24  E-value=0.00031  Score=67.14  Aligned_cols=45  Identities=24%  Similarity=0.274  Sum_probs=38.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEEC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG  375 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d  375 (617)
                      +|++++|.+++|||++++++..+.|...+.||+|.+|..+.+.++
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~   49 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYN   49 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEc
Confidence            455666666999999999999999999999999999988877765

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.23  E-value=0.0034  Score=60.23  Aligned_cols=86  Identities=23%  Similarity=0.164  Sum_probs=60.5

Q ss_pred             eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         153 NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      ..+.+.|+||++...  ......+..+|.+|+++..+ ..+...+.+++..+.+.   ++|+.+|+||+|....   ..+
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~~---~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHF---GIPVGVVINKYDLNDE---IAE  161 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCcc---hHH
Confidence            457889999996532  23445678899999999876 34667777777666553   3578899999996432   234


Q ss_pred             HHHHHHHhcCCeEEE
Q psy3029         233 EAFHYSKSIGGTYYE  247 (617)
Q Consensus       233 e~~~~~~~~g~~~~e  247 (617)
                      +..+++++++++++.
T Consensus       162 ~~~~~~~~~~~~vl~  176 (179)
T cd03110         162 EIEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHHcCCCeEE
Confidence            566778888887653

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>cd01870 RhoA_like RhoA-like subfamily

Probab=97.22  E-value=0.00032  Score=66.62  Aligned_cols=53  Identities=23%  Similarity=0.209  Sum_probs=45.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||++++++..+.|...|.||++..| .+.+.++++.+.|+|-
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   54 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALW   54 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEE
Confidence            4677777779999999999999999999999999887 4678899988888764

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.22  E-value=0.0012  Score=71.97  Aligned_cols=94  Identities=17%  Similarity=0.136  Sum_probs=52.9

Q ss_pred             EEEEEEEecCCcccccc-cc---hhh--hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc
Q psy3029         154 KVKLQVWDTAGQERFRS-MA---PMY--YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR  227 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~-~~---~~~--~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~  227 (617)
                      .+.+.|+||+|...... +.   ..+  ..+.+.++||+|+.-...-..   ....+.+..   -+--+|.||.|.... 
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~---~a~~F~~~~---~~~g~IlTKlD~~ar-  254 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEA---QAKAFKDSV---DVGSVIITKLDGHAK-  254 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHH---HHHHHHhcc---CCcEEEEECccCCCC-
Confidence            46789999999643221 11   111  225788999999875432221   222232222   145688999997432 


Q ss_pred             ccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       228 ~v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                         .-.+..+....+.|+.+++  +|+.++++
T Consensus       255 ---gG~aLs~~~~t~~PI~fig--~Ge~v~Dl  281 (429)
T TIGR01425       255 ---GGGALSAVAATKSPIIFIG--TGEHIDDF  281 (429)
T ss_pred             ---ccHHhhhHHHHCCCeEEEc--CCCChhhc
Confidence               1224455666677776665  45555554

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A

Probab=97.22  E-value=0.0018  Score=55.54  Aligned_cols=73  Identities=16%  Similarity=0.274  Sum_probs=56.6

Q ss_pred             hHhhcCCEEEEEEeCCcEEEEEEeeecC-CceEEEEeeeecCCCC----CCCCCCCcccceeeeecCceeEEEecccc
Q psy3029         456 ITLHIGDKVTVYTVHGKQFEGYLKTFSK-QFELVISMTHQVDPEN----PQCIDPNTVVDMKIFKLDDIVRIEAKNVD  528 (617)
Q Consensus       456 ~~~~iG~~v~v~~~~G~~y~Gi~~~~s~-~~~~~l~~~~~~~~~~----~~~~~~~~~~~~l~~~~~d~v~~~~~~v~  528 (617)
                      ...+||+.|.+..|++.+|||+|++.+. +..|+|+-++.--.+.    ...+..+++-+.++|.+.||-++.+-+..
T Consensus         3 ~~~~IGs~ISlisk~~iRYeG~L~~Id~~~sTItL~nVr~~GtE~R~~~~~ipp~~~v~~~I~Fr~sDIkdL~v~e~~   80 (96)
T PF12701_consen    3 ADPYIGSKISLISKSDIRYEGILYSIDTEDSTITLKNVRSFGTEGRPTDREIPPSDEVYDYIVFRGSDIKDLKVIEPP   80 (96)
T ss_dssp             CCCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEETTETTSS-SS---C-CSSSSEEEEETTTEEEEEECE-S
T ss_pred             cccccCCEEEEEECCCcEEEEEEEEEcCCCCEEEeeeeeecCcCCCCcCcccCCCCceeeEEEEEccccceEEEEcCC
Confidence            4568999999999999999999999986 6789999988763221    23344577888999999999999886643

>PRK12288 GTPase RsgA; Reviewed

Probab=97.21  E-value=0.00035  Score=74.47  Aligned_cols=58  Identities=17%  Similarity=0.174  Sum_probs=33.7

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCCCC--ccCC--Ccc--eeEEEEEEEECCeEEEEEEEecCCcccc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMFSH--HISP--TIG--ASFFTAKINVGENKVKLQVWDTAGQERF  168 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~~~--~~~~--t~g--~~~~~~~i~~~~~~~~l~i~Dt~G~e~~  168 (617)
                      ..+|+|.+|||||||||+|++.....  ....  ..|  .+.....+.+.++   ..++||||...+
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~---~~liDTPGir~~  270 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHG---GDLIDSPGVREF  270 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCC---CEEEECCCCCcc
Confidence            35566779999999999999764311  1111  111  1223333444332   248999998654

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=97.18  E-value=0.00032  Score=68.96  Aligned_cols=49  Identities=18%  Similarity=0.242  Sum_probs=45.0

Q ss_pred             eeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         336 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       336 ~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|..+||||+++.+|+.+.|...|.||||.+|..+.+.++++.++|+|-
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iw   49 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVW   49 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEE
Confidence            4677999999999999999999999999999999999999999999874

Ran is involved in the active transport of proteins through nuclear pores.

>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation

Probab=97.18  E-value=0.0032  Score=52.10  Aligned_cols=69  Identities=13%  Similarity=0.141  Sum_probs=55.3

Q ss_pred             hHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEe
Q psy3029         451 RFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEA  524 (617)
Q Consensus       451 r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~  524 (617)
                      -|+.++.+++|..|+|.+|||..|.|.+.++..-+.+.|+-|..++.....     .-.+.+.|.+..|.-|.+
T Consensus         9 tl~~~L~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~~~~~~~~~~~-----~~~~~v~IRG~nI~yI~l   77 (78)
T cd01733           9 TLIILLQGLQGKVVTVELRNETTVTGRIASVDAFMNIRLAKVTIIDRNGKQ-----VQVEEIMVTGRNIRYVHI   77 (78)
T ss_pred             hHHHHHHHCCCCEEEEEECCCCEEEEEEEEEcCCceeEEEEEEEEcCCCce-----eECCcEEEECCEEEEEEc
Confidence            478899999999999999999999999999999999999999877543211     123567778777776654

Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm10 is an SmD1-like protein which is thought to bind U7 snRNA along with LSm11 and five other Sm subunits to form a 7-member ring structure. LSm10 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.

>cd01866 Rab2 Rab2 subfamily

Probab=97.17  E-value=0.00046  Score=65.38  Aligned_cols=55  Identities=25%  Similarity=0.297  Sum_probs=46.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ++++++|..++|||+++++++...+...+.+|+|.++..+.+.+++..+.++|.-
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D   59 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWD   59 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEE
Confidence            4555555669999999999999999999999999999999999999877777653

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=97.17  E-value=0.00051  Score=68.03  Aligned_cols=55  Identities=22%  Similarity=0.177  Sum_probs=47.4

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|..++|||+++++++.+.|...|.||+|.++..+.+..++..+.+++-
T Consensus         9 ~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~   63 (215)
T PTZ00132          9 EFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVW   63 (215)
T ss_pred             CceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEE
Confidence            3555556666999999999999999999999999999998888889988888874

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=97.17  E-value=0.0017  Score=70.65  Aligned_cols=133  Identities=14%  Similarity=0.129  Sum_probs=74.0

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEE
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVF  186 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~  186 (617)
                      +.+|++|+||+|||||+..|+..-.........|    ..+ .+.++.-++.|..++.  ....++. ..+-+|++||++
T Consensus        70 fIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~G----PiT-vvsgK~RRiTflEcp~--Dl~~miD-vaKIaDLVlLlI  141 (1077)
T COG5192          70 FIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRG----PIT-VVSGKTRRITFLECPS--DLHQMID-VAKIADLVLLLI  141 (1077)
T ss_pred             eEEEeecCCCCChhHHHHHHHHHHHHhhhhccCC----ceE-EeecceeEEEEEeChH--HHHHHHh-HHHhhheeEEEe
Confidence            3334445599999999998875422111111111    222 2456777899999883  2333333 234689999999


Q ss_pred             eCCChhhHHH-HHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH------HHHHh-cCCeEEEEcCCC
Q psy3029         187 DITQYHSFAA-IKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF------HYSKS-IGGTYYETSALQ  252 (617)
Q Consensus       187 Dis~~~S~~~-l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~------~~~~~-~g~~~~evSAkt  252 (617)
                      |..-.  |+. .-++|..+..+..  ..|+-|+|+.||..... +...+.      -|..- .|+.+|.+|-..
T Consensus       142 dgnfG--fEMETmEFLnil~~HGm--PrvlgV~ThlDlfk~~s-tLr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         142 DGNFG--FEMETMEFLNILISHGM--PRVLGVVTHLDLFKNPS-TLRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             ccccC--ceehHHHHHHHHhhcCC--CceEEEEeecccccChH-HHHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence            97543  322 1245555544432  24778999999964321 111111      11111 267888888653

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.15  E-value=0.00071  Score=71.28  Aligned_cols=97  Identities=20%  Similarity=0.230  Sum_probs=58.6

Q ss_pred             eEEEEEEEecCCcccccc----cchhhh--------ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         153 NKVKLQVWDTAGQERFRS----MAPMYY--------RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~----~~~~~~--------~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      ..+.+.|+||+|......    ....+.        ...+..++|+|++...  +.+.+ .....+...   +.-+|.||
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~-a~~f~~~~~---~~giIlTK  268 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQ-AKAFHEAVG---LTGIILTK  268 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHH-HHHHHhhCC---CCEEEEEC
Confidence            346789999999743221    111111        2467889999988543  33332 122222111   34689999


Q ss_pred             CCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHH
Q psy3029         221 TDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       221 ~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~  261 (617)
                      .|....    .-.+..++...++|+..++  +|+++++|..
T Consensus       269 lD~t~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        269 LDGTAK----GGVVFAIADELGIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             CCCCCC----ccHHHHHHHHHCCCEEEEe--CCCChhhCcc
Confidence            995432    2345566777899999998  8888877743

>cd04144 Ras2 Ras2 subfamily

Probab=97.15  E-value=0.00033  Score=68.02  Aligned_cols=51  Identities=24%  Similarity=0.257  Sum_probs=43.4

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..+||||+++++|+.+.|...|.||++..| .+.+.+++..+.|+|-
T Consensus         2 i~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   52 (190)
T cd04144           2 LVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVL   52 (190)
T ss_pred             EEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEE
Confidence            45555669999999999999999999999999877 5678899998888876

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04113 Rab4 Rab4 subfamily

Probab=97.14  E-value=0.0005  Score=64.29  Aligned_cols=54  Identities=30%  Similarity=0.370  Sum_probs=46.5

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      |++++|..++|||+++++++.+.|...+.+|++.++..+.+.++++.+.|++--
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D   55 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWD   55 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEE
Confidence            455556669999999999999999999999999999999999999888887653

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>KOG0393|consensus

Probab=97.11  E-value=0.00059  Score=66.25  Aligned_cols=53  Identities=25%  Similarity=0.281  Sum_probs=46.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEEC-CEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d-~~~v~LqI~  384 (617)
                      +|++++|+..+||||++..|..+.|+..|.||+...| +..++++ |+.|.|.+-
T Consensus         5 ~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVFdny-s~~v~V~dg~~v~L~Lw   58 (198)
T KOG0393|consen    5 IKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVFDNY-SANVTVDDGKPVELGLW   58 (198)
T ss_pred             eEEEEECCCCcCceEEEEEeccCcCcccccCeEEccc-eEEEEecCCCEEEEeee
Confidence            5677777779999999999999999999999999888 7789995 999988754

>cd04148 RGK RGK subfamily

Probab=97.11  E-value=0.00045  Score=68.98  Aligned_cols=53  Identities=15%  Similarity=0.192  Sum_probs=45.0

Q ss_pred             eeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..+||||+++++|+.+.|. ..|.||++.++..+++.+++..+.|+|-
T Consensus         2 KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~   55 (221)
T cd04148           2 RVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVI   55 (221)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEE
Confidence            5566666699999999999988887 7788999888889999999988888754

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>cd04124 RabL2 RabL2 subfamily

Probab=97.09  E-value=0.0006  Score=64.15  Aligned_cols=53  Identities=11%  Similarity=0.114  Sum_probs=45.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|.+++|||+++.+++.+.|...+.+|++.++..+.+.++++.+.|+|-
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   54 (161)
T cd04124           2 KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFW   54 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEE
Confidence            45556666999999999999999998888999988888888999998888863

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd04112 Rab26 Rab26 subfamily

Probab=97.09  E-value=0.00055  Score=66.46  Aligned_cols=53  Identities=32%  Similarity=0.360  Sum_probs=44.7

Q ss_pred             eeeeeeecccccccceeccccCcccC-ccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~-~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|..++|||++++++..+.|.. .+.+|++.+|..+.+.+++..+.++|-
T Consensus         2 Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   55 (191)
T cd04112           2 KVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIW   55 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEE
Confidence            45666666999999999999998864 688999999988889999988888753

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>KOG1491|consensus

Probab=97.08  E-value=0.0019  Score=66.93  Aligned_cols=78  Identities=18%  Similarity=0.146  Sum_probs=46.8

Q ss_pred             CCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC---------------CeEEEEEEEecCCcccc----cccch
Q psy3029         113 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG---------------ENKVKLQVWDTAGQERF----RSMAP  173 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~---------------~~~~~l~i~Dt~G~e~~----~~~~~  173 (617)
                      |.||||||||+|.|+.....+...|-..++-..-.+.+.               .....++++|++|.-+-    ..+-.
T Consensus        27 GlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGAs~G~GLGN  106 (391)
T KOG1491|consen   27 GLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGASAGEGLGN  106 (391)
T ss_pred             eCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCcccCcCchH
Confidence            339999999999999876544333322221111122221               13457999999986322    22333


Q ss_pred             hh---hccCCEEEEEEeCCC
Q psy3029         174 MY---YRNANAALLVFDITQ  190 (617)
Q Consensus       174 ~~---~~~ad~iIlV~Dis~  190 (617)
                      .|   ++.+|+++-|+++..
T Consensus       107 ~FLs~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen  107 KFLSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             HHHHhhhhccceeEEEEecC
Confidence            33   568999999987643

>KOG2423|consensus

Probab=97.06  E-value=0.0018  Score=67.97  Aligned_cols=84  Identities=18%  Similarity=0.149  Sum_probs=53.0

Q ss_pred             hhccCCEEEEEEeCCChhh--HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCC
Q psy3029         175 YYRNANAALLVFDITQYHS--FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQ  252 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S--~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAkt  252 (617)
                      .+..+|++|-|+|++||-.  -..+.+++..   ..+. ..+|+|+||+||... .++..-...+.+++-.--|..|-.+
T Consensus       210 ViDSSDVvvqVlDARDPmGTrc~~ve~ylkk---e~ph-KHli~vLNKvDLVPt-wvt~~Wv~~lSkeyPTiAfHAsi~n  284 (572)
T KOG2423|consen  210 VIDSSDVVVQVLDARDPMGTRCKHVEEYLKK---EKPH-KHLIYVLNKVDLVPT-WVTAKWVRHLSKEYPTIAFHASINN  284 (572)
T ss_pred             hhcccceeEEeeeccCCcccccHHHHHHHhh---cCCc-ceeEEEeeccccccH-HHHHHHHHHHhhhCcceeeehhhcC
Confidence            3558999999999999864  2334444433   3333 478999999999652 2333333444555544456667667


Q ss_pred             CCCHHHHHHHH
Q psy3029         253 DQGIEDVFLNV  263 (617)
Q Consensus       253 g~gI~eLf~~I  263 (617)
                      ..|--.|++.|
T Consensus       285 sfGKgalI~ll  295 (572)
T KOG2423|consen  285 SFGKGALIQLL  295 (572)
T ss_pred             ccchhHHHHHH
Confidence            77766666544

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=97.05  E-value=0.00064  Score=63.53  Aligned_cols=52  Identities=23%  Similarity=0.308  Sum_probs=43.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +|++++|..++|||+++++++.+.|...+.||++..| .+.+.++++.++++|
T Consensus         3 ~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i   54 (164)
T cd04145           3 YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWAILDI   54 (164)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEECCEEEEEEE
Confidence            4555666669999999999999999988999998766 677889998888776

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>KOG2485|consensus

Probab=97.05  E-value=0.0019  Score=66.19  Aligned_cols=174  Identities=16%  Similarity=0.035  Sum_probs=93.8

Q ss_pred             ecCCccc-ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHH
Q psy3029         161 DTAGQER-FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSK  239 (617)
Q Consensus       161 Dt~G~e~-~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~  239 (617)
                      +.+|+-- --..++.-+...|+||-|=|++-|-|-.+.     .+.+..+ ..|-|||.||+||.+..+ ....++.+..
T Consensus        28 wfpgHmakalr~i~~~l~~~D~iiEvrDaRiPLssrn~-----~~~~~~~-~k~riiVlNK~DLad~~~-~k~~iq~~~~  100 (335)
T KOG2485|consen   28 WFPGHMAKALRAIQNRLPLVDCIIEVRDARIPLSSRNE-----LFQDFLP-PKPRIIVLNKMDLADPKE-QKKIIQYLEW  100 (335)
T ss_pred             cCchHHHHHHHHHHhhcccccEEEEeeccccCCccccH-----HHHHhcC-CCceEEEEecccccCchh-hhHHHHHHHh
Confidence            4566521 113345567789999999999888654331     1222222 357899999999976432 1223333443


Q ss_pred             hcCCeEEEEcCC--CCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhhe
Q psy3029         240 SIGGTYYETSAL--QDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAK  317 (617)
Q Consensus       240 ~~g~~~~evSAk--tg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v  317 (617)
                      +....++..++.  ...++..++..+.....+.....                                  .....+..+
T Consensus       101 ~~~~~~~~~~c~~~~~~~v~~l~~il~~~~~~l~r~i----------------------------------rt~~~~~~v  146 (335)
T KOG2485|consen  101 QNLESYIKLDCNKDCNKQVSPLLKILTILSEELVRFI----------------------------------RTLNSEYNV  146 (335)
T ss_pred             hcccchhhhhhhhhhhhccccHHHHHHHHHHHHHHhh----------------------------------cccCCceeE
Confidence            433344444444  33346666655443332211000                                  001124568


Q ss_pred             eeeccCCCCCCCcceeeeeeecccccccceecccc------CcccCccCCccceeeEEEEEEECCEEEEEEeecCCCcee
Q psy3029         318 FVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIG------KMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSK  391 (617)
Q Consensus       318 ~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~------~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~~~  391 (617)
                      +|||-|                +||||++++....      +.-.....|.|..+.....-..+...|-+=-++|..+-.
T Consensus       147 mVvGvP----------------NVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp~vy~iDTPGil~P~  210 (335)
T KOG2485|consen  147 MVVGVP----------------NVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRPPVYLIDTPGILVPS  210 (335)
T ss_pred             EEEcCC----------------CCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCCceEEecCCCcCCCC
Confidence            888888                9999999986653      222334456665555332222234445555566665433

>smart00175 RAB Rab subfamily of small GTPases

Probab=97.05  E-value=0.00072  Score=63.12  Aligned_cols=53  Identities=36%  Similarity=0.414  Sum_probs=44.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|.+++|||++++++....+...+.+|++.++....+.++++.+.+++-
T Consensus         2 kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   54 (164)
T smart00175        2 KIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIW   54 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEE
Confidence            45555555999999999999999988899999999998999999987777653

Rab GTPases are implicated in vesicle trafficking.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=97.05  E-value=0.00054  Score=64.22  Aligned_cols=51  Identities=22%  Similarity=0.346  Sum_probs=43.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      |++++|..++|||++++++..+.|...+.||++..+ .+.+.++++.++|++
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i   52 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIEDSY-RKQIEIDGEVCLLDI   52 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCcccCCchhhhE-EEEEEECCEEEEEEE
Confidence            556666669999999999999999999999998655 788899998888876

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>PRK13796 GTPase YqeH; Provisional

Probab=97.04  E-value=0.00085  Score=72.18  Aligned_cols=58  Identities=19%  Similarity=0.130  Sum_probs=41.3

Q ss_pred             CccccCCCCCCCCHHHHHHHHHcCCC----CCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc
Q psy3029         106 NCFEANWFWLGVGKTSMVVRYIGKMF----SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE  166 (617)
Q Consensus       106 ~~~~~i~G~~nVGKSSLinrl~~~~~----~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e  166 (617)
                      ...++++|.+|||||||||+|+....    .....+.+|.+.....+.+++.   ..++||||..
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            34567778899999999999985431    2234566777777666666443   3799999974

>PRK14974 cell division protein FtsY; Provisional

Probab=97.02  E-value=0.0005  Score=72.79  Aligned_cols=95  Identities=19%  Similarity=0.235  Sum_probs=57.5

Q ss_pred             EEEEEEecCCcccccc-c---chhhh--ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc
Q psy3029         155 VKLQVWDTAGQERFRS-M---APMYY--RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE  228 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~-~---~~~~~--~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~  228 (617)
                      +.+.|+||+|...... +   .+.+.  .+.|.++||+|+.....  .+ +....+....+   .--+|.||.|....- 
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d--~~-~~a~~f~~~~~---~~giIlTKlD~~~~~-  295 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGND--AV-EQAREFNEAVG---IDGVILTKVDADAKG-  295 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchh--HH-HHHHHHHhcCC---CCEEEEeeecCCCCc-
Confidence            4689999999753221 1   12222  25789999999866432  11 11222222121   235889999975322 


Q ss_pred             cCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHH
Q psy3029         229 VNREEAFHYSKSIGGTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       229 v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~  261 (617)
                         -.+..++...+.|+.+++  +|++++++..
T Consensus       296 ---G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~  323 (336)
T PRK14974        296 ---GAALSIAYVIGKPILFLG--VGQGYDDLIP  323 (336)
T ss_pred             ---cHHHHHHHHHCcCEEEEe--CCCChhhccc
Confidence               234556667788998887  7999988754

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.01  E-value=0.00069  Score=68.81  Aligned_cols=61  Identities=20%  Similarity=0.124  Sum_probs=35.7

Q ss_pred             CCCccccCCCCCCCCHHHHHHHHHcCCCCC--ccCC----CcceeEEEEEEEECCeEEEEEEEecCCcccc
Q psy3029         104 VPNCFEANWFWLGVGKTSMVVRYIGKMFSH--HISP----TIGASFFTAKINVGENKVKLQVWDTAGQERF  168 (617)
Q Consensus       104 ~~~~~~~i~G~~nVGKSSLinrl~~~~~~~--~~~~----t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~  168 (617)
                      +..-..+++|.+|||||||+|+|++.....  ....    ....+.....+.+.+    -.++||||...+
T Consensus       118 l~~~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~----~~liDtPG~~~~  184 (245)
T TIGR00157       118 LQNRISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHG----GLIADTPGFNEF  184 (245)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCC----cEEEeCCCcccc
Confidence            334466677779999999999998753211  1111    111233333344432    269999997543

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=97.01  E-value=0.00071  Score=63.41  Aligned_cols=52  Identities=27%  Similarity=0.296  Sum_probs=42.6

Q ss_pred             eeeeeeecccccccceeccccC--cccCccCCccceeeEEEEEEEC-CEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGK--MFSHHISPTIGASFFTAKINVG-ENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~--~f~~~~~pTIg~df~~k~v~~d-~~~v~LqI  383 (617)
                      |++++|.+++|||++++++..+  .|...|.||+|.++..+.+.++ +..+.|++
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i   56 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFI   56 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEE
Confidence            4556666699999999999865  7889999999999988888886 46677765

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.00  E-value=0.0012  Score=70.86  Aligned_cols=57  Identities=19%  Similarity=0.162  Sum_probs=38.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCC----CCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMF----SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER  167 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~----~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~  167 (617)
                      .++++|.+|||||||+|+|++...    .....+.+|.+.....+.+++.   +.++||||...
T Consensus       156 ~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~~  216 (360)
T TIGR03597       156 DVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGIIN  216 (360)
T ss_pred             eEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCCC
Confidence            345555599999999999997532    1244556676666555554332   57999999753

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>KOG2484|consensus

Probab=97.00  E-value=0.00035  Score=73.54  Aligned_cols=56  Identities=14%  Similarity=0.192  Sum_probs=45.3

Q ss_pred             CccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029         106 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus       106 ~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      +.+++|+|+|||||||+||+|...+. -...+++|++...+.+..+.   .+.|+|.||.
T Consensus       252 sIrvGViG~PNVGKSSvINsL~~~k~-C~vg~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  252 SIRVGIIGYPNVGKSSVINSLKRRKA-CNVGNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             ceEeeeecCCCCChhHHHHHHHHhcc-ccCCCCccchhhhhheeccC---CceeccCCce
Confidence            47888889999999999999998773 45667888887777776554   4789999996

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=96.99  E-value=0.0018  Score=79.76  Aligned_cols=106  Identities=19%  Similarity=0.244  Sum_probs=64.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCc------cCCCcceeEEEEEEEECCeEEEEEEEecCCcc--------cccccchhhh----
Q psy3029         115 LGVGKTSMVVRYIGKMFSHH------ISPTIGASFFTAKINVGENKVKLQVWDTAGQE--------RFRSMAPMYY----  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e--------~~~~~~~~~~----  176 (617)
                      +|+|||||+++- +-.|.-.      ....++.+. .....+.+   +-.++||+|..        .....|..++    
T Consensus       120 ~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~-~c~wwf~~---~avliDtaG~y~~~~~~~~~~~~~W~~fL~~L~  194 (1169)
T TIGR03348       120 PGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTR-NCDWWFTD---EAVLIDTAGRYTTQDSDPEEDAAAWLGFLGLLR  194 (1169)
T ss_pred             CCCchhHHHHhC-CCCCcCchhhccccccCCCCCc-ccceEecC---CEEEEcCCCccccCCCcccccHHHHHHHHHHHH
Confidence            999999999987 3333211      111122221 11222222   34589999931        1222343333    


Q ss_pred             -----ccCCEEEEEEeCCChhh--H-------HHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         177 -----RNANAALLVFDITQYHS--F-------AAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       177 -----~~ad~iIlV~Dis~~~S--~-------~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                           +..++||+++|+.+-..  -       ..+...+.++.+...-.+||.||.||+|+..
T Consensus       195 k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       195 KHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             HhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence                 25899999999876421  1       2345567777777777799999999999863

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>cd04140 ARHI_like ARHI subfamily

Probab=96.98  E-value=0.00074  Score=63.65  Aligned_cols=54  Identities=28%  Similarity=0.396  Sum_probs=44.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ++++++|..++|||+++++++.+.|...+.||++..| .+.+..+++.+.|++--
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D   55 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITD   55 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEE
Confidence            4556666669999999999999999999999998777 66777888888877653

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>cd04177 RSR1 RSR1 subgroup

Probab=96.97  E-value=0.00074  Score=63.87  Aligned_cols=52  Identities=21%  Similarity=0.380  Sum_probs=43.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||++++++..+.|...+.||++..| .+.+.+++..+.++|-
T Consensus         3 ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   54 (168)
T cd04177           3 KIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSY-RKQVEIDGRQCDLEIL   54 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEE
Confidence            445555559999999999999999999999999776 7889999988888864

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>PRK12289 GTPase RsgA; Reviewed

Probab=96.97  E-value=0.0012  Score=70.52  Aligned_cols=56  Identities=20%  Similarity=0.188  Sum_probs=34.2

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCCCCccCCCcc-------eeEEEEEEEECCeEEEEEEEecCCccc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIG-------ASFFTAKINVGENKVKLQVWDTAGQER  167 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g-------~~~~~~~i~~~~~~~~l~i~Dt~G~e~  167 (617)
                      ..+|+|.+|||||||||+|+.... .......+       .+.....+.+.+..   .++||||...
T Consensus       174 i~v~iG~SgVGKSSLIN~L~~~~~-~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~  236 (352)
T PRK12289        174 ITVVAGPSGVGKSSLINRLIPDVE-LRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQ  236 (352)
T ss_pred             eEEEEeCCCCCHHHHHHHHcCccc-cccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCccc
Confidence            355666699999999999996542 22222222       23334444443332   6899999754

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=96.97  E-value=0.00083  Score=63.91  Aligned_cols=52  Identities=29%  Similarity=0.240  Sum_probs=43.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|..++|||+++.++..+.|...|.||+ .++..+.+.+++..++++|-
T Consensus         2 k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~   53 (173)
T cd04130           2 KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLC   53 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEE
Confidence            56666777999999999999999999999988 55557788999988888754

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd04103 Centaurin_gamma Centaurin gamma

Probab=96.95  E-value=0.00078  Score=63.47  Aligned_cols=51  Identities=25%  Similarity=0.296  Sum_probs=42.2

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++.+|+.+.|...+.|+ +.+| .+++.++++.+.|+|.
T Consensus         2 ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~   52 (158)
T cd04103           2 KLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIR   52 (158)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEE
Confidence            4666777799999999999999998877554 6667 5889999999988885

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation

Probab=96.93  E-value=0.0034  Score=49.40  Aligned_cols=62  Identities=23%  Similarity=0.369  Sum_probs=49.1

Q ss_pred             hHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEE
Q psy3029         456 ITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRI  522 (617)
Q Consensus       456 ~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~  522 (617)
                      +..++|++|.|+++||..|.|+|.++..-+.++|+-+......     ........++|.+..|+.|
T Consensus         1 l~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Ni~L~~~~~~~~~-----~~~~~~~~~~irG~~I~~I   62 (63)
T cd00600           1 LKDLVGKTVRVELKDGRVLEGVLVAFDKYMNLVLDDVEETIKE-----GKKRVLGLVLIRGDNVRLV   62 (63)
T ss_pred             ChHHCCCEEEEEECCCcEEEEEEEEECCCCCEEECCEEEEecC-----CcEEECCeEEEECCEEEEE
Confidence            3568999999999999999999999999999999888765433     1223445778888887765

Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.93  E-value=0.00083  Score=66.35  Aligned_cols=53  Identities=32%  Similarity=0.308  Sum_probs=46.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      ++++++|.+++||||+++++..+.|...+.||++..|..+.+...+..+++++
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~   58 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQL   58 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEe
Confidence            56777777799999999999999999999999999998888888777666664

>cd01863 Rab18 Rab18 subfamily

Probab=96.91  E-value=0.001  Score=62.04  Aligned_cols=52  Identities=31%  Similarity=0.424  Sum_probs=43.6

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +++++|..++|||++++++....+...+.||++.+|....+.++++.+.|++
T Consensus         2 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   53 (161)
T cd01863           2 KILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAI   53 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEE
Confidence            4555555599999999999999998888999999998888888887777664

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>cd03112 CobW_like The function of this protein family is unkown

Probab=96.91  E-value=0.0019  Score=60.97  Aligned_cols=63  Identities=16%  Similarity=0.102  Sum_probs=35.9

Q ss_pred             EEEEEEecCCcccccccchh--------hhccCCEEEEEEeCCChhh-HHHHHHHHHHHHhcCCCCCeEEEEEECCCC
Q psy3029         155 VKLQVWDTAGQERFRSMAPM--------YYRNANAALLVFDITQYHS-FAAIKTWVKELKRNVDEPLVLCVVGNKTDL  223 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~--------~~~~ad~iIlV~Dis~~~S-~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL  223 (617)
                      ....++|++|..+-..+...        ..-.+|.+++++|+..... +.....+..++..   .+   +||.||+|+
T Consensus        87 ~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~---ad---~ivlnk~dl  158 (158)
T cd03112          87 FDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAF---AD---RILLNKTDL  158 (158)
T ss_pred             CCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHH---CC---EEEEecccC
Confidence            45678899997533222222        2236889999999755332 1111223344433   22   578999996

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation

Probab=96.90  E-value=0.0072  Score=51.40  Aligned_cols=71  Identities=8%  Similarity=0.085  Sum_probs=58.6

Q ss_pred             hHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         451 RFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       451 r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      +++.++..++|+.|+|.+|||..|+|.+.++..-+-++|+=|........     ..-.+.+.|.+..|.-+.++|
T Consensus         1 ~~~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~a~~~~~~~~-----~~~~~~v~IRG~nI~yi~lPd   71 (90)
T cd01724           1 KLVRFLMKLTNETVTIELKNGTIVHGTITGVDPSMNTHLKNVKLTLKGRN-----PVPLDTLSIRGNNIRYFILPD   71 (90)
T ss_pred             CHhHHHHhCCCCEEEEEECCCCEEEEEEEEEcCceeEEEEEEEEEcCCCc-----eeEcceEEEeCCEEEEEEcCC
Confidence            46788999999999999999999999999999999999999877643211     112367889999999999876

Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.

>cd04135 Tc10 TC10 subfamily

Probab=96.90  E-value=0.001  Score=63.03  Aligned_cols=52  Identities=23%  Similarity=0.262  Sum_probs=43.1

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|..++|||++++++..+.|...+.||++..| ...+.++++.+.++|-
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   53 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLY   53 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeee-EEEEEECCEEEEEEEE
Confidence            556666669999999999999999988999997665 6678899988877655

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>KOG4252|consensus

Probab=96.89  E-value=3.3e-05  Score=72.30  Aligned_cols=52  Identities=31%  Similarity=0.325  Sum_probs=45.2

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      |++++|..+|||++++.||+.+-|...|.-|||+||....++++++.+.+++
T Consensus        22 K~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~ml   73 (246)
T KOG4252|consen   22 KFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSML   73 (246)
T ss_pred             EEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHH
Confidence            4444455599999999999999999999999999999999999998877764

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=96.88  E-value=0.012  Score=62.07  Aligned_cols=75  Identities=21%  Similarity=0.251  Sum_probs=43.2

Q ss_pred             cCCEEEEEEeCCChhh-HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEcCCCCC
Q psy3029         178 NANAALLVFDITQYHS-FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETSALQDQ  254 (617)
Q Consensus       178 ~ad~iIlV~Dis~~~S-~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evSAktg~  254 (617)
                      ..|.+|-|+|+.+... ...+.+.+..-...+  +   +||+||.|+.+...  .+......++++  ++++.+|. .+.
T Consensus       116 ~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~A--D---~ivlNK~Dlv~~~~--l~~l~~~l~~lnp~A~i~~~~~-~~~  187 (323)
T COG0523         116 RLDGVVTVVDAAHFLEGLDAIAELAEDQLAFA--D---VIVLNKTDLVDAEE--LEALEARLRKLNPRARIIETSY-GDV  187 (323)
T ss_pred             eeceEEEEEeHHHhhhhHHHHHHHHHHHHHhC--c---EEEEecccCCCHHH--HHHHHHHHHHhCCCCeEEEccc-cCC
Confidence            4688999999877543 222333222212222  1   68999999987553  344455555554  47888776 344


Q ss_pred             CHHHHH
Q psy3029         255 GIEDVF  260 (617)
Q Consensus       255 gI~eLf  260 (617)
                      ...+++
T Consensus       188 ~~~~ll  193 (323)
T COG0523         188 DLAELL  193 (323)
T ss_pred             CHHHhh
Confidence            444333

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.88  E-value=0.0058  Score=58.35  Aligned_cols=127  Identities=17%  Similarity=0.262  Sum_probs=64.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec-CCcc----------------------ccc--
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT-AGQE----------------------RFR--  169 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt-~G~e----------------------~~~--  169 (617)
                      +|+|||||+++++..- .....+.-|  |++..+.-++..+-|.+.|. .|.+                      .+.  
T Consensus         8 pG~GKTTll~k~i~~l-~~~~~~v~G--f~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~~e~fe~~   84 (168)
T PF03266_consen    8 PGVGKTTLLKKVIEEL-KKKGLPVGG--FYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVDLESFEEI   84 (168)
T ss_dssp             TTSSHHHHHHHHHHHH-HHTCGGEEE--EEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-HHHHHCC
T ss_pred             CCCCHHHHHHHHHHHh-hccCCccce--EEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEcHHHHHHH
Confidence            9999999999987531 111112333  44555555666677777777 3321                      011  


Q ss_pred             --ccchhhhccCCEEEEEEeCCChhhHHH-HHHHHHHHHhcCCCCCeEEEEEECC-CCCCccccCHHHHHHHHHhcCCeE
Q psy3029         170 --SMAPMYYRNANAALLVFDITQYHSFAA-IKTWVKELKRNVDEPLVLCVVGNKT-DLESSREVNREEAFHYSKSIGGTY  245 (617)
Q Consensus       170 --~~~~~~~~~ad~iIlV~Dis~~~S~~~-l~~~l~~i~~~~~~~iPvIlVgNK~-DL~~~~~v~~~e~~~~~~~~g~~~  245 (617)
                        ...+..+..+|  ++|+|=--+  ++. ...|.+.+......+.|+|.++-+. +..        -..++....++.+
T Consensus        85 ~~~~L~~~~~~~~--liviDEIG~--mEl~~~~F~~~v~~~l~s~~~vi~vv~~~~~~~--------~l~~i~~~~~~~i  152 (168)
T PF03266_consen   85 GLPALRNALSSSD--LIVIDEIGK--MELKSPGFREAVEKLLDSNKPVIGVVHKRSDNP--------FLEEIKRRPDVKI  152 (168)
T ss_dssp             CCCCCHHHHHCCH--EEEE---ST--TCCC-CHHHHHHHHHHCTTSEEEEE--SS--SC--------CHHHHHTTTTSEE
T ss_pred             HHHHHHhhcCCCC--EEEEeccch--hhhcCHHHHHHHHHHHcCCCcEEEEEecCCCcH--------HHHHHHhCCCcEE
Confidence              12233334556  666672221  110 1234455554444557888888777 431        1345666677899


Q ss_pred             EEEcCCCCCCH
Q psy3029         246 YETSALQDQGI  256 (617)
Q Consensus       246 ~evSAktg~gI  256 (617)
                      ++++..+..-+
T Consensus       153 ~~vt~~NRd~l  163 (168)
T PF03266_consen  153 FEVTEENRDAL  163 (168)
T ss_dssp             EE--TTTCCCH
T ss_pred             EEeChhHHhhH
Confidence            99977665543

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>cd04132 Rho4_like Rho4-like subfamily

Probab=96.86  E-value=0.00095  Score=64.25  Aligned_cols=52  Identities=21%  Similarity=0.206  Sum_probs=42.0

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEEC-CEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d-~~~v~LqI~  384 (617)
                      |++++|..++|||++++++..+.|...+.||++.+|. +.+..+ ++.+.|+|-
T Consensus         2 ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~~l~i~   54 (187)
T cd04132           2 KIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYV-TNIQGPNGKIIELALW   54 (187)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeE-EEEEecCCcEEEEEEE
Confidence            3455555599999999999999999999999999984 456775 778888763

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04114 Rab30 Rab30 subfamily

Probab=96.85  E-value=0.0016  Score=61.36  Aligned_cols=54  Identities=30%  Similarity=0.385  Sum_probs=46.7

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      .++++++|.+++|||+++.++..+.+...+.+|+|.++..+.+.++++.+.+++
T Consensus         7 ~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~   60 (169)
T cd04114           7 LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQI   60 (169)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEE
Confidence            356667777799999999999988888888999999999999999998887764

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=96.85  E-value=0.001  Score=63.00  Aligned_cols=50  Identities=26%  Similarity=0.350  Sum_probs=42.9

Q ss_pred             eeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         334 ANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       334 ~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++|..++|||+++.+|..+.|...|.||++..| .+.+.++++.+.|+|-
T Consensus         2 ~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~   51 (174)
T smart00174        2 VVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLW   51 (174)
T ss_pred             EEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEE
Confidence            4566669999999999999999999999998877 5678899998888864

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>cd01873 RhoBTB RhoBTB subfamily

Probab=96.84  E-value=0.001  Score=65.07  Aligned_cols=54  Identities=22%  Similarity=0.054  Sum_probs=39.0

Q ss_pred             ceeeeeeeccccccccee-cccc-----CcccCccCCccce-eeEEEE--------EEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVV-RYIG-----KMFSHHISPTIGA-SFFTAK--------INVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~-~~~~-----~~f~~~~~pTIg~-df~~k~--------v~~d~~~v~LqI~  384 (617)
                      +|++++|..+|||||++. ++..     +.|...|.||||. ++..+.        +.++++.++|+|-
T Consensus         3 ~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iw   71 (195)
T cd01873           3 IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLW   71 (195)
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEE
Confidence            567777777999999996 5543     3466788999974 433332        2679999999875

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>KOG0463|consensus

Probab=96.84  E-value=0.0029  Score=65.98  Aligned_cols=158  Identities=11%  Similarity=0.072  Sum_probs=85.0

Q ss_pred             cCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC------------------CccCCCcceeEEEEEEE------------
Q psy3029         100 INSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS------------------HHISPTIGASFFTAKIN------------  149 (617)
Q Consensus       100 ~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~------------------~~~~~t~g~~~~~~~i~------------  149 (617)
                      .+.++...|+|++|...+|||||+--|..+...                  .-....+|.++.-....            
T Consensus       127 ~~~DF~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~  206 (641)
T KOG0463|consen  127 TEKDFIEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGH  206 (641)
T ss_pred             CCccceeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCC
Confidence            345677777888888999999998776543221                  11122333332211111            


Q ss_pred             -------ECCeEEEEEEEecCCcccccccchhhhc--cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         150 -------VGENKVKLQVWDTAGQERFRSMAPMYYR--NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       150 -------~~~~~~~l~i~Dt~G~e~~~~~~~~~~~--~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                             ..+..-.+.|+|.+|+|+|-...-.-+.  --|..++++-+.-.- .-.-.+.+-....   ..+|+++|.+|
T Consensus       207 ~LdWvkIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGI-iGmTKEHLgLALa---L~VPVfvVVTK  282 (641)
T KOG0463|consen  207 NLDWVKICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGI-IGMTKEHLGLALA---LHVPVFVVVTK  282 (641)
T ss_pred             cccceeeccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccc-eeccHHhhhhhhh---hcCcEEEEEEe
Confidence                   0112235789999999988654322222  245566666543221 0001112222211   23799999999


Q ss_pred             CCCCCccccCHHH---HHHHHHh--------------------------cCCeEEEEcCCCCCCHHHHHHH
Q psy3029         221 TDLESSREVNREE---AFHYSKS--------------------------IGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       221 ~DL~~~~~v~~~e---~~~~~~~--------------------------~g~~~~evSAktg~gI~eLf~~  262 (617)
                      +|+..... ..+.   +..+.+.                          .-|++|.+|-.+|.|++-|...
T Consensus       283 IDMCPANi-LqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmF  352 (641)
T KOG0463|consen  283 IDMCPANI-LQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMF  352 (641)
T ss_pred             eccCcHHH-HHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHHH
Confidence            99865432 1111   1122111                          1258899999999999766544

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=96.81  E-value=0.00086  Score=63.08  Aligned_cols=51  Identities=25%  Similarity=0.457  Sum_probs=43.1

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|.+++|||+++.+++.+.|...|.||++..| .+.+.++++.++++|-
T Consensus         2 i~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   52 (165)
T cd04146           2 IAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEIL   52 (165)
T ss_pred             EEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEE
Confidence            45666669999999999999999888999998777 6778899998888764

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins

Probab=96.79  E-value=0.0058  Score=48.82  Aligned_cols=65  Identities=22%  Similarity=0.357  Sum_probs=52.0

Q ss_pred             HhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEE
Q psy3029         455 AITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIE  523 (617)
Q Consensus       455 ~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~  523 (617)
                      ++..++|++|.|.++||..|+|+|.++..-+-++|+=|........    .......+++.+..|+.|.
T Consensus         2 ~L~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Nl~L~~~~~~~~~~~----~~~~~~~~~irG~~I~~I~   66 (67)
T PF01423_consen    2 FLQKLIGKRVRVELKNGRTYRGTLVSFDQFMNLVLSDVTETIKNGP----EKRSLGLVFIRGSNIRYIS   66 (67)
T ss_dssp             HHHHTTTSEEEEEETTSEEEEEEEEEEETTEEEEEEEEEEEETTES----EEEEEEEEEEEGGGEEEEE
T ss_pred             hhHHhCCcEEEEEEeCCEEEEEEEEEeechheEEeeeEEEEECCCC----cEeECcEEEEECCEEEEEE
Confidence            4678899999999999999999999999999999999988744322    1222346788888888765

In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....

>KOG3859|consensus

Probab=96.79  E-value=0.0024  Score=64.23  Aligned_cols=114  Identities=19%  Similarity=0.293  Sum_probs=68.5

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCc----cCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHH----ISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~----~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      +.|+++|.                      .|.|||||+..|.+-+|...    ..|++.....+..+.-.+-.+++.|+
T Consensus        43 FNilCvGE----------------------Tg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv  100 (406)
T KOG3859|consen   43 FNILCVGE----------------------TGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIV  100 (406)
T ss_pred             EEEEEecc----------------------CCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEE
Confidence            68888888                      99999999999998877443    33444443333333335567899999


Q ss_pred             ecCCcc-------cccc-------cchhhh---------------ccCCEEEEEEeCCChhhHHHHHH-HHHHHHhcCCC
Q psy3029         161 DTAGQE-------RFRS-------MAPMYY---------------RNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE  210 (617)
Q Consensus       161 Dt~G~e-------~~~~-------~~~~~~---------------~~ad~iIlV~Dis~~~S~~~l~~-~l~~i~~~~~~  210 (617)
                      ||.|.-       .|..       +...|+               ...+++++.+..+. .++..++- .+..+.    .
T Consensus       101 ~tvGfGDQinK~~Syk~iVdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTG-H~LKslDLvtmk~Ld----s  175 (406)
T KOG3859|consen  101 DTVGFGDQINKEDSYKPIVDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTG-HSLKSLDLVTMKKLD----S  175 (406)
T ss_pred             eecccccccCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCC-cchhHHHHHHHHHHh----h
Confidence            999851       1111       111221               14677777777654 34554442 122222    2


Q ss_pred             CCeEEEEEECCCCCC
Q psy3029         211 PLVLCVVGNKTDLES  225 (617)
Q Consensus       211 ~iPvIlVgNK~DL~~  225 (617)
                      .+.||-|+-|+|...
T Consensus       176 kVNIIPvIAKaDtis  190 (406)
T KOG3859|consen  176 KVNIIPVIAKADTIS  190 (406)
T ss_pred             hhhhHHHHHHhhhhh
Confidence            345666778888643

>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation

Probab=96.78  E-value=0.0096  Score=48.18  Aligned_cols=68  Identities=12%  Similarity=0.089  Sum_probs=53.9

Q ss_pred             HHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         454 QAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       454 ~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      -++..++|+.|+|.+|||..|.|.+.++..-+-++|+=|...+....    . .-.+.+.|.+..|.-|..+|
T Consensus         3 ~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~~~~~~g~----~-~~~~~v~IRG~nI~~v~lPd   70 (70)
T cd01721           3 KLLHEAEGHIVTVELKTGEVYRGKLIEAEDNMNCQLKDVTVTARDGR----V-SQLEQVYIRGSKIRFFILPD   70 (70)
T ss_pred             HHHhhCCCCEEEEEECCCcEEEEEEEEEcCCceeEEEEEEEECCCCc----E-eEcCcEEEeCCEEEEEEeCC
Confidence            46778899999999999999999999999999999999976533221    1 12367888888888877654

Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.

>cd01736 LSm14_N LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation

Probab=96.77  E-value=0.0056  Score=49.41  Aligned_cols=66  Identities=23%  Similarity=0.386  Sum_probs=51.7

Q ss_pred             HhhcCCEEEEEEeCCcEEEEEEeeecCC-ceEEEEeeeecCCCC-----CCCCCCCcccceeeeecCceeEE
Q psy3029         457 TLHIGDKVTVYTVHGKQFEGYLKTFSKQ-FELVISMTHQVDPEN-----PQCIDPNTVVDMKIFKLDDIVRI  522 (617)
Q Consensus       457 ~~~iG~~v~v~~~~G~~y~Gi~~~~s~~-~~~~l~~~~~~~~~~-----~~~~~~~~~~~~l~~~~~d~v~~  522 (617)
                      +..||+++.+-.|++.+|||+|++.+++ .-|+|+-++---.+.     ...+..+++-+.++|.+.||-++
T Consensus         2 ~~~IG~~isLISk~~iRYeGiL~~In~~~sTi~L~nVr~fGTEgR~~~~~~ipp~~~vyd~IvFrgsDIkDL   73 (74)
T cd01736           2 TPYIGSKISLISKSDIRYEGILYTINTEDSTIALKNVRSFGTEGRPTDGPEIPPSDEVYDYIVFRGSDIKDL   73 (74)
T ss_pred             ccccCceEEEEecCCcEEEEEEEeeccccCEEEeeeeEeecccCCCCCCCccCCCCcceeEEEEcCCccccc
Confidence            4689999999999999999999999865 678898877542221     12344577888999999998765

Members of this family share a highly conserved Sm fold, containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet, that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm14 has an uncharacterized C-terminal domain containing a conserved DFDF box. In Xenopus laevis, LSm14 is an oocyte-specific constituent of ribonucleoprotein particles.

>PLN03118 Rab family protein; Provisional

Probab=96.73  E-value=0.0016  Score=64.26  Aligned_cols=51  Identities=31%  Similarity=0.477  Sum_probs=41.1

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +++++|..++|||+++++++...+. .+.||+|.+|..+.+.+++..+.|+|
T Consensus        16 kv~ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l   66 (211)
T PLN03118         16 KILLIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTI   66 (211)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEE
Confidence            3344444499999999999988774 56899999998899999998777775

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.73  E-value=0.0043  Score=64.03  Aligned_cols=96  Identities=17%  Similarity=0.139  Sum_probs=58.3

Q ss_pred             EEEEEEEecCCccccccc----chhh---h-----ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECC
Q psy3029         154 KVKLQVWDTAGQERFRSM----APMY---Y-----RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKT  221 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~----~~~~---~-----~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~  221 (617)
                      .+.+.|+||+|.......    ...+   .     ...|.+++|+|++..  .+.+.. ...+.+..+   +--+|.||.
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~~-~~~f~~~~~---~~g~IlTKl  227 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALEQ-AKVFNEAVG---LTGIILTKL  227 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHHH-HHHHHhhCC---CCEEEEEcc
Confidence            467899999997533211    1111   1     138999999998753  223322 222222222   346889999


Q ss_pred             CCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHH
Q psy3029         222 DLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       222 DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~  261 (617)
                      |....    .-.+..+....+.|+.+++  +|++++++..
T Consensus       228 De~~~----~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~  261 (272)
T TIGR00064       228 DGTAK----GGIILSIAYELKLPIKFIG--VGEKIDDLAP  261 (272)
T ss_pred             CCCCC----ccHHHHHHHHHCcCEEEEe--CCCChHhCcc
Confidence            97432    2234566667789998888  8888877643

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.73  E-value=0.005  Score=67.03  Aligned_cols=94  Identities=14%  Similarity=0.092  Sum_probs=55.1

Q ss_pred             EEEEEEecCCccccc----ccchhhhc--cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc
Q psy3029         155 VKLQVWDTAGQERFR----SMAPMYYR--NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE  228 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~----~~~~~~~~--~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~  228 (617)
                      ..+.++||+|.....    .....+..  ...-.+||+|++..  ...+.+++.......    .-=+|.||.|-..   
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~--~~~~~~~~~~f~~~~----~~~~I~TKlDEt~---  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSS--GDTLDEVISAYQGHG----IHGCIITKVDEAA---  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCC--HHHHHHHHHHhcCCC----CCEEEEEeeeCCC---
Confidence            467899999964422    12222221  24467889998743  334444444433221    2247899999643   


Q ss_pred             cCHHHHHHHHHhcCCeEEEEcCCCCCCH-HHHH
Q psy3029         229 VNREEAFHYSKSIGGTYYETSALQDQGI-EDVF  260 (617)
Q Consensus       229 v~~~e~~~~~~~~g~~~~evSAktg~gI-~eLf  260 (617)
                       ..-.+..++...++++.+++  +|.+| +++.
T Consensus       341 -~~G~~l~~~~~~~lPi~yvt--~Gq~VP~Dl~  370 (420)
T PRK14721        341 -SLGIALDAVIRRKLVLHYVT--NGQKVPEDLH  370 (420)
T ss_pred             -CccHHHHHHHHhCCCEEEEE--CCCCchhhhh
Confidence             23345677778888887775  57777 4553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	617
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		2e-42
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		6e-04
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		2e-41
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		2e-41
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		8e-38
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		4e-05
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		8e-35
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		6e-34
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		1e-04
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		2e-33
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		2e-33
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		4e-33
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		4e-33
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		5e-33
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		5e-33
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		5e-33
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		5e-33
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		5e-33
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-32
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		2e-32
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		2e-32
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		3e-32
2efc_B	181	Ara7-GdpATVPS9A Length = 181		4e-32
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		7e-32
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		6e-31
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		6e-31
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		3e-30
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		2e-29
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		2e-29
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		5e-29
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		5e-28
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		6e-28
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		8e-28
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		1e-27
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		2e-27
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		2e-27
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		3e-27
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		3e-27
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		3e-27
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		5e-27
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		5e-27
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		5e-27
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		1e-26
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-26
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-26
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		2e-26
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		2e-26
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		2e-26
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		2e-26
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		2e-26
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		2e-26
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		3e-26
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		3e-26
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		4e-26
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		4e-26
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		5e-26
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		7e-26
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		8e-26
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		8e-26
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		1e-25
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		1e-25
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		1e-25
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-25
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		2e-25
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		3e-04
1vg1_A	185	Gdp-bound Rab7 Length = 185		2e-25
1vg1_A	185	Gdp-bound Rab7 Length = 185		4e-04
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		2e-25
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-25
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		4e-25
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		3e-04
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		5e-25
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		7e-25
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		8e-25
4fmc_B	171	Espg-Rab1 Complex Length = 171		8e-25
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		1e-24
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-24
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		1e-24
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		1e-24
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		3e-04
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		1e-24
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		1e-24
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		3e-24
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		4e-24
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		4e-24
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		5e-24
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-23
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		1e-23
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		2e-23
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		5e-23
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		3e-22
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		3e-22
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		5e-22
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-22
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-22
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		7e-22
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		1e-21
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		1e-21
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		1e-21
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-21
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		2e-21
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-21
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		7e-21
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		9e-21
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		3e-20
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		5e-20
4fmc_F	117	Espg-Rab1 Complex Length = 117		7e-20
1byu_A	216	Canine Gdp-Ran Length = 216		2e-18
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-18
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		2e-17
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		2e-17
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-17
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-17
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		2e-17
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		2e-17
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		3e-17
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		5e-17
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		6e-17
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		6e-17
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		6e-17
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		6e-17
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		7e-17
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		7e-17
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		7e-17
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		8e-17
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		9e-17
3icq_B	171	Karyopherin Nuclear State Length = 171		9e-17
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		9e-17
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		1e-16
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		1e-16
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		1e-16
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		2e-16
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-16
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		2e-16
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-16
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		3e-16
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		3e-16
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		7e-16
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-15
4q21_A	189	Molecular Switch For Signal Transduction: Structura		2e-15
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-15
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		3e-15
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		4e-15
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		5e-15
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		5e-15
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		5e-15
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		6e-15
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		6e-15
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		6e-15
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		7e-15
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		7e-15
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		8e-15
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		9e-15
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-14
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-14
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		1e-14
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-14
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-14
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-14
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-14
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-14
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		2e-14
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		2e-14
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		2e-14
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-14
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-14
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		2e-14
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		3e-14
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		3e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		4e-14
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		4e-14
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-14
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		5e-14
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-14
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		5e-14
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		6e-14
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		6e-14
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		6e-14
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		7e-14
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		8e-14
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		9e-14
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		9e-14
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		1e-13
1mh1_A	186	Small G-Protein Length = 186		1e-13
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		1e-13
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		1e-13
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		1e-13
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		2e-13
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		2e-13
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		2e-13
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		2e-13
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		2e-13
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		3e-13
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		7e-13
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		1e-12
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		1e-12
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		1e-12
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		1e-12
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-12
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		2e-12
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		2e-12
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		2e-12
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		2e-12
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-12
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		4e-12
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		4e-12
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		4e-12
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		4e-12
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		4e-12
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		5e-12
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		5e-12
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		6e-12
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		6e-12
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		6e-12
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		6e-12
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		1e-11
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		1e-11
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		1e-11
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		2e-11
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		2e-11
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		2e-11
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		2e-11
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		2e-11
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		3e-11
1s1c_A	183	Crystal Structure Of The Complex Between The Human		3e-11
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		3e-11
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		3e-11
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		3e-11
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		3e-11
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		3e-11
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		4e-11
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		4e-11
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		4e-11
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		4e-11
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		4e-11
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		5e-11
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		7e-11
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		8e-11
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		9e-11
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		9e-11
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		9e-11
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		9e-11
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		9e-11
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		1e-10
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		1e-10
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		1e-10
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		1e-10
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		1e-10
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		1e-10
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		1e-10
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		2e-10
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		2e-10
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		2e-10
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		2e-10
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		3e-10
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		6e-10
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		8e-10
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		8e-10
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		1e-09
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		1e-09
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		1e-09
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		1e-09
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		1e-09
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		2e-09
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		2e-09
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		2e-09
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		2e-09
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		2e-09
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		2e-09
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		2e-09
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		2e-09
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		2e-09
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		2e-09
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		2e-09
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		3e-09
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		3e-09
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		3e-09
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		4e-09
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		7e-09
2kb0_A	178	Cdc42(T35a) Length = 178		1e-08
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		1e-08
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		1e-08
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		1e-08
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		1e-08
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		2e-08
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		7e-08
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		4e-07
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		6e-07
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		6e-07
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		1e-06
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		4e-06
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		1e-05
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		1e-04
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		2e-04
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		2e-04
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		2e-04
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		2e-04
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		3e-04
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		5e-04
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		5e-04
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		6e-04
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		7e-04

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  170 bits (431), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 76/152 (50%), Positives = 110/152 (72%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+GASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 17  VGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 77  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           Y++S+G  +Y TSA Q++GIE++FL++ K +I
Sbjct: 137 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 341 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           VGKTS+V+RY    F+     T+GASF T K+N+G  +V L +
Sbjct: 17  VGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAI 59

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  167 bits (423), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 75/152 (49%), Positives = 109/152 (71%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 17  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 77  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           Y++S+G  +Y TSA Q++GIE++FL++ K +I
Sbjct: 137 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  167 bits (422), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 75/152 (49%), Positives = 109/152 (71%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+V+RY    F+     T+ ASF T K+N+G  +V L +WDTAGQERF ++ P+YY
Sbjct: 31  VGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYY 90
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA  
Sbjct: 91  RDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAES 150
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           Y++S+G  +Y TSA Q++GIE++FL++ K +I
Sbjct: 151 YAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 182

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  155 bits (391), Expect = 8e-38,   Method: Compositional matrix adjust.
 Identities = 75/150 (50%), Positives = 101/150 (67%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V R++   F H+ISPTIGASF T  +  G    K  +WDTAGQERF S+APMY
Sbjct: 33  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMY 92
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  SF  +K WVKELK +  E +V+ + GNK DL   REV  ++A 
Sbjct: 93  YRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAK 152
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            Y++SIG    ETSA     IE++F  +S+
Sbjct: 153 EYAESIGAIVVETSAKNAINIEELFQGISR 182

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/36 (55%), Positives = 26/36 (72%)
Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG 375
           GVGK+S+V R++   F H+ISPTIGASF T  +  G
Sbjct: 33  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCG 68

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  145 bits (365), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 68/152 (44%), Positives = 97/152 (63%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F  +   TIGA+F T  + + +  VK ++WDTAGQER+ S+APMY
Sbjct: 18  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQERYHSLAPMY 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   +FA  KTWVKEL+R     +V+ + GNK DL + R V  EEA 
Sbjct: 78  YRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANKRMVEYEEAQ 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + D+FL ++K L
Sbjct: 138 AYADDNSLLFMETSAKTAMNVNDLFLAIAKKL 169

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  142 bits (358), Expect = 6e-34,   Method: Composition-based stats.
 Identities = 66/153 (43%), Positives = 100/153 (65%), Gaps = 3/153 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F+ +  PTIGA+F T ++ + E+ VK ++WDTAGQERF S+AP Y
Sbjct: 13  AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL---ESSREVNRE 232
           YRNA AAL+V+D+T+  SF   + WVKEL     + +++ +VGNK D       R+V RE
Sbjct: 73  YRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVARE 132
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           E    ++  G  ++ETSA   + + DVFL + +
Sbjct: 133 EGEKLAEEKGLLFFETSAKTGENVNDVFLGIGE 165

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 17/44 (38%), Positives = 31/44 (70%)
Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGK+S+V+R++   F+ +  PTIGA+F T ++ + E+ VK ++
Sbjct: 13  AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEI 56

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  140 bits (354), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 66/150 (44%), Positives = 99/150 (66%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V R++   F  +I+PTIGASF T  +       K  +WDTAGQERFR++APMY
Sbjct: 15  GVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQERFRALAPMY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  +F+ +K WV+EL+++    +V+ + GNK DL   REV   +A 
Sbjct: 75  YRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAK 134
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            Y+ SI   + ETSA     I ++F+ +S+
Sbjct: 135 DYADSIHAIFVETSAKNAININELFIEISR 164

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  140 bits (352), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 65/152 (42%), Positives = 96/152 (63%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F  +   TIGA+F T  + + +  VK ++WDTAGQER+ S+APMY
Sbjct: 13  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   +FA  K WVKEL+R     +V+ + GNK DL S R V  +EA 
Sbjct: 73  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 132
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F+ ++K L
Sbjct: 133 AYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 164

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  139 bits (351), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 65/152 (42%), Positives = 96/152 (63%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMY
Sbjct: 17  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 76
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA 
Sbjct: 77  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 136
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F+ ++K L
Sbjct: 137 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 168

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  139 bits (350), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 65/152 (42%), Positives = 96/152 (63%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMY
Sbjct: 16  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 75
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA 
Sbjct: 76  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 135
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F+ ++K L
Sbjct: 136 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  139 bits (350), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 65/151 (43%), Positives = 96/151 (63%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA  
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           Y+      + ETSA     + ++F+ ++K L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  139 bits (350), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 65/151 (43%), Positives = 96/151 (63%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA  
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           Y+      + ETSA     + ++F+ ++K L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  139 bits (350), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 65/151 (43%), Positives = 96/151 (63%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA  
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           Y+      + ETSA     + ++F+ ++K L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  139 bits (350), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 65/151 (43%), Positives = 96/151 (63%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA  
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           Y+      + ETSA     + ++F+ ++K L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  139 bits (350), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 65/151 (43%), Positives = 96/151 (63%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMYY
Sbjct: 17  VGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYY 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA  
Sbjct: 77  RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQS 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           Y+      + ETSA     + ++F+ ++K L
Sbjct: 137 YADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  137 bits (345), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 64/152 (42%), Positives = 95/152 (62%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F  +   TI A+F T  + + +  VK ++WDTAGQER+ S+APMY
Sbjct: 15  AVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   +FA  K WVKEL+R     +V+ + GNK DL S R V  +EA 
Sbjct: 75  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 134
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F+ ++K L
Sbjct: 135 AYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  137 bits (344), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 64/152 (42%), Positives = 95/152 (62%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F  +   TIGA+F T  + + +  VK ++WDTAG ER+ S+APMY
Sbjct: 15  AVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHSLAPMY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   +FA  K WVKEL+R     +V+ + GNK DL S R V  +EA 
Sbjct: 75  YRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVEFQEAQ 134
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F+ ++K L
Sbjct: 135 AYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score =  137 bits (344), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 64/150 (42%), Positives = 98/150 (65%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ R++   F  +I+PTIGASF T  +       K  +WDTAG ERFR++APMY
Sbjct: 16  GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMY 75
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  +F+ +K WV+EL+++    +V+ + GNK DL   REV   +A 
Sbjct: 76  YRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAK 135
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            Y+ SI   + ETSA     I ++F+ +S+
Sbjct: 136 DYADSIHAIFVETSAKNAININELFIEISR 165

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  136 bits (343), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 64/152 (42%), Positives = 95/152 (62%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAG ER+ S+APMY
Sbjct: 15  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHSLAPMY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA 
Sbjct: 75  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 134
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F+ ++K L
Sbjct: 135 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 166

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  136 bits (342), Expect = 4e-32,   Method: Composition-based stats.
 Identities = 63/153 (41%), Positives = 100/153 (65%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +G GK+S+V+R++   F      TIGA+FF+  + V +  VK ++WDTAGQER+ S+APM
Sbjct: 21  VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM 80
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR A AA++VFD+T   SF   K WV+EL+   +  +V+ + GNK+DL  +R+V  E+A
Sbjct: 81  YYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDA 140
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             Y++  G  + ETSA     ++++F  +++ L
Sbjct: 141 QTYAQENGLFFMETSAKTATNVKEIFYEIARRL 173

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  135 bits (340), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 64/152 (42%), Positives = 94/152 (61%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+AP Y
Sbjct: 17  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPXY 76
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA 
Sbjct: 77  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 136
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F  ++K L
Sbjct: 137 SYADDNSLLFXETSAKTSXNVNEIFXAIAKKL 168

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  132 bits (332), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 65/154 (42%), Positives = 97/154 (62%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT+++ R+    FSH    TIG  F T  + +G   VK Q+WDTAG ER+R++   Y
Sbjct: 20  GVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLVFD+T++ ++A ++ W+KEL  + +  +V+ +VGNK+DL  +REV  EEA 
Sbjct: 80  YRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEAR 139
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC 269
            ++++ G  + ETSAL    +E  F  V K +  
Sbjct: 140 MFAENNGLLFLETSALDSTNVELAFETVLKEIFA 173

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  132 bits (332), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 65/154 (42%), Positives = 97/154 (62%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT+++ R+    FSH    TIG  F T  + +G   VK Q+WDTAG ER+R++   Y
Sbjct: 35  GVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAY 94
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLVFD+T++ ++A ++ W+KEL  + +  +V+ +VGNK+DL  +REV  EEA 
Sbjct: 95  YRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEAR 154
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC 269
            ++++ G  + ETSAL    +E  F  V K +  
Sbjct: 155 MFAENNGLLFLETSALDSTNVELAFETVLKEIFA 188

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  129 bits (325), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 63/153 (41%), Positives = 94/153 (61%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT +V R+   +F      TIG  F    + +   KVKLQ+WDTAGQERFRS+   Y
Sbjct: 36  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSY 95
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+ANA +L +DIT   SF  +  W++E+++     ++  +VGNK DL   REV+++ A 
Sbjct: 96  YRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAE 155
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +S++    Y ETSA +   +E +FL+++  LI
Sbjct: 156 EFSEAQDMYYLETSAKESDNVEKLFLDLACRLI 188

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  127 bits (318), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/160 (38%), Positives = 100/160 (62%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++++  K F      TIG  F    +N+   ++KLQ+WDTAGQE FRS+   Y
Sbjct: 31  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSY 90
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  + +W+++ +++    +V+ ++GNK+DLES R+V REE  
Sbjct: 91  YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGE 150
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESL 275
            +++  G  + ETSA     +E+ F+N +K +    Q+ L
Sbjct: 151 AFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 190

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  127 bits (318), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 60/150 (40%), Positives = 96/150 (64%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++++  K F      TIG  F    I +   ++KLQ+WDTAGQE FRS+   Y
Sbjct: 20  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  + TW+++ +++ +  +V+ ++GNK+DLES REV +EE  
Sbjct: 80  YRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLESRREVKKEEGE 139
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++  G  + ETSA     +E+ F+N +K
Sbjct: 140 AFAREHGLIFMETSAKTASNVEEAFINTAK 169

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  125 bits (315), Expect = 5e-29,   Method: Composition-based stats.
 Identities = 64/146 (43%), Positives = 93/146 (63%), Gaps = 1/146 (0%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKV-KLQVWDTAGQERFRSMAPM 174
           GVGK++++ R+    F+     TIG  F T  I +  NK+ K Q+WDTAGQER+R++   
Sbjct: 17  GVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAGQERYRAITSA 76
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR A  ALLV+DIT+ +SF  I+ W+KEL+ N D  +V+ +VGNK+DL+  R +N  +A
Sbjct: 77  YYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDLKHLRVINDNDA 136
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVF 260
             Y+K     + ETSAL+   +E  F
Sbjct: 137 TQYAKKEKLAFIETSALEATNVELAF 162

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  122 bits (306), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 60/153 (39%), Positives = 94/153 (61%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I K F    + TIG  F +  INVG   VKLQ+WDTAGQERFRS+   Y
Sbjct: 20  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   ++ A+  W+ + +    + +V+ + GNK DL++ REV   EA 
Sbjct: 80  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 139
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + ETSAL  + +E+ F+  ++ ++
Sbjct: 140 RFAQENELMFLETSALTGENVEEAFVQCARKIL 172

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  122 bits (306), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 60/153 (39%), Positives = 94/153 (61%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I K F    + TIG  F +  INVG   VKLQ+WDTAGQERFRS+   Y
Sbjct: 21  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY 80
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   ++ A+  W+ + +    + +V+ + GNK DL++ REV   EA 
Sbjct: 81  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 140
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + ETSAL  + +E+ F+  ++ ++
Sbjct: 141 RFAQENELMFLETSALTGEDVEEAFVQCARKIL 173

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  122 bits (305), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 62/152 (40%), Positives = 94/152 (61%), Gaps = 2/152 (1%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +GVGK+ ++ ++  K F      TIG  F T  I V   K+KLQ+WDTAGQERFR++   
Sbjct: 24  MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRS 83
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNREE 233
           YYR A  AL+V+DIT+  ++  + +W+ +  RN+  P  V+ ++GNK DLE+ R+V  EE
Sbjct: 84  YYRGAAGALMVYDITRRSTYNHLSSWLTD-ARNLTNPNTVIILIGNKADLEAQRDVTYEE 142
Query: 234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           A  +++  G  + E SA   + +ED FL  +K
Sbjct: 143 AKQFAEENGLLFLEASAKTGENVEDAFLEAAK 174

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  121 bits (303), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/148 (39%), Positives = 91/148 (61%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAGQER+R +   Y
Sbjct: 15  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 75  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 134
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++    ++ ETSAL    +E+ F N+
Sbjct: 135 AFAEKNNLSFIETSALDSTNVEEAFKNI 162

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  120 bits (302), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 58/148 (39%), Positives = 91/148 (61%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAGQER+R++   Y
Sbjct: 39  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRAITSAY 98
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 99  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 158
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++  G ++ ETSAL    +E  F  +
Sbjct: 159 AFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  120 bits (301), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 58/148 (39%), Positives = 91/148 (61%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAGQER+R++   Y
Sbjct: 30  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRAITSAY 89
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 90  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 149
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++  G ++ ETSAL    +E  F  +
Sbjct: 150 AFAEKNGLSFIETSALDSTNVEAAFQTI 177

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  120 bits (300), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 58/174 (33%), Positives = 103/174 (59%), Gaps = 1/174 (0%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    +++    TIG  F    + +    VKLQ+WDTAGQERFR++   Y
Sbjct: 18  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR ++  ++V+D+T   SF  +K W++E+ R     ++  +VGNK DL+  R V  + A 
Sbjct: 78  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI-CLSQESLHTSSLRVYDSDNI 288
            ++ +    + ETSAL    +ED FL +++ +   +SQ++L+ ++ +  D  N+
Sbjct: 138 EFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNV 191

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  120 bits (300), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 58/174 (33%), Positives = 103/174 (59%), Gaps = 1/174 (0%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    +++    TIG  F    + +    VKLQ+WDTAGQERFR++   Y
Sbjct: 18  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR ++  ++V+D+T   SF  +K W++E+ R     ++  +VGNK DL+  R V  + A 
Sbjct: 78  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI-CLSQESLHTSSLRVYDSDNI 288
            ++ +    + ETSAL    +ED FL +++ +   +SQ++L+ ++ +  D  N+
Sbjct: 138 EFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNV 191

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  120 bits (300), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 97/163 (59%), Gaps = 5/163 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   +F  IK W K +  + ++   L +VGNK+D+E +R V  ++  
Sbjct: 73  YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGE 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTS 278
             +K +G  + E+SA  D  + ++F  ++K    L QE + ++
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAK----LIQEKIDSN 170

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  119 bits (298), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 60/165 (36%), Positives = 98/165 (59%), Gaps = 5/165 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 30  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 89
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+D+T   +F  IK W K +  + ++   L +VGNK+D+E +R V  ++  
Sbjct: 90  YRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGE 148
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSL 280
             +K +G  + E+SA  D  + ++F  ++K    L QE + ++ L
Sbjct: 149 ALAKELGIPFIESSAKNDDNVNEIFFTLAK----LIQEKIDSNKL 189

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  119 bits (298), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 61/152 (40%), Positives = 93/152 (61%), Gaps = 2/152 (1%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +GVGK+ ++ ++  K F      TIG  F T  I V   K+KLQ+WDTAGQ RFR++   
Sbjct: 39  MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQGRFRAVTRS 98
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNREE 233
           YYR A  AL+V+DIT+  ++  + +W+ +  RN+  P  V+ ++GNK DLE+ R+V  EE
Sbjct: 99  YYRGAAGALMVYDITRRSTYNHLSSWLTD-ARNLTNPNTVIILIGNKADLEAQRDVTYEE 157
Query: 234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           A  +++  G  + E SA   + +ED FL  +K
Sbjct: 158 AKQFAEENGLLFLEASAKTGENVEDAFLEAAK 189

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  119 bits (298), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 59/153 (38%), Positives = 93/153 (60%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I K F    + TIG  F +  INVG   VKLQ+WDTAG ERFRS+   Y
Sbjct: 18  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGLERFRSVTRSY 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   ++ A+  W+ + +    + +V+ + GNK DL++ REV   EA 
Sbjct: 78  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + ETSAL  + +E+ F+  ++ ++
Sbjct: 138 RFAQENELMFLETSALTGEDVEEAFVQCARKIL 170

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 58/153 (37%), Positives = 91/153 (59%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I   F    + TIG  F +  +NVG   VKLQ+WDTAGQERFRS+   Y
Sbjct: 35  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSY 94
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   ++ ++  W+ + +      +V+ + GNK DL+  REV   EA 
Sbjct: 95  YRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEAS 154
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + ETSAL  + +E+ FL  ++ ++
Sbjct: 155 RFAQENELMFLETSALTGENVEEAFLKCARTIL 187

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  118 bits (295), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 97/163 (59%), Gaps = 5/163 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 17  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 76
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+D+T   +F  IK W K +  + ++   L +VGNK+D+E +R V  ++  
Sbjct: 77  YRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGE 135
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTS 278
             +K +G  + E+SA  D  + ++F  ++K    L QE + ++
Sbjct: 136 ALAKELGIPFIESSAKNDDNVNEIFFTLAK----LIQEKIDSN 174

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  117 bits (294), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/148 (38%), Positives = 90/148 (60%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAG ER+R++   Y
Sbjct: 39  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 98
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 99  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 158
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++  G ++ ETSAL    +E  F  +
Sbjct: 159 AFAEKNGLSFIETSALDSTNVEAAFQTI 186

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  117 bits (294), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 57/148 (38%), Positives = 90/148 (60%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAG ER+R++   Y
Sbjct: 18  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 78  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++  G ++ ETSAL    +E  F  +
Sbjct: 138 AFAEKNGLSFIETSALDSTNVEAAFQTI 165

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 90/152 (59%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++ R++   F +    TIG  F +  + + +  V+LQ+WDTAGQERFRS+ P Y 
Sbjct: 13  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYI 72
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++  A++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R++  EE   
Sbjct: 73  RDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADKRQITIEEGEQ 132
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +K +   + ETSA     ++ +F  V+  L+
Sbjct: 133 RAKELSVMFIETSAKTGYNVKQLFRRVASALL 164

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  117 bits (293), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 57/148 (38%), Positives = 90/148 (60%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAG ER+R++   Y
Sbjct: 21  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 80
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 81  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRAVPTDEAR 140
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++  G ++ ETSAL    +E  F  +
Sbjct: 141 AFAEKNGLSFIETSALDSTNVEAAFQTI 168

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  117 bits (293), Expect = 2e-26,   Method: Composition-based stats.
 Identities = 57/148 (38%), Positives = 90/148 (60%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAG ER+R++   Y
Sbjct: 15  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 75  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRAVPTDEAR 134
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
            +++  G ++ ETSAL    +E  F  +
Sbjct: 135 AFAEKNGLSFIETSALDSTNVEAAFQTI 162

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/151 (36%), Positives = 91/151 (60%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++ R++   F +    TIG  F +  + + +  ++LQ+WDTAGQERFRS+ P Y 
Sbjct: 17  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYI 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++ AA++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE   
Sbjct: 77  RDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +K +   + ETSA     ++ +F  V+  L
Sbjct: 137 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 167

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  117 bits (293), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 55/145 (37%), Positives = 89/145 (61%), Gaps = 1/145 (0%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    FS     TIG  F    + +   KVKLQ+WDTAGQERFR++   Y
Sbjct: 19  GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTY 78
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR  +  ++V+D+T   SF  +K W+ E+ +N D+   + +VGNK D    + V  E+A+
Sbjct: 79  YRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRI-LVGNKNDDPERKVVETEDAY 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
            ++  +G   +ETSA ++  +E++F
Sbjct: 138 KFAGQMGIQLFETSAKENVNVEEMF 162

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  116 bits (291), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 55/151 (36%), Positives = 90/151 (59%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++ R++   F +    TIG  F +  + + +  V+LQ+WDTAGQERFRS+ P Y 
Sbjct: 25  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYI 84
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++  A++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE   
Sbjct: 85  RDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGER 144
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +K +   + ETSA     ++ +F  V+  L
Sbjct: 145 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  116 bits (291), Expect = 3e-26,   Method: Composition-based stats.
 Identities = 57/150 (38%), Positives = 90/150 (60%), Gaps = 1/150 (0%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   +F  IK W K +  + ++   L +VGNK+D E +R V  ++  
Sbjct: 73  YRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXE-TRVVTADQGE 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +K +G  + E+SA  D  + ++F  ++K
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAK 161

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score =  116 bits (291), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 55/151 (36%), Positives = 90/151 (59%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++ R++   F +    TIG  F +  + + +  V+LQ+WDTAGQERFRS+ P Y 
Sbjct: 12  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYI 71
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++  A++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE   
Sbjct: 72  RDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 131
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +K +   + ETSA     ++ +F  V+  L
Sbjct: 132 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 162

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  116 bits (290), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 62/157 (39%), Positives = 92/157 (58%), Gaps = 9/157 (5%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT +V R+    FS     TIG  F    + +   +VKLQ+WDTAGQERFR++   YY
Sbjct: 40  VGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYY 99
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R+AN A+L +DIT+  SF ++  W++++++     +V  ++GNK+DL   REV+  EA  
Sbjct: 100 RSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEA-- 157
Query: 237 YSKSIGGTY-----YETSALQDQGIEDVFLNVSKGLI 268
             +S+   Y      ETSA     +E+ FL V+  LI
Sbjct: 158 --QSLAEHYDILCAIETSAKDSSNVEEAFLRVATELI 192

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  115 bits (289), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 60/157 (38%), Positives = 92/157 (58%), Gaps = 8/157 (5%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    F   ++ TIG  F    I+V  NK KL +WDTAGQERFR++ P Y
Sbjct: 25  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSY 84
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELK----RNVDEPLVLCVVGNKTDLESSREVNR 231
           YR A   +LV+D+T+  +F  +  W+ EL+    RN    +V  +VGNK D E +REV+R
Sbjct: 85  YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRN---DIVNXLVGNKIDKE-NREVDR 140
Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            E   +++     + E SA    G++  F  + + +I
Sbjct: 141 NEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKII 177

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  115 bits (288), Expect = 7e-26,   Method: Composition-based stats.
 Identities = 54/149 (36%), Positives = 88/149 (59%), Gaps = 1/149 (0%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ R+    F      T+G  F    + +   K++LQ+WDTAGQERF S+   Y
Sbjct: 36  GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY 95
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+A   +LV+DIT+  +F  +  W+K + +   E   L +VGNK D E+ RE+ R++  
Sbjct: 96  YRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGE 155
Query: 236 HYSKSIGGTYY-ETSALQDQGIEDVFLNV 263
            +++ I G  + E SA  +  ++++FL +
Sbjct: 156 KFAQQITGMRFCEASAKDNFNVDEIFLKL 184

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  115 bits (288), Expect = 8e-26,   Method: Composition-based stats.
 Identities = 56/150 (37%), Positives = 90/150 (60%), Gaps = 1/150 (0%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+D+T   +F  IK W K +  + ++   L +VGNK+D E +R V  ++  
Sbjct: 73  YRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXE-TRVVTADQGE 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +K +G  + E+SA  D  + ++F  ++K
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAK 161

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  115 bits (288), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 89/150 (59%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    +++    TIG  F    + +    VKLQ+WDTAGQERFR++   Y
Sbjct: 31  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 90
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR ++  ++V+D+T   SF  +K W++E+ R     ++  +VGNK DL+  R V  + A 
Sbjct: 91  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 150
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            ++ +    + ETSAL    +ED FL +++
Sbjct: 151 EFADANKMPFLETSALDSTNVEDAFLTMAR 180

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  114 bits (286), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 56/152 (36%), Positives = 89/152 (58%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS++ R+    F ++   TIG  F +  + + E  V+LQ+WDTAGQERFRS+ P Y
Sbjct: 11  AVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSY 70
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            R++ AA++V+DIT   SF     W++++     + +++ +VGNKTDL   R+V  EE  
Sbjct: 71  IRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGX 130
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++     ++ETSA     I+ +F   +  L
Sbjct: 131 QKAQEYNTXFHETSAKAGHNIKVLFKKTASKL 162

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  114 bits (286), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 89/149 (59%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 19  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 78
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   S+A +K W++E+ R   E +   +VGNK+DL + + V+   A 
Sbjct: 79  YRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVDNTTAK 138
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 139 EFADSLGIPFLETSAKNATNVEQAFMTMA 167

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  114 bits (285), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 89/149 (59%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 19  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 78
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   S+A +K W++E+ R   E +   +VGNK+DL + + V+   A 
Sbjct: 79  YRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVDNTTAK 138
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 139 EFADSLGIPFLETSAKNATNVEQAFMTMA 167

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  114 bits (285), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 54/151 (35%), Positives = 90/151 (59%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++ R++   F +    TIG  F +  + + +  ++LQ+WDTAG ERFRS+ P Y 
Sbjct: 24  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYI 83
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++ AA++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE   
Sbjct: 84  RDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 143
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +K +   + ETSA     ++ +F  V+  L
Sbjct: 144 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 174

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 63/164 (38%), Positives = 96/164 (58%), Gaps = 8/164 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+WDTAGQERF+S+   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSR-EVN 230
           YR A+  +LVFD+T  ++F  + +W  E          E     V+GNK DLE+ +    
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATK 137
Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQES 274
           R +A+ YSK+    Y+ETSA +   +E  F  +++    L QE+
Sbjct: 138 RAQAWCYSKN-NIPYFETSAKEAINVEQAFQTIARN--ALKQET 178

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 29/44 (65%)
Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 61

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 63/164 (38%), Positives = 96/164 (58%), Gaps = 8/164 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+WDTAGQERF+S+   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSR-EVN 230
           YR A+  +LVFD+T  ++F  + +W  E          E     V+GNK DLE+ +    
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATK 137
Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQES 274
           R +A+ YSK+    Y+ETSA +   +E  F  +++    L QE+
Sbjct: 138 RAQAWCYSKN-NIPYFETSAKEAINVEQAFQTIARN--ALKQET 178

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 29/44 (65%)
Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 61

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  114 bits (284), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 54/151 (35%), Positives = 89/151 (58%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++ R++   F +    TIG  F +  + + +  V+LQ+WDTAG ERFRS+ P Y 
Sbjct: 17  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYI 76
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++  A++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE   
Sbjct: 77  RDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 136
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +K +   + ETSA     ++ +F  V+  L
Sbjct: 137 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 167

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  113 bits (283), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 54/151 (35%), Positives = 89/151 (58%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS++ R++   F +    TIG  F +  + + +  V+LQ+WDTAG ERFRS+ P Y 
Sbjct: 27  VGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYI 86
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R++  A++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE   
Sbjct: 87  RDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGER 146
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +K +   + ETSA     ++ +F  V+  L
Sbjct: 147 KAKELNVMFIETSAKAGYNVKQLFRRVAAAL 177

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  112 bits (281), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 62/164 (37%), Positives = 95/164 (57%), Gaps = 8/164 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+WDTAGQERF+S+   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSR-EVN 230
           YR A+  +LVFD+T  ++F  + +W  E          E     V+GNK D E+ +    
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDFENRQVATK 137
Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQES 274
           R +A+ YSK+    Y+ETSA +   +E  F  +++    L QE+
Sbjct: 138 RAQAWCYSKN-NIPYFETSAKEAINVEQAFQTIARN--ALKQET 178

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 29/44 (65%)
Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 61

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  112 bits (281), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 52/145 (35%), Positives = 87/145 (60%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  + +   ++K Q+WDTAGQER+R++   Y
Sbjct: 23  GVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAY 82
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  AL+V+DI++  S+     W+ EL+ N D+ + + ++GNK+DL   R V  EE+ 
Sbjct: 83  YRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESK 142
Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
            +++     + ETSAL  + ++  F
Sbjct: 143 TFAQENQLLFTETSALNSENVDKAF 167

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  112 bits (279), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 87/149 (58%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 9   GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 68
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 69  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 128
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 129 EFADSLGIPFLETSAKNATNVEQSFMTMA 157

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  112 bits (279), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 87/149 (58%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 16  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 75
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 76  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 135
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 136 EFADSLGIPFLETSAKNATNVEQSFMTMA 164

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  112 bits (279), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 87/149 (58%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 16  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 75
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 76  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 135
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 136 EFADSLGIPFLETSAKNATNVEQSFMTMA 164

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  111 bits (278), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 87/149 (58%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 26  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 85
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 86  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 145
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 146 EFADSLGIPFLETSAKNATNVEQSFMTMA 174

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  111 bits (278), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 87/149 (58%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 35  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 94
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 95  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 154
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 155 EFADSLGIPFLETSAKNATNVEQSFMTMA 183

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  111 bits (278), Expect = 1e-24,   Method: Composition-based stats.
 Identities = 60/153 (39%), Positives = 87/153 (56%), Gaps = 1/153 (0%)
Query: 116 GVGKTSMVVRYI-GKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           GVGKT ++VR+  G   +     T+G  F    ++V   KVKLQ+WDTAGQERFRS+   
Sbjct: 20  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHA 79
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR+A+A LL++D+T   SF  I+ W+ E+       + L ++GNK D    R V RE+ 
Sbjct: 80  YYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDG 139
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
              +K  G  + ETSA     ++  F  ++K L
Sbjct: 140 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  111 bits (277), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 62/164 (37%), Positives = 95/164 (57%), Gaps = 8/164 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+WDTAG ERF+S+   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGLERFQSLGVAF 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSR-EVN 230
           YR A+  +LVFD+T  ++F  + +W  E          E     V+GNK DLE+ +    
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATK 137
Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQES 274
           R +A+ YSK+    Y+ETSA +   +E  F  +++    L QE+
Sbjct: 138 RAQAWCYSKN-NIPYFETSAKEAINVEQAFQTIARN--ALKQET 178

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 19/44 (43%), Positives = 29/44 (65%)
Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 61

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  111 bits (277), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 86/149 (57%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK  +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 26  GVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 85
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 86  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 145
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 146 EFADSLGIPFLETSAKNATNVEQSFMTMA 174

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  111 bits (277), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 56/145 (38%), Positives = 83/145 (57%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I++    VKLQ+WDTAGQERFR++   Y
Sbjct: 19  GVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQERFRTITSSY 78
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL S R V  +E  
Sbjct: 79  YRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSKRVVTSDEGR 138
Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
             + S G  + ETSA     +E  F
Sbjct: 139 ELADSHGIKFIETSAKNAYNVEQAF 163

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  110 bits (274), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 53/145 (36%), Positives = 84/145 (57%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 43  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 102
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 103 YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 162
Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
            ++ S+G  + ETSA     +E  F
Sbjct: 163 EFADSLGIPFLETSAKNATNVEQSF 187

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  109 bits (273), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 54/145 (37%), Positives = 85/145 (58%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V   K+K Q+WDTAG ER+R++   Y
Sbjct: 20  GVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGLERYRAITSAY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  AL+V+DI++  S+     W+ EL+ N D+ + + ++GNK+DL   R V  +EA 
Sbjct: 80  YRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAHLRAVPTDEAK 139
Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
           +++      + ETSAL    ++  F
Sbjct: 140 NFAMENQMLFTETSALNSDNVDKAF 164

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  109 bits (273), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 52/152 (34%), Positives = 86/152 (56%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT ++ R+    F+     TIG  F    I +   ++KLQ+WDTAGQERFR++   Y
Sbjct: 16  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 75
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   SF  I+ W++ ++ +    +   ++GNK D+   R+V++E   
Sbjct: 76  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 135
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             +   G  + ETSA  +  +E+ F  +++ +
Sbjct: 136 KLALDYGIKFMETSAKANINVENAFFTLARDI 167

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  109 bits (272), Expect = 5e-24,   Method: Composition-based stats.
 Identities = 52/152 (34%), Positives = 86/152 (56%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT ++ R+    F+     TIG  F    I +   ++KLQ+WDTAGQERFR++   Y
Sbjct: 18  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   SF  I+ W++ ++ +    +   ++GNK D+   R+V++E   
Sbjct: 78  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             +   G  + ETSA  +  +E+ F  +++ +
Sbjct: 138 KLALDYGIKFMETSAKANINVENAFFTLARDI 169

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  108 bits (269), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 52/149 (34%), Positives = 86/149 (57%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 18  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 77
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VG K DL + + V+   A 
Sbjct: 78  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTTKKVVDYTTAK 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVS 264
            ++ S+G  + ETSA     +E  F+ ++
Sbjct: 138 EFADSLGIPFLETSAKNATNVEQSFMTMA 166

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  107 bits (268), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 62/164 (37%), Positives = 96/164 (58%), Gaps = 7/164 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVK-LQVWDTAGQERFRSMAPM 174
           GVGKTS++ RY+   +S     TIGA F T ++ V  +KV  +QVWDTAGQERF+S+   
Sbjct: 18  GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVA 77
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKE--LKRNVDEP--LVLCVVGNKTDLESSRE-V 229
           +YR A+  +LV+D+T   SF  IK+W  E  +  NV+ P      ++GNK D E S++ V
Sbjct: 78  FYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIV 137
Query: 230 NREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLICLSQ 272
           + + A   +KS+G    + TSA     ++  F  +++  +  +Q
Sbjct: 138 SEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQNQ 181

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  107 bits (268), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 53/144 (36%), Positives = 82/144 (56%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS + RY    F+     T+G  F    +   + ++KLQ+WDTAGQER+R++   YY
Sbjct: 33  VGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYY 92
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A   LL++DI    SFAA++ W  ++K    +   + +VGNK DLE  R V  E+   
Sbjct: 93  RGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRR 152
Query: 237 YSKSIGGTYYETSALQDQGIEDVF 260
            +  +G  ++E SA ++  ++ VF
Sbjct: 153 LADDLGFEFFEASAKENINVKQVF 176

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  105 bits (263), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 59/154 (38%), Positives = 86/154 (55%), Gaps = 13/154 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKI---NVGEN-------KVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++     G N       KV LQ+WDTAGQ
Sbjct: 35  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ 94
Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDL 223
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ N   + P ++ ++GNK DL
Sbjct: 95  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV-LIGNKADL 153
Query: 224 ESSREVNREEAFHYSKSIGGTYYETSALQDQGIE 257
              REVN  +A   +   G  Y+ETSA   Q +E
Sbjct: 154 PDQREVNERQARELADKYGIPYFETSAATGQNVE 187

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 52/144 (36%), Positives = 81/144 (56%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS + RY    F+     T+G  F    +   E +VKLQ+WDTAGQER+R++   YY
Sbjct: 34  VGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYY 93
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A   +L++DIT   SF A++ W  ++K    +   + +VGNK D+E  R V  E+   
Sbjct: 94  RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQL 153
Query: 237 YSKSIGGTYYETSALQDQGIEDVF 260
            ++ +G  ++E SA ++  +   F
Sbjct: 154 LAEQLGFDFFEASAKENISVRQAF 177

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  103 bits (257), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 80/144 (55%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS + RY    F+     T+G  F    I   + ++KLQ+WDTAGQER+R++   YY
Sbjct: 16  VGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYY 75
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A   +L++DIT   SF A++ W  ++K    +   + +VGNK D+E  R V+ E    
Sbjct: 76  RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQ 135
Query: 237 YSKSIGGTYYETSALQDQGIEDVF 260
            +  +G  ++E SA  +  ++  F
Sbjct: 136 LADHLGFEFFEASAKDNINVKQTF 159

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  102 bits (255), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 57/146 (39%), Positives = 79/146 (54%), Gaps = 3/146 (2%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+SM+ RY   +F+     TIG  F   +I V +  V+L +WDTAGQE F ++   Y
Sbjct: 15  AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEA 234
           YR A A +LVF  T   SF AI +W +++   V D P  L  V NK DL     +  EEA
Sbjct: 75  YRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTAL--VQNKIDLLDDSCIKNEEA 132
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVF 260
              +K +   +Y TS  +D  + +VF
Sbjct: 133 EGLAKRLKLRFYRTSVKEDLNVSEVF 158

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  102 bits (255), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 57/154 (37%), Positives = 86/154 (55%), Gaps = 13/154 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKI---NVGEN-------KVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++     G +       KV LQ+WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDL 223
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ N   + P ++ ++GNK DL
Sbjct: 81  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV-LIGNKADL 139
Query: 224 ESSREVNREEAFHYSKSIGGTYYETSALQDQGIE 257
              REVN  +A   ++  G  Y+ETSA   Q +E
Sbjct: 140 PDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  102 bits (255), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 57/154 (37%), Positives = 86/154 (55%), Gaps = 13/154 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKI---NVGEN-------KVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++     G +       KV LQ+WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDL 223
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ N   + P ++ ++GNK DL
Sbjct: 81  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV-LIGNKADL 139
Query: 224 ESSREVNREEAFHYSKSIGGTYYETSALQDQGIE 257
              REVN  +A   ++  G  Y+ETSA   Q +E
Sbjct: 140 PDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  102 bits (254), Expect = 7e-22,   Method: Composition-based stats.
 Identities = 56/154 (36%), Positives = 82/154 (53%), Gaps = 13/154 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN----------KVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++               KV LQ+WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDL 223
           ERFRS+   ++R+A   LL FD+T   SF  ++ W  +L+ N   + P ++ ++GNK DL
Sbjct: 81  ERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIV-LIGNKADL 139
Query: 224 ESSREVNREEAFHYSKSIGGTYYETSALQDQGIE 257
              REVN  +A   ++  G  Y+ETSA   Q +E
Sbjct: 140 PDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score =  101 bits (252), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 57/154 (37%), Positives = 84/154 (54%), Gaps = 13/154 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKI---NVGEN-------KVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++     G +       KV LQ+WDTAG 
Sbjct: 21  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWDTAGL 80
Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDL 223
           ERFRS+   ++R+A   LL FD+T   SF  ++ W  +L+ N   + P ++ ++GNK DL
Sbjct: 81  ERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIV-LIGNKADL 139
Query: 224 ESSREVNREEAFHYSKSIGGTYYETSALQDQGIE 257
              REVN  +A   ++  G  Y+ETSA   Q +E
Sbjct: 140 PDQREVNERQARELAEKYGIPYFETSAATGQNVE 173

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  101 bits (252), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 56/158 (35%), Positives = 90/158 (56%), Gaps = 9/158 (5%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-SMAPMY 175
           VGKT +  R+    F      TIG  F    +++   ++K+Q+WDTAGQERFR SM   Y
Sbjct: 31  VGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHY 90
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNV---DEPLVLCVVGNKTDLESSREVNRE 232
           YRN +A + V+D+T   SF ++  W++E K+++   D P +L  VGNK DL S+ +V  +
Sbjct: 91  YRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRIL--VGNKCDLRSAIQVPTD 148
Query: 233 EAFHYSKSIGGTYYETSAL---QDQGIEDVFLNVSKGL 267
            A  ++ +     +ETSA     +  +E +F+ ++  L
Sbjct: 149 LAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  101 bits (251), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 54/162 (33%), Positives = 84/162 (51%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS + RY    F+     T+G  F    I   + ++KLQ+WDTAG ER+R++   YY
Sbjct: 19  VGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYY 78
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFH 236
           R A   +L +DIT   SF A++ W  ++K    +   + +VGNK D E  R V+ E    
Sbjct: 79  RGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDERVVSSERGRQ 138
Query: 237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTS 278
            +  +G  ++E SA  +  ++  F  +   +     ESL T+
Sbjct: 139 LADHLGFEFFEASAKDNINVKQTFERLVDVICEKXSESLDTA 180

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  101 bits (251), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/150 (37%), Positives = 80/150 (53%), Gaps = 6/150 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ RY+   F   +  TIG  F    + V  + V +Q+WDTAGQERFRS+   +
Sbjct: 21  GVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 80
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNR 231
           YR ++  LL F +    SF  +  W KE     D    E     ++GNKTD++  R+V+ 
Sbjct: 81  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKTDIK-ERQVST 139
Query: 232 EEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
           EEA  + K  G   Y+ETSA     +   F
Sbjct: 140 EEAQAWCKDNGDYPYFETSAKDSTNVAAAF 169

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  100 bits (249), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 55/148 (37%), Positives = 83/148 (56%), Gaps = 15/148 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN----------KVKLQVWDTAGQ 165
           GVGKTS++ +Y    F+     T+G  F   ++    N          ++ LQ+WDTAG 
Sbjct: 21  GVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGL 80
Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV---DEPLVLCVVGNKTD 222
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ +    +  +VLC  GNK+D
Sbjct: 81  ERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLC--GNKSD 138
Query: 223 LESSREVNREEAFHYSKSIGGTYYETSA 250
           LE  R V  EEA   ++  G  Y+ETSA
Sbjct: 139 LEDQRAVKEEEARELAEKYGIPYFETSA 166

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score =  100 bits (249), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/158 (35%), Positives = 88/158 (55%), Gaps = 9/158 (5%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-SMAPMY 175
           VGKT +  R+    F      TIG  F    +++   ++K+Q+WDTAGQERFR SM   Y
Sbjct: 40  VGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHY 99
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNV---DEPLVLCVVGNKTDLESSREVNRE 232
           YRN +A + V+D T   SF ++  W++E K+++   D P +L  VGNK DL S+ +V  +
Sbjct: 100 YRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRIL--VGNKCDLRSAIQVPTD 157
Query: 233 EAFHYSKSIGGTYYETSAL---QDQGIEDVFLNVSKGL 267
            A  ++ +     +ETSA     +  +E +F  ++  L
Sbjct: 158 LAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKL 195

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 99.0 bits (245), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 54/140 (38%), Positives = 77/140 (55%), Gaps = 6/140 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ RY+   F   +  TIG  F    + V  + V +Q+WDTAGQERFRS+   +
Sbjct: 17  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 76
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNR 231
           YR ++  LL F +    SF  +  W KE     D    E     ++GNK D+ S R+V+ 
Sbjct: 77  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDI-SERQVST 135
Query: 232 EEAFHYSKSIGGT-YYETSA 250
           EEA  + +  G   Y+ETSA
Sbjct: 136 EEAQAWCRDNGDYPYFETSA 155

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score = 98.6 bits (244), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 54/140 (38%), Positives = 77/140 (55%), Gaps = 6/140 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ RY+   F   +  TIG  F    + V  + V +Q+WDTAGQERFRS+   +
Sbjct: 19  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 78
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNR 231
           YR ++  LL F +    SF  +  W KE     D    E     ++GNK D+ S R+V+ 
Sbjct: 79  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDI-SERQVST 137
Query: 232 EEAFHYSKSIGGT-YYETSA 250
           EEA  + +  G   Y+ETSA
Sbjct: 138 EEAQAWCRDNGDYPYFETSA 157

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 97.1 bits (240), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 53/156 (33%), Positives = 85/156 (54%), Gaps = 6/156 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S ++R     F  +IS T+G  F    + V   +  LQ+WDTAGQERFRS+A  Y
Sbjct: 38  AVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSY 97
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           +R A+  LL++D+T   SF  I+ WV  ++    E + + +VGNK D+  +     ++  
Sbjct: 98  FRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCV 157
Query: 236 --HYSKSIGGTY----YETSALQDQGIEDVFLNVSK 265
             H+ + +  TY     ETSA     I +  L++++
Sbjct: 158 PGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAR 193

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 95.9 bits (237), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 58/163 (35%), Positives = 80/163 (49%), Gaps = 6/163 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ RY+   F      TIG  F    + V    V LQ+WDTAGQERF+S+   +
Sbjct: 17  GVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQERFKSLRTPF 76
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNR 231
           YR A+  LL F +    SF  +  W KE     D    E     V+GNK D E  R+V  
Sbjct: 77  YRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKVDKE-DRQVTT 135
Query: 232 EEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLICLSQE 273
           EEA  +    G   Y ETSA  D  +   F    + ++ + ++
Sbjct: 136 EEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQVLAVEEQ 178

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 95.5 bits (236), Expect = 7e-20,   Method: Composition-based stats.
 Identities = 43/110 (39%), Positives = 67/110 (60%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 8   GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 67
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES 225
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL +
Sbjct: 68  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 117

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 91.3 bits (225), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 50/154 (32%), Positives = 80/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F     PT+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 90.9 bits (224), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 50/154 (32%), Positives = 80/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F     PT+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 13  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 73  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 130
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 131 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 162

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLEDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 25  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 84
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 85  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 142
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 143 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 174

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 87.4 bits (215), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 87.0 bits (214), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 49/154 (31%), Positives = 78/154 (50%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A++ FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE++  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKYGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 85.9 bits (211), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 56/153 (36%), Positives = 81/153 (52%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQY 71
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESR 128
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +A   ++S G  Y ETSA   QG+ED F  + +
Sbjct: 129 QAQDLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 85.9 bits (211), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 56/153 (36%), Positives = 81/153 (52%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQY 71
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESR 128
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +A   ++S G  Y ETSA   QG+ED F  + +
Sbjct: 129 QAQDLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 85.9 bits (211), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 55/182 (30%), Positives = 88/182 (48%), Gaps = 40/182 (21%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV------------------------- 150
            VGK+S+V+R     F  + + TIGASF T  +N+                         
Sbjct: 17  SVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNN 76
Query: 151 ----------GEN--KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK 198
                      EN   +K  +WDTAGQER+ S+ P+YYR A  A++VFDI+  ++    K
Sbjct: 77  VIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAK 136
Query: 199 TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIED 258
           TWV +LK  +    ++ +V NK D ++  +V+  E   Y++     + +TSA     I++
Sbjct: 137 TWVNQLK--ISSNYIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKN 193
Query: 259 VF 260
           +F
Sbjct: 194 IF 195

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 85.9 bits (211), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 56/153 (36%), Positives = 81/153 (52%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQY 71
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESR 128
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +A   ++S G  Y ETSA   QG+ED F  + +
Sbjct: 129 QAQDLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 85.9 bits (211), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 86/151 (56%), Gaps = 2/151 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+    +  GE +V++ + DTAGQE + ++   Y
Sbjct: 24  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE-EVQIDILDTAGQEDYAAIRDNY 82
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEA 234
           +R+    L VF IT+  SFAA   + +++ R   DE +   +VGNK+DLE  R+V+ EEA
Sbjct: 83  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 142
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            + ++     Y ETSA     ++ VF ++ +
Sbjct: 143 KNRAEQWNVNYVETSAKTRANVDKVFFDLMR 173

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 87/153 (56%), Gaps = 2/153 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+    +  GE +V++ + DTAGQE + ++   Y
Sbjct: 28  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE-EVQIDILDTAGQEDYAAIRDNY 86
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEA 234
           +R+    L VF IT+  SFAA   + +++ R   DE +   +VGNK+DLE  R+V+ EEA
Sbjct: 87  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 146
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            + ++     Y ETSA     ++ VF ++ + +
Sbjct: 147 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 179

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 85.5 bits (210), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 87/153 (56%), Gaps = 2/153 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+    +  GE +V++ + DTAGQE + ++   Y
Sbjct: 16  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE-EVQIDILDTAGQEDYAAIRDNY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEA 234
           +R+    L VF IT+  SFAA   + +++ R   DE +   +VGNK+DLE  R+V+ EEA
Sbjct: 75  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 134
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            + ++     Y ETSA     ++ VF ++ + +
Sbjct: 135 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 85.5 bits (210), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 55/158 (34%), Positives = 84/158 (53%), Gaps = 15/158 (9%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGA-----SFFTAKINVGENKVKLQVWDTAGQERFRS 170
           G GKT+ V R++   F      TIG      SF+T   N GE  +K  VWDTAG E+F  
Sbjct: 22  GTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYT---NFGE--IKFDVWDTAGLEKFGG 76
Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREV 229
           +   YY NA  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +  
Sbjct: 77  LRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCENIPIVLC--GNKVDVKERKVK 134
Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +   FH  K++   YY+ SA  +   E  FL +++ L
Sbjct: 135 AKTITFHRKKNL--QYYDISAKSNYNFEKPFLWLARKL 170

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 85.5 bits (210), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 56/153 (36%), Positives = 80/153 (52%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQY 71
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I  + +++KR   + D P+VL  VGNK DL + R V   
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AGRTVESR 128
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +A   ++S G  Y ETSA   QG+ED F  + +
Sbjct: 129 QAQDLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 85.1 bits (209), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 55/158 (34%), Positives = 84/158 (53%), Gaps = 15/158 (9%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGA-----SFFTAKINVGENKVKLQVWDTAGQERFRS 170
           G GKT+ V R++   F      TIG      SF+T   N GE  +K  VWDTAG E+F  
Sbjct: 14  GTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYT---NFGE--IKFDVWDTAGLEKFGG 68
Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREV 229
           +   YY NA  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +  
Sbjct: 69  LRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCENIPIVLC--GNKVDVKERKVK 126
Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +   FH  K++   YY+ SA  +   E  FL +++ L
Sbjct: 127 AKTITFHRKKNL--QYYDISAKSNYNFEKPFLWLARKL 162

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 85.1 bits (209), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 55/158 (34%), Positives = 84/158 (53%), Gaps = 15/158 (9%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGA-----SFFTAKINVGENKVKLQVWDTAGQERFRS 170
           G GKT+ V R++   F      TIG      SF+T   N GE  +K  VWDTAG E+F  
Sbjct: 15  GTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYT---NFGE--IKFDVWDTAGLEKFGG 69
Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREV 229
           +   YY NA  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +  
Sbjct: 70  LRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCENIPIVLC--GNKVDVKERKVK 127
Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            +   FH  K++   YY+ SA  +   E  FL +++ L
Sbjct: 128 AKTITFHRKKNL--QYYDISAKSNYNFEKPFLWLARKL 163

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 85.1 bits (209), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 85/151 (56%), Gaps = 2/151 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+    +  GE +V++ + DTAGQE + ++   Y
Sbjct: 14  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE-EVQIDILDTAGQEDYAAIRDNY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEA 234
           +R+    L VF IT+  SFAA   + +++ R   DE +   +VGNK+DLE  R+V+ EEA
Sbjct: 73  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 132
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            + +      Y ETSA     ++ VF ++ +
Sbjct: 133 KNRADQWNVNYVETSAKTRANVDKVFFDLMR 163

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 84.7 bits (208), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 78/154 (50%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAG E+F  +   Y
Sbjct: 20  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGGLRDGY 79
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 80  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 137
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 138 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 169

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 84.7 bits (208), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 78/154 (50%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAG E+F  +   Y
Sbjct: 16  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGGLRDGY 75
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 76  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 133
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 134 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 165

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 78/154 (50%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAG E+F  +   Y
Sbjct: 22  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGGLRDGY 81
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 82  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 139
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 140 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 171

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 53/151 (35%), Positives = 82/151 (54%), Gaps = 3/151 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y
Sbjct: 14  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEA 234
            R     L VF I    SF  I  + +++KR  D E + + +VGNK+DL  SR V+ ++A
Sbjct: 73  MRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQA 131
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
              ++S G  + ETSA   QG++D F  + +
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 55/153 (35%), Positives = 82/153 (53%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y
Sbjct: 14  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQY 72
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I  + +++KR   + D P+VL  VGNK DL  SR V+ +
Sbjct: 73  MRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVL--VGNKCDL-PSRTVDTK 129
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +A   ++S G  + ETSA   QG++D F  + +
Sbjct: 130 QAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 48/154 (31%), Positives = 78/154 (50%), Gaps = 5/154 (3%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++          T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 25  GTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 84
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 85  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 142
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 143 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 174

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 83.6 bits (205), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 50/152 (32%), Positives = 86/152 (56%), Gaps = 3/152 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+    +  GE +V++ + DTAG E + ++   Y
Sbjct: 13  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE-EVQIDILDTAGLEDYAAIRDNY 71
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR--NVDEPLVLCVVGNKTDLESSREVNREE 233
           +R+    LLVF IT++ SF A   + +++ R    ++ + L VVGNK+DLE  R+V  EE
Sbjct: 72  FRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEE 131
Query: 234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           A   ++  G  Y ETSA     ++ VF ++ +
Sbjct: 132 ARSKAEEWGVQYVETSAKTRANVDKVFFDLMR 163

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 83.6 bits (205), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 50/152 (32%), Positives = 86/152 (56%), Gaps = 3/152 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+    +  GE +V++ + DTAG E + ++   Y
Sbjct: 17  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE-EVQIDILDTAGLEDYAAIRDNY 75
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR--NVDEPLVLCVVGNKTDLESSREVNREE 233
           +R+    LLVF IT++ SF A   + +++ R    ++ + L VVGNK+DLE  R+V  EE
Sbjct: 76  FRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEE 135
Query: 234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           A   ++  G  Y ETSA     ++ VF ++ +
Sbjct: 136 ARSKAEEWGVQYVETSAKTRANVDKVFFDLMR 167

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 82.4 bits (202), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 85/151 (56%), Gaps = 2/151 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+    +  GE +V++ + DTAG E + ++   Y
Sbjct: 16  GVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGE-EVQIDILDTAGLEDYAAIRDNY 74
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEA 234
           +R+    L VF IT+  SFAA   + +++ R   DE +   +VGNK+DLE  R+V+ EEA
Sbjct: 75  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 134
Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            + ++     Y ETSA     ++ VF ++ +
Sbjct: 135 KNRAEQWNVNYVETSAKTRANVDKVFFDLMR 165

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 54/150 (36%), Positives = 80/150 (53%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 92
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SFA I  + +++KR   + D P+VL  VGNK DL  +R V+ ++A 
Sbjct: 93  GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVL--VGNKCDL-PTRTVDTKQAH 149
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +KS G  + ETSA   QG+ED F  + +
Sbjct: 150 ELAKSYGIPFIETSAKTRQGVEDAFYTLVR 179

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 80.9 bits (198), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 79/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 80/152 (52%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK+DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKSDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 80.1 bits (196), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 79/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEFDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 79.7 bits (195), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 79
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 136
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 137 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 166

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 79.7 bits (195), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 79
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 136
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 137 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 166

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 79.3 bits (194), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 79/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 79.3 bits (194), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 81
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 82  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 138
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 139 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 168

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 79.0 bits (193), Expect = 6e-15,   Method: Composition-based stats.
 Identities = 46/145 (31%), Positives = 75/145 (51%), Gaps = 6/145 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ +++I   F     PTI  S+ T +  + +   +L + DTAGQE F +M   Y R 
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSY-TKQCVIDDRAARLDILDTAGQEEFGAMREQYMRT 76
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNREEAF 235
               LLVF +T   SF  I  + +++ R  D    P++L  +GNK DL+  R+V +EE  
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMIL--IGNKADLDHQRQVTQEEGQ 134
Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
             ++ +  TY E SA     ++  F
Sbjct: 135 QLARQLKVTYMEASAKIRMNVDQAF 159

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 79.0 bits (193), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 79/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDKYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 79.0 bits (193), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 79.0 bits (193), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 49/138 (35%), Positives = 68/138 (49%), Gaps = 6/138 (4%)
Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDTAGQERFRSMAPMYY 176
           GKTS+   +  + F      TIG  FF  +I + G   V LQ+WD  GQ     M   Y 
Sbjct: 18  GKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYI 77
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDE----PLVLCVVGNKTDLESSREVNRE 232
             A   LLV+DIT Y SF  ++ W   +K+  +E    PLV  +VGNK DLE  R +  E
Sbjct: 78  YGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLV-ALVGNKIDLEHMRTIKPE 136
Query: 233 EAFHYSKSIGGTYYETSA 250
           +   + +  G + +  SA
Sbjct: 137 KHLRFCQENGFSSHFVSA 154

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 78.6 bits (192), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K ++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 78.6 bits (192), Expect = 9e-15,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/163 (33%), Positives = 81/163 (49%), Gaps = 6/163 (3%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ +++I   F     PTI  S+ T   +V     +L + DTAGQE F +M   Y R 
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGIPARLDILDTAGQEEFGAMREQYMRA 80
Query: 179 ANAALLVFDITQYHSFAAIK---TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            +  LLVF I    SF  +    T +  +K   D P+VL  VGNK DLES R+V R EA 
Sbjct: 81  GHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVL--VGNKADLESQRQVPRSEAS 138
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTS 278
            +  S    Y+E SA     +++ F  + + +    ++ L  S
Sbjct: 139 AFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELPPS 181

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     P+I  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 80
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 81  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 138 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 167

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 75
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY 237
               L VF I    SF  I  + +++KR  D E + + +VGNK+DL  SR V+ ++A   
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQAQDL 134
Query: 238 SKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           ++S G  + ETSA   QG++D F  + + +
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 75
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY 237
               L VF I    SF  I  + +++KR  D E + + +VGNK+DL  SR V+ ++A   
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDL-PSRTVDTKQAQDL 134
Query: 238 SKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           ++S G  + ETSA   QG++D F  + + +
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DT GQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTGGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 77.8 bits (190), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDEYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 77.8 bits (190), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 79/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG+E + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGKEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 77.4 bits (189), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 52/150 (34%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGN+ DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNRCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 77.4 bits (189), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGHEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 77.4 bits (189), Expect = 2e-14,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGEICL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 3e-14,   Method: Composition-based stats.
 Identities = 52/150 (34%), Positives = 78/150 (52%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     P+I  S+    +  GE  + L + DTAGQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYRKQVVIDGETCL-LDILDTAGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETXL-LDILDTAGGEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 76.6 bits (187), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 77/150 (51%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGLEEYSAMRDQYMRT 79
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 136
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 137 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 166

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGGEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 52/150 (34%), Positives = 77/150 (51%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DT GQE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTTGQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 5e-14,   Method: Composition-based stats.
 Identities = 53/150 (35%), Positives = 77/150 (51%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAGQE   +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGQEEASAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGLEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGVEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 7/152 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGIEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKCDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++S G  Y ETSA   QG+ED F  + + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 75.9 bits (185), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/157 (30%), Positives = 83/157 (52%), Gaps = 13/157 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGA-----SFFTAKINVGENKVKLQVWDTAGQERFRS 170
           GVGKT+ + R +   F  + + T+GA     +F   + NV    +K  VWDTAGQE+   
Sbjct: 21  GVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNV----IKFNVWDTAGQEKKAV 76
Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDLESSRE 228
           +  +YY  A+ A+L FD+T   +   +  WVKE +  V  + P+V+C   NK D+++ ++
Sbjct: 77  LKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVC--ANKIDIKNRQK 134
Query: 229 VNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           ++++      K     Y+E SA         FL++++
Sbjct: 135 ISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLAR 171

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 6e-14,   Method: Composition-based stats.
 Identities = 52/150 (34%), Positives = 77/150 (51%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTA QE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAAQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKXDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 75.9 bits (185), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 52/150 (34%), Positives = 77/150 (51%), Gaps = 7/150 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTA QE + +M   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAAQEEYSAMRDQYMRT 74
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAF 235
               L VF I    SF  I  + +++KR   + D P+VL  VGNK DL ++R V   +A 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKXDL-AARTVESRQAQ 131
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 75.5 bits (184), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 44/155 (28%), Positives = 83/155 (53%), Gaps = 7/155 (4%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +GVGK+++ V+++  +F     PTI  S+   ++ V   +  L++ DTAG E+F +M  +
Sbjct: 14  VGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDAQQCMLEILDTAGTEQFTAMRDL 72
Query: 175 YYRNANAALLVFDITQYHSF---AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR 231
           Y +N     LV+ IT   +F     ++  +  +K   D P++L  VGNK DLE  R V +
Sbjct: 73  YMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMIL--VGNKCDLEDERVVGK 130
Query: 232 EEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
           E+  + ++      + E+SA     + ++F ++ +
Sbjct: 131 EQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVR 165

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 75.5 bits (184), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 81/169 (47%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   + +L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 75.5 bits (184), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 53/158 (33%), Positives = 76/158 (48%), Gaps = 16/158 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT M++ Y G  F     PT+  +F +A + V  + V L +WDTAGQE +  + P+ 
Sbjct: 16  AVGKTCMLISYTGNTFPTDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRLRPLS 74
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           YR A+  LL F +    S+  I K W+ ELK      P+VL  VG K DL   ++     
Sbjct: 75  YRGADVFLLAFSLISKASYENIHKKWLPELKHYAPGIPIVL--VGTKLDLRDDKQFLKDH 132
Query: 229 -----VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                +   +     K IG   Y E S+   Q ++ VF
Sbjct: 133 PGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVF 170

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 81/169 (47%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   + +L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 81/169 (47%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   + +L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 74  YPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 131
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 132 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 180

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/150 (32%), Positives = 78/150 (52%), Gaps = 3/150 (2%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ ++ I   F     PTI  S+    +  GE  + L + DTAG E + +M   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCL-LDILDTAGHEEYSAMRDQYMRT 92
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY 237
               L VF I    SF  I  + +++KR  D E + + +VGNK DL  SR V+ ++A   
Sbjct: 93  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDL-PSRTVDTKQAQDL 151
Query: 238 SKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           ++S G  + ETSA   QG++D F  + + +
Sbjct: 152 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 181

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 81/169 (47%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 17  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 75
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   + +L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 76  YPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 133
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 134 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 182

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 74.7 bits (182), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 44/154 (28%), Positives = 82/154 (53%), Gaps = 7/154 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI  S+   ++ V   +  L++ DTAG E+F +M  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDAQQCMLEILDTAGTEQFTAMRDLY 71
Query: 176 YRNANAALLVFDITQYHSF---AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            +N     LV+ IT   +F     ++  +  +K   D P++L  VGNK DLE  R V +E
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMIL--VGNKCDLEDERVVGKE 129
Query: 233 EAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
           +  + ++      + E+SA     + ++F ++ +
Sbjct: 130 QGQNLARQWNNCAFLESSAKSKINVNEIFYDLVR 163

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 74.3 bits (181), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 43/152 (28%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI  S+   ++ V   +  L++ DTAG E+F +M  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLY 71
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEA 234
            +N     LV+ IT   +F  ++   +++ R  D E + + +VGNK DLE  R V +E+ 
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 131
Query: 235 FHYSKS-IGGTYYETSALQDQGIEDVFLNVSK 265
            + ++      + E+SA     + ++F ++ +
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 74.3 bits (181), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 44/148 (29%), Positives = 81/148 (54%), Gaps = 2/148 (1%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKTS+  +++   FS    PT+  + ++  + +G+++  L + DTAGQ+ +  +   + 
Sbjct: 35  VGKTSLAHQFVEGEFSEGYDPTV-ENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFI 93
Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVNREEAF 235
              +  +LV+ +T  HSF  I++  ++L     +  V + +VGNK DL   REV   E  
Sbjct: 94  IGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGK 153
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNV 263
             ++S G T+ E+SA ++Q  + +F  V
Sbjct: 154 KLAESWGATFMESSARENQLTQGIFTKV 181

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 74.3 bits (181), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 43/152 (28%), Positives = 83/152 (54%), Gaps = 3/152 (1%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI  S+   ++ V   +  L++ DTAG E+F +M  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVDEYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLY 71
Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEA 234
            +N     LV+ IT   +F  ++   +++ R  D E + + +VGNK DLE  R V +E+ 
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 131
Query: 235 FHYSKS-IGGTYYETSALQDQGIEDVFLNVSK 265
            + ++      + E+SA     + ++F ++ +
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 73.9 bits (180), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 50/154 (32%), Positives = 83/154 (53%), Gaps = 8/154 (5%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++VVR++ K F     PT+  S +  +  + +  V +++ DTAGQE        +
Sbjct: 38  GVGKSALVVRFLTKRFIWEYDPTL-ESTYRHQATIDDEVVSMEILDTAGQED-TIQREGH 95
Query: 176 YRNANAALLVFDITQYHSFAAI---KTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
            R     +LV+DIT   SF  +   K  + E+K+  +  L+L  VGNK DL+ SR+V+ E
Sbjct: 96  MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLIL--VGNKADLDHSRQVSTE 153
Query: 233 EAFHYSKSIGGTYYETSALQDQG-IEDVFLNVSK 265
           E    +  +   +YE SA   +G I ++F  + +
Sbjct: 154 EGEKLATELACAFYECSACTGEGNITEIFYELCR 187

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 73.9 bits (180), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 80/169 (47%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 73.9 bits (180), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 80/169 (47%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 72.4 bits (176), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 48/157 (30%), Positives = 75/157 (47%), Gaps = 14/157 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT M++ Y    F     PT+  +F +A + V  N V L +WDTAGQE +  + P+ 
Sbjct: 16  AVGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLWDTAGQEDYNRLRPLS 74
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESSRE------ 228
           YR A+  +L F +    S+  + K W+ EL R+    + + +VG K DL   ++      
Sbjct: 75  YRGADVFILAFSLISKASYENVAKKWIPEL-RHYAPGVPIILVGTKLDLRDDKQFFIDHP 133
Query: 229 ----VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
               +   +     K IG   Y E S+   Q ++ VF
Sbjct: 134 GAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVF 170

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 50/160 (31%), Positives = 80/160 (50%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS+VV Y    +     PT     F+A ++V    V+LQ+ DTAGQ+ F  + P+ 
Sbjct: 30  AVGKTSLVVSYTTNGYPTEYIPT-AFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLC 88
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDE-PLVLCVVGNKTDLESS------- 226
           Y N +  LL F +    SF  + + WV E++ +  + P++L  VG ++DL          
Sbjct: 89  YTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIIL--VGTQSDLREDVKVLIEL 146
Query: 227 -----REVNREEAFHYSKSI-GGTYYETSALQDQGIEDVF 260
                + V  E A   ++ I   +Y E SAL  + +++VF
Sbjct: 147 DKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 76/148 (51%), Gaps = 2/148 (1%)
Query: 114 WLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAP 173
           +  VGK+S+ ++++   F     PTI  +F T  I V   +  LQ+ DTAGQ+ +     
Sbjct: 14  YRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQ 72
Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVNRE 232
            Y  + N  +LV+ +T   SF  IK    +L   V +  + + +VGNK DL   R ++ E
Sbjct: 73  TYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYE 132
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    ++S    + E+SA ++Q   DVF
Sbjct: 133 EGKALAESWNAAFLESSAKENQTAVDVF 160

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 71.2 bits (173), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 76/148 (51%), Gaps = 2/148 (1%)
Query: 114 WLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAP 173
           +  VGK+S+ ++++   F     PTI  +F T  I V   +  LQ+ DTAGQ+ +     
Sbjct: 14  YRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQ 72
Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVNRE 232
            Y  + N  +LV+ +T   SF  IK    +L   V +  + + +VGNK DL   R ++ E
Sbjct: 73  TYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYE 132
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    ++S    + E+SA ++Q   DVF
Sbjct: 133 EGKALAESWNAAFLESSAKENQTAVDVF 160

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 71.2 bits (173), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 48/156 (30%), Positives = 83/156 (53%), Gaps = 8/156 (5%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V+R++   F     PT+  ++    I+  ++   LQ+ DT G  +F +M  + 
Sbjct: 13  GVGKSSLVLRFVKGTFRESYIPTVEDTYRQV-ISCDKSICTLQITDTTGSHQFPAMQRLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK---TWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
               +A +LV+ IT   S   +K     + E+K +V E + + +VGNK D   SREV   
Sbjct: 72  ISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDV-ESIPIMLVGNKCDESPSREVQSS 130
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF---LNVSK 265
           EA   +++    + ETSA  +  ++++F   LN+ K
Sbjct: 131 EAEALARTWKCAFMETSAKLNHNVKELFQELLNLEK 166

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 76/148 (51%), Gaps = 2/148 (1%)
Query: 114 WLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAP 173
           +  VGK+S+ ++++   F     PTI  +F T  I V   +  LQ+ DTAGQ+ +     
Sbjct: 12  YRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQ 70
Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVNRE 232
            Y  + N  +LV+ +T   SF  IK    +L   V +  + + +VGNK DL   R ++ E
Sbjct: 71  TYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYE 130
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    ++S    + E+SA ++Q   DVF
Sbjct: 131 EGKALAESWNAAFLESSAKENQTAVDVF 158

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 79/169 (46%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/148 (31%), Positives = 76/148 (51%), Gaps = 2/148 (1%)
Query: 114 WLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAP 173
           +  VGK+S+ ++++   F     PTI  +F T  I V   +  LQ+ DTAGQ+ +     
Sbjct: 9   YRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQ 67
Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREVNRE 232
            Y  + N  +LV+ +T   SF  IK    +L   V +  + + +VGNK DL   R ++ E
Sbjct: 68  TYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYE 127
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E    ++S    + E+SA ++Q   DVF
Sbjct: 128 EGKALAESWNAAFLESSAKENQTAVDVF 155

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 79/169 (46%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 50/156 (32%), Positives = 75/156 (48%), Gaps = 14/156 (8%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT M++ Y    F     PT+  +F +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 19  AVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLS 77
Query: 176 YRNANAALLVFDITQYHSFA-AIKTWVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           YR A+  +L F +    S+   +K W+ EL+R   + P+VL  VG K DL   +      
Sbjct: 78  YRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVL--VGTKLDLRDDKGYLADH 135
Query: 229 ---VNREEAFHYSKSIG-GTYYETSALQDQGIEDVF 260
              +   +     K IG   Y E S+   Q ++ VF
Sbjct: 136 TNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF 171

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 77/160 (48%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    FS    PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 23  AVGKTCLLISYTTNAFSGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 81
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 82  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 139
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 140 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 179

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 130 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 78/169 (46%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDSKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    S+  ++  W  E++ +    P++L  VG K DL   ++     
Sbjct: 72  YPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIIL--VGTKLDLRDDKDTIEKL 129
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K I    Y E SAL  +G++ VF    + ++C
Sbjct: 130 KEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 69.7 bits (169), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 32  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 90
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 91  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 148
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 149 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 188

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 79/169 (46%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ 
Sbjct: 165 AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 223
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 224 YPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 281
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 282 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 330

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 69.3 bits (168), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 79/169 (46%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ 
Sbjct: 165 AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 223
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 224 YPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 281
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 282 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 330

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 69.3 bits (168), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 44/170 (25%), Positives = 79/170 (46%), Gaps = 18/170 (10%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           + VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+
Sbjct: 18  VAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDSKPVNLGLWDTAGQEDYDRLRPL 76
Query: 175 YYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE---- 228
            Y   +  L+ F +    S+  ++  W  E++ +    P++L  VG K DL   ++    
Sbjct: 77  SYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIIL--VGTKLDLRDDKDTIEK 134
Query: 229 --------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                   +   +    +K I    Y E SAL  +G++ VF    + ++C
Sbjct: 135 LKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVLC 184

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 69.3 bits (168), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 45/169 (26%), Positives = 79/169 (46%), Gaps = 18/169 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ 
Sbjct: 165 AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 223
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 224 YPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 281
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFLNVSKGLIC 269
                  +   +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 282 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 330

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 69.3 bits (168), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 40  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 98
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 156
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 157 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 48/158 (30%), Positives = 74/158 (46%), Gaps = 16/158 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  +F +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 18  AVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQEDYNRLRPLS 76
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           YR A+  +L F +    S+  + K W+ ELK      P+VL  VG K DL   ++     
Sbjct: 77  YRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVL--VGTKLDLRDDKQFFIDH 134
Query: 229 -----VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                +   +     K IG   Y E S+   + ++ VF
Sbjct: 135 PGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 43/159 (27%), Positives = 74/159 (46%), Gaps = 16/159 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSRE------ 228
           Y   +  L+ F +    SF  ++  W  E++ +     +L +VG K DL   ++      
Sbjct: 72  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPIL-LVGTKLDLRDDKDTIERLR 130
Query: 229 ------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                 +   +    ++ IG   Y E SAL  +G++ VF
Sbjct: 131 DKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 169

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 68.2 bits (165), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 49/160 (30%), Positives = 77/160 (48%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKTS+++ +    F    +PT+   +    + V    V L +WDTAGQ+ +  + P++
Sbjct: 44  GCGKTSLLMVFADGAFPESYTPTVFERYMV-NLQVKGKPVHLHIWDTAGQDDYDRLRPLF 102
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDE-PLVLCVVGNKTDLESSREV---- 229
           Y +A+  LL FD+T  +SF  I   W  E+     + P++  VVG KTDL   + +    
Sbjct: 103 YPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPII--VVGCKTDLRKDKSLVNKL 160
Query: 230 --NREEAFHY------SKSIGG-TYYETSALQDQGIEDVF 260
             N  E   Y      ++S+G   Y E SA     +  VF
Sbjct: 161 RRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF 200

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/159 (27%), Positives = 74/159 (46%), Gaps = 16/159 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 14  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 72
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSRE------ 228
           Y   +  L+ F +    SF  ++  W  E++ +     +L +VG K DL   ++      
Sbjct: 73  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPIL-LVGTKLDLRDDKDTIERLR 131
Query: 229 ------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                 +   +    ++ IG   Y E SAL  +G++ VF
Sbjct: 132 DKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 75/163 (46%), Gaps = 22/163 (13%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +  GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+
Sbjct: 15  VACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPL 73
Query: 175 YYRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVN 230
            Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     
Sbjct: 74  SYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTR 129
Query: 231 R------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
           R            EE    +  IG   Y E SA    G+ +VF
Sbjct: 130 RELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 172

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 43/159 (27%), Positives = 74/159 (46%), Gaps = 16/159 (10%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 14  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 72
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESSRE------ 228
           Y   +  L+ F +    SF  ++  W  E++ +     +L +VG K DL   ++      
Sbjct: 73  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPIL-LVGTKLDLRDDKDTIERLR 131
Query: 229 ------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                 +   +    ++ IG   Y E SAL  +G++ VF
Sbjct: 132 DKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 75/160 (46%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK  +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 20  AVGKNCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 78
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 79  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 136
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 137 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 176

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 15  ACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 129
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 130 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 75/160 (46%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y          PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 40  AVGKTCLLISYTTNALPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 98
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 156
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 157 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 17  ACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 75
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 76  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 131
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 132 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 173

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 16  ACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 74
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 75  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 130
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 131 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 172

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 19  ACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 77
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 78  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 133
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 134 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 175

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 75/160 (46%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ 
Sbjct: 16  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 74
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 75  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 132
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 133 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 172

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 18  ACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 76
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 77  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 132
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 133 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 174

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 67.0 bits (162), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 17  ACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 75
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 76  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 131
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 132 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 173

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 75/160 (46%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ 
Sbjct: 40  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLS 98
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 156
Query: 229 -------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 157 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 74/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 17  ACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 75
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 76  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 131
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 132 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 173

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/158 (27%), Positives = 83/158 (52%), Gaps = 15/158 (9%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
            GKT+++  +    F  +  PT+  ++ TA   +   +++L +WDT+G   + ++ P+ Y
Sbjct: 39  CGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSY 97
Query: 177 RNANAALLVFDITQYHSF-AAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSRE---- 228
            +++A L+ FDI++  +  + +K W   ++E   N    LV C    +TD+ +  E    
Sbjct: 98  PDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNH 157
Query: 229 ----VNREEAFHYSKSIG-GTYYETSALQDQ-GIEDVF 260
               V+ ++  + +K IG  TY E SALQ +  + D+F
Sbjct: 158 RQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 195

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 46/160 (28%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+    +   + VG  +  L ++DTAGQE +  + P+ 
Sbjct: 28  AVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLS 86
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNV-DEPLVLCVVGNKTDLESS------- 226
           Y   +  L+ F +    SF  +K  WV ELK    + P +L  +G + DL          
Sbjct: 87  YPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLL--IGTQIDLRDDPKTLARL 144
Query: 227 -----REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                + +  E+    +K IG   Y E SAL  +G++ VF
Sbjct: 145 NDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/158 (27%), Positives = 83/158 (52%), Gaps = 15/158 (9%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
            GKT+++  +    F  +  PT+  ++ TA   +   +++L +WDT+G   + ++ P+ Y
Sbjct: 34  CGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSY 92
Query: 177 RNANAALLVFDITQYHSF-AAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSRE---- 228
            +++A L+ FDI++  +  + +K W   ++E   N    LV C    +TD+ +  E    
Sbjct: 93  PDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNH 152
Query: 229 ----VNREEAFHYSKSIG-GTYYETSALQDQ-GIEDVF 260
               V+ ++  + +K IG  TY E SALQ +  + D+F
Sbjct: 153 RQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 190

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 43/158 (27%), Positives = 83/158 (52%), Gaps = 15/158 (9%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
            GKT+++  +    F  +  PT+  ++ TA   +   +++L +WDT+G   + ++ P+ Y
Sbjct: 18  CGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSY 76
Query: 177 RNANAALLVFDITQYHSF-AAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSRE---- 228
            +++A L+ FDI++  +  + +K W   ++E   N    LV C    +TD+ +  E    
Sbjct: 77  PDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNH 136
Query: 229 ----VNREEAFHYSKSIG-GTYYETSALQDQ-GIEDVF 260
               V+ ++  + +K IG  TY E SALQ +  + D+F
Sbjct: 137 RQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 174

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 65.9 bits (159), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 43/161 (26%), Positives = 75/161 (46%), Gaps = 18/161 (11%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           + VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+
Sbjct: 19  VAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDSKPVNLGLWDTAGQEDYDRLRPL 77
Query: 175 YYRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE---- 228
            Y   +  L+ F +    S+  ++  W  E++ +    P++L  VG K DL   ++    
Sbjct: 78  SYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPIIL--VGTKLDLRDDKDTIEK 135
Query: 229 --------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                   +   +    +K I    Y E SAL  +G++ VF
Sbjct: 136 LKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 176

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 73/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 13  ACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 72  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 127
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 128 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 169

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 65.5 bits (158), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 47/173 (27%), Positives = 86/173 (49%), Gaps = 19/173 (10%)
Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
            GKT+M+       +     PT+  ++ TA +   E +V+L +WDT+G   + ++ P+ Y
Sbjct: 38  CGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCY 96
Query: 177 RNANAALLVFDITQYHSF-AAIKTWVKELKRNVDEPLVLCVVGNKTDL------------ 223
            +++A LL FDI++  +  +A+K W  E+        VL ++G KTDL            
Sbjct: 97  SDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVL-LIGCKTDLRTDLSTLMELSH 155
Query: 224 ESSREVNREEAFHYSKSIGG-TYYETSAL-QDQGIEDVFLNVSKGLICLSQES 274
           +    ++ E+    +K +G   Y E SA   ++ I  +F   S  ++CL++ S
Sbjct: 156 QKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTAS--MLCLNKPS 206

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 65.5 bits (158), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 73/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 13  ACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 72  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 127
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 128 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 169

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 65.5 bits (158), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 48/162 (29%), Positives = 73/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 35  ACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLS 93
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL       R
Sbjct: 94  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRQDEHTRR 149
Query: 232 EEAFHYSKSIGGT-------------YYETSALQDQGIEDVF 260
           E A    + +                Y E SA   +G+ +VF
Sbjct: 150 ELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 65.5 bits (158), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 73/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 129
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 130 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 65.5 bits (158), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 50/163 (30%), Positives = 74/163 (45%), Gaps = 22/163 (13%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           +  GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +    P+
Sbjct: 14  VACGKTCLLIVFSKDQFPAVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRARPL 72
Query: 175 YYRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVN 230
            Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     
Sbjct: 73  SYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTA 128
Query: 231 RE------------EAFHYSKSIGG-TYYETSALQDQGIEDVF 260
           RE            E    +  IG   Y E SA    G+ +VF
Sbjct: 129 RELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 73/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 129
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 130 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/162 (29%), Positives = 73/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 35  ACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLS 93
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL       R
Sbjct: 94  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFXPNV--PIIL--VGNKKDLRQDEHTRR 149
Query: 232 EEAFHYSKSIGGT-------------YYETSALQDQGIEDVF 260
           E A    + +                Y E SA   +G+ +VF
Sbjct: 150 ELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 50/162 (30%), Positives = 73/162 (45%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 129
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 130 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 70/148 (47%), Gaps = 8/148 (5%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ +++  K+F     PTI  S+      +      L V DTAGQE F +M   Y R 
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSYL-KHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY 237
            +  L+V+ +T   SF  +  + + + R  D E   + +V NK DL   R+V R++    
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 238 SKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +      Y ETSA      +D  LNV K
Sbjct: 150 ATKYNIPYIETSA------KDPPLNVDK 171

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 70/148 (47%), Gaps = 8/148 (5%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ +++  K+F     PTI  S+      +      L V DTAGQE F +M   Y R 
Sbjct: 31  KSALTIQFFQKIFVPEYDPTIEDSYL-KHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY 237
            +  L+V+ +T   SF  +  + + + R  D E   + +V NK DL   R+V R++    
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 238 SKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +      Y ETSA      +D  LNV K
Sbjct: 150 ATKYNIPYIETSA------KDPPLNVDK 171

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 47/158 (29%), Positives = 74/158 (46%), Gaps = 18/158 (11%)
Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT +++      F     PT+  ++  A + V   +V+L +WDTAGQE +  + P+ Y 
Sbjct: 22  GKTCLLIVNSKGQFPEVYVPTVFENY-VADVEVDGRRVELALWDTAGQEDYDRLRPLSYP 80
Query: 178 NANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDL------------ 223
           ++N  L+ F I    S   ++  W+ E+       P++L  VG K DL            
Sbjct: 81  DSNVVLICFSIDLPDSLENVQEKWIAEVLHFCQGVPIIL--VGCKVDLRNDPQTIEQLRQ 138
Query: 224 ESSREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
           E  + V  +E    +  IG T YYE SA    G+ +VF
Sbjct: 139 EGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVF 176

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/170 (28%), Positives = 77/170 (45%), Gaps = 22/170 (12%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 35  ACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 93
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F +    S   I + WV E+K    NV  P++L  V NK DL S   V  
Sbjct: 94  YPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNV--PIIL--VANKKDLRSDEHVRT 149
Query: 232 EEAFHYSKSI-------------GGTYYETSALQDQGIEDVFLNVSKGLI 268
           E A    + +                Y E SA   +G+ +VF   ++  +
Sbjct: 150 ELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAAL 199

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 80/152 (52%), Gaps = 6/152 (3%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ V+++   F     PTI   F+  +I V  +   L++ DTAG E+F SM  +Y +N
Sbjct: 16  KSALTVQFVTGTFIEKYDPTI-EDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 179 ANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
               +LV+ +    SF  IK     +  +KR    P++L  VGNK DLES REV+  E  
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVIL--VGNKVDLESEREVSSSEGR 132
Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             ++  G  + ETSA     ++++F  + + +
Sbjct: 133 ALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 70/148 (47%), Gaps = 8/148 (5%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ +++  K+F     PTI  S+      +      L V DTAGQE F +M   Y R 
Sbjct: 31  KSALTIQFFQKIFVDEYDPTIEDSY-RKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 89
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY 237
            +  L+V+ +T   SF  +  + + + R  D E   + +V NK DL   R+V R++    
Sbjct: 90  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 149
Query: 238 SKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +      Y ETSA      +D  LNV K
Sbjct: 150 ATKYNIPYIETSA------KDPPLNVDK 171

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 70/148 (47%), Gaps = 8/148 (5%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+++ +++  K+F     PTI  S+      +      L V DTAGQE F +M   Y R 
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSYL-KHTEIDNQWAILDVLDTAGQEEFSAMREQYMRT 84
Query: 179 ANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY 237
            +  L+V+ +T   SF  +  + + + R  D E   + +V NK DL   R+V R++    
Sbjct: 85  GDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEM 144
Query: 238 SKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +      Y ETSA      +D  LNV K
Sbjct: 145 ATKYNIPYIETSA------KDPPLNVDK 166

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/162 (29%), Positives = 72/162 (44%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 15  ACGKTCLLIVNSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL       R
Sbjct: 74  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRQDEHTRR 129
Query: 232 EEAFHYSKSIGGT-------------YYETSALQDQGIEDVF 260
           E A    + +                Y E SA   +G+ +VF
Sbjct: 130 ELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 171

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 63.5 bits (153), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 47/188 (25%), Positives = 81/188 (43%), Gaps = 37/188 (19%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 73
Query: 176 YRN-------------------ANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVL 214
           Y                     A+  L+ F +    SF  ++  W  E++ +  + P++L
Sbjct: 74  YPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL 133
Query: 215 CVVGNKTDLESSRE------------VNREEAFHYSKSIGGT-YYETSALQDQGIEDVFL 261
             VG K DL   ++            +   +    +K IG   Y E SAL  +G++ VF 
Sbjct: 134 --VGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFD 191
Query: 262 NVSKGLIC 269
              + ++C
Sbjct: 192 EAIRAVLC 199

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 62.8 bits (151), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 43/149 (28%), Positives = 74/149 (49%), Gaps = 6/149 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ +          PT+  +F +  +     +  L +WDTAGQE +  + P+ 
Sbjct: 33  AVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQEEYDRLRPLS 91
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDL--ESSREVNRE 232
           Y +++  LL F +    SF  I T W  E+K  +D    + +VG K DL  + S +V ++
Sbjct: 92  YADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV-LVGLKVDLRKDGSDDVTKQ 150
Query: 233 EAFHYSKSIGG-TYYETSALQDQGIEDVF 260
           E     + +G   Y E S++   G+ +VF
Sbjct: 151 EGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 62.4 bits (150), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 49/162 (30%), Positives = 72/162 (44%), Gaps = 22/162 (13%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+  ++  A I V   +V+L +WDTAG E +  + P+ 
Sbjct: 18  ACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGLEDYDRLRPLS 76
Query: 176 YRNANAALLVFDITQYHSFAAI-KTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
           Y + +  L+ F I    S   I + W  E+K    NV  P++L  VGNK DL +     R
Sbjct: 77  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV--PIIL--VGNKKDLRNDEHTRR 132
Query: 232 ------------EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                       EE    +  IG   Y E SA    G+ +VF
Sbjct: 133 ELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 174

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 62.4 bits (150), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 43/149 (28%), Positives = 74/149 (49%), Gaps = 6/149 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ +          PT+  +F +  +     +  L +WDTAGQE +  + P+ 
Sbjct: 32  AVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQEEYDRLRPLS 90
Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDL--ESSREVNRE 232
           Y +++  LL F +    SF  I T W  E+K  +D    + +VG K DL  + S +V ++
Sbjct: 91  YADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV-LVGLKVDLRKDGSDDVTKQ 149
Query: 233 EAFHYSKSIGG-TYYETSALQDQGIEDVF 260
           E     + +G   Y E S++   G+ +VF
Sbjct: 150 EGDDLCQKLGCVAYIEASSVAKIGLNEVF 178

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 62.0 bits (149), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 74/161 (45%), Gaps = 18/161 (11%)
Query: 115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           + VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+
Sbjct: 12  VAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPL 70
Query: 175 YYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES------- 225
            Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL         
Sbjct: 71  SYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEK 128
Query: 226 -----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                 + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 129 LAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVXIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 47/172 (27%), Positives = 86/172 (50%), Gaps = 19/172 (11%)
Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+M+       +     PT+  ++ TA +   E +V+L +WDT+G   + ++ P+ Y 
Sbjct: 22  GKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYS 80
Query: 178 NANAALLVFDITQYHSF-AAIKTWVKELKRNVDEPLVLCVVGNKTDL------------E 224
           +++A LL FDI++  +  +A+K W  E+        VL ++G KTDL            +
Sbjct: 81  DSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVL-LIGCKTDLRTDLSTLMELSHQ 139
Query: 225 SSREVNREEAFHYSKSIGG-TYYETSAL-QDQGIEDVFLNVSKGLICLSQES 274
               ++ E+    +K +G   Y E SA   ++ I  +F   S  ++CL++ S
Sbjct: 140 KQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTAS--MLCLNKPS 189

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 47/172 (27%), Positives = 86/172 (50%), Gaps = 19/172 (11%)
Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+M+       +     PT+  ++ TA +   E +V+L +WDT+G   + ++ P+ Y 
Sbjct: 23  GKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYS 81
Query: 178 NANAALLVFDITQYHSF-AAIKTWVKELKRNVDEPLVLCVVGNKTDL------------E 224
           +++A LL FDI++  +  +A+K W  E+        VL ++G KTDL            +
Sbjct: 82  DSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVL-LIGCKTDLRTDLSTLMELSHQ 140
Query: 225 SSREVNREEAFHYSKSIGG-TYYETSAL-QDQGIEDVFLNVSKGLICLSQES 274
               ++ E+    +K +G   Y E SA   ++ I  +F   S  ++CL++ S
Sbjct: 141 KQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTAS--MLCLNKPS 190

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 14  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 72
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 73  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 130
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 131 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 170

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 16  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 74
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 75  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 132
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 133 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 172

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 15  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 74  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 131
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 132 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 171

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 23  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 81
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 82  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 139
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 140 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 179

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVF 169

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 20  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 78
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 79  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 136
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 137 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 176

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 17  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 75
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 76  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 133
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 134 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 173

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 16  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 74
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 75  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 132
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 133 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 172

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 15  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 73
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 74  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 131
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 132 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 171

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 73/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVF 169

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 42/145 (28%), Positives = 77/145 (53%), Gaps = 6/145 (4%)
Query: 119 KTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN 178
           K+S+V+R++   F     PTI  ++    I+  ++   LQ+ DT G  +F +M  +    
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTYRQV-ISCDKSVCTLQITDTTGSHQFPAMQRLSISK 79
Query: 179 ANAALLVFDITQYHS---FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            +A +LVF +T   S      I   + ++K +V++  V+ +VGNK D E+ REV+  EA 
Sbjct: 80  GHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVM-LVGNKCD-ETQREVDTREAQ 137
Query: 236 HYSKSIGGTYYETSALQDQGIEDVF 260
             ++     + ETSA  +  ++++F
Sbjct: 138 AVAQEWKCAFMETSAKMNYNVKELF 162

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 42/160 (26%), Positives = 72/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    + +G     L + DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLRDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 72/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     P +  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPAVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 72/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y          PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKLPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 72/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK  +++ Y    F     PT+  ++    + +G     L ++DTAGQE +  + P+ 
Sbjct: 20  AVGKNCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLFDTAGQEDYDRLRPLS 78
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 79  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 136
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 137 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 176

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 72/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  + +   + +G     L ++DTAG E +  + P+ 
Sbjct: 17  AVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIGGEPYTLGLFDTAGLEDYDRLRPLS 75
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 76  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 133
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 134 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 173

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 41/160 (25%), Positives = 72/160 (45%), Gaps = 18/160 (11%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  + +   + +G     L ++DTAG E +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIGGEPYTLGLFDTAGLEDYDRLRPLS 71
Query: 176 YRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDE-PLVLCVVGNKTDLES-------- 225
           Y   +  L+ F +    SF  +K  WV E+  +  + P +L  VG + DL          
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLL--VGTQIDLRDDPSTIEKL 129
Query: 226 ----SREVNREEAFHYSKSIGGT-YYETSALQDQGIEDVF 260
                + +  E A   ++ +    Y E SAL  +G+++VF
Sbjct: 130 AKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVF 169

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 38/142 (26%), Positives = 71/142 (50%), Gaps = 8/142 (5%)
Query: 117 VGKTSMVVRYI--GKMFSHHISPTIGASFFTAKINVGENKVKLQVW--DTAGQERFRSMA 172
           VGK++++  +   G  F    + T G     A + + +  V ++++  DTAG + ++   
Sbjct: 31  VGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQI 90
Query: 173 PMYYRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSR-E 228
             Y+     A+LVFD++   SF + K W + LK    + + PL   +V NKTDL   R +
Sbjct: 91  SQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQ 150
Query: 229 VNREEAFHYSKSIGGTYYETSA 250
           V  + A  ++ +    +++ SA
Sbjct: 151 VRLDMAQDWATTNTLDFFDVSA 172

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 38/110 (34%), Positives = 53/110 (48%), Gaps = 11/110 (10%)
Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+ V       FS  + PT+G  F   K+  G   V +++WD  GQ RFRSM   Y R
Sbjct: 34  GKTTFVNVIASGQFSEDMIPTVG--FNMRKVTKG--NVTIKIWDIGGQPRFRSMWERYCR 89
Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDL 223
             NA + + D        A +    EL   +D+P    + + V+GNK DL
Sbjct: 90  GVNAIVYMIDAADREKIEASRN---ELHNLLDKPQLQGIPVLVLGNKRDL 136

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 52/110 (47%), Gaps = 11/110 (10%)
Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+ V       F+  + PT+G  F   KI  G   +KL  WD  GQ RFRSM   Y R
Sbjct: 34  GKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIKL--WDIGGQPRFRSMWERYCR 89
Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDL 223
             +A + + D        A K    EL   +D+P    + + V+GNK DL
Sbjct: 90  GVSAIVYMVDAADQEKIEASKN---ELHNLLDKPQLQGIPVLVLGNKRDL 136

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 42/149 (28%), Positives = 72/149 (48%), Gaps = 6/149 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ-ERFRSMAPM 174
           GVGK+++   + G    H          +  +I V + +V L V+D   Q +    +   
Sbjct: 12  GVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDH 71
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
             +  +A L+VF +T   SF+ +   +  L+    + D P++L  VGNK+DL  SREV+ 
Sbjct: 72  CLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL--VGNKSDLARSREVSL 129
Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           EE  H + ++   + ETSA       ++F
Sbjct: 130 EEGRHLAGTLSCKHIETSAALHHNTRELF 158

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 52.8 bits (125), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 52/110 (47%), Gaps = 11/110 (10%)
Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+ V       F+  + PT+G  F   KI  G   +KL  WD  GQ RFRSM   Y R
Sbjct: 43  GKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIKL--WDIGGQPRFRSMWERYCR 98
Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDL 223
             +A + + D        A K    EL   +D+P    + + V+GNK DL
Sbjct: 99  GVSAIVYMVDAADQEKIEASKN---ELHNLLDKPQLQGIPVLVLGNKRDL 145

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 44/153 (28%), Positives = 73/153 (47%), Gaps = 14/153 (9%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++   + G        P      +  +I V + +V L V+D   Q      A  +
Sbjct: 33  GVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQ----GDAGGW 88
Query: 176 YRN-----ANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSR 227
            R+      +A L+VF +T   SF+ +   +  L+    + D P++L  VGNK+DL  SR
Sbjct: 89  LRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL--VGNKSDLARSR 146
Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           EV+ EE  H + ++   + ETSA       ++F
Sbjct: 147 EVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 179

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-06,   Method: Composition-based stats.
 Identities = 41/149 (27%), Positives = 72/149 (48%), Gaps = 6/149 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ-ERFRSMAPM 174
           GVGK+++   + G    +          +  +I V + +V L V+D   Q +    +   
Sbjct: 22  GVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDH 81
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSREVNR 231
             +  +A L+VF +T   SF+ +   +  L+    + D P++L  VGNK+DL  SREV+ 
Sbjct: 82  CLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL--VGNKSDLARSREVSL 139
Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           EE  H + ++   + ETSA       ++F
Sbjct: 140 EEGRHLAGTLSCKHIETSAALHHNTRELF 168

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 41/153 (26%), Positives = 78/153 (50%), Gaps = 14/153 (9%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+++ V+++ K F     P +  ++ +++  V    V L+V DTA  +  R+    Y
Sbjct: 31  GAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRN-CERY 88
Query: 176 YRNANAALLVFDITQYHSFAAIKTWV-------KELKRNVDEPLVLCVVGNKTDLESSRE 228
              A+A L+V+ +    SF +  +++       KE +R++  P +L  +GNK D+   R+
Sbjct: 89  LNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSI--PALL--LGNKLDMAQYRQ 144
Query: 229 VNREEAFHYSKSIGGTYYETSALQD-QGIEDVF 260
           V + E    +   G  ++E SA  D + ++ VF
Sbjct: 145 VTKAEGVALAGRFGCLFFEVSACLDFEHVQHVF 177

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 37/127 (29%), Positives = 56/127 (44%), Gaps = 13/127 (10%)
Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           G GKT+++ +  +G++ +    PTIG +  T +       +   VWD  GQ+R RS+   
Sbjct: 27  GAGKTTVLYKLKLGEVIT--TIPTIGFNVETVQYK----NISFTVWDVGGQDRIRSLWRH 80
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE--PLVLCVVGNKTDLE---SSREV 229
           YYRN    + V D          +  V +   N DE    V  V  NK DL    S+ E+
Sbjct: 81  YYRNTEGVIFVIDSNDRSRIGEARE-VMQRMLNEDELRNAVWLVFANKQDLPEAMSAAEI 139
Query: 230 NREEAFH 236
             +   H
Sbjct: 140 TEKLGLH 146

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 39/153 (25%), Positives = 75/153 (49%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++  R  G +     +   G ++  + +  GE +  L V+D   Q+  R +    
Sbjct: 12  GVGKSALA-RIFGGVEDGPEAEAAGHTYDRSIVVDGE-EASLMVYDIWEQDGGRWLPGHC 69
Query: 176 YRNANAALLVFDITQYHSF---AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
               +A ++V+ +T   SF   + ++  ++  ++  D P++L  VGNK+DL  SREV+ +
Sbjct: 70  MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIIL--VGNKSDLVRSREVSVD 127
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           E    +      + ETSA     ++ +F  V +
Sbjct: 128 EGRACAVVFDCKFIETSAALHHNVQALFEGVVR 160

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 39/153 (25%), Positives = 75/153 (49%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++  R  G +     +   G ++  + +  GE +  L V+D   Q+  R +    
Sbjct: 17  GVGKSALA-RIFGGVEDGPEAEAAGHTYDRSIVVDGE-EASLMVYDIWEQDGGRWLPGHC 74
Query: 176 YRNANAALLVFDITQYHSF---AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
               +A ++V+ +T   SF   + ++  ++  ++  D P++L  VGNK+DL  SREV+ +
Sbjct: 75  MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIIL--VGNKSDLVRSREVSVD 132
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           E    +      + ETSA     ++ +F  V +
Sbjct: 133 EGRACAVVFDCKFIETSAALHHNVQALFEGVVR 165

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 39/153 (25%), Positives = 75/153 (49%), Gaps = 7/153 (4%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++  R  G +     +   G ++  + +  GE +  L V+D   Q+  R +    
Sbjct: 17  GVGKSALA-RIFGGVEDGPEAEAAGHTYDRSIVVDGE-EASLMVYDIWEQDGGRWLPGHC 74
Query: 176 YRNANAALLVFDITQYHSF---AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE 232
               +A ++V+ +T   SF   + ++  ++  ++  D P++L  VGNK+DL  SREV+ +
Sbjct: 75  MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIIL--VGNKSDLVRSREVSVD 132
Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           E    +      + ETSA     ++ +F  V +
Sbjct: 133 EGRACAVVFDCKFIETSAALHHNVQALFEGVVR 165

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 40/150 (26%), Positives = 63/150 (42%), Gaps = 8/150 (5%)
Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS+   + GK     +   +G   +   + V      L V DT   E+        
Sbjct: 14  GVGKTSLASLFAGKQ-ERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQE 72
Query: 176 --YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVN 230
              +  +A ++V+ I    SF +      +L+R       P++L  VGNK DL   REV+
Sbjct: 73  SCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIIL--VGNKADLARCREVS 130
Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVF 260
            EE    +      + ETSA     + ++F
Sbjct: 131 VEEGRACAVVFDCKFIETSATLQHNVAELF 160

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 35/113 (30%), Positives = 51/113 (45%), Gaps = 8/113 (7%)
Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           G GKT+++ R  +G++ +    PTIG +  T    V    +K QVWD  GQ   R     
Sbjct: 12  GAGKTTILYRLQVGEVVTTI--PTIGFNVET----VTYKNLKFQVWDLGGQTSIRPYWRC 65
Query: 175 YYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESS 226
           YY N +A + V D          K+  V  L+       +L V  NK D+E +
Sbjct: 66  YYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA 118

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 45/149 (30%), Positives = 66/149 (44%), Gaps = 17/149 (11%)
Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           G GKT+++ R  IG++ +    PTIG +  T    +    +KL VWD  GQ   R     
Sbjct: 28  GAGKTTILYRLQIGEVVTTK--PTIGFNVET----LSYKNLKLNVWDLGGQTSIRPYWRC 81
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTD---LESSR 227
           YY +  A + V D T     +   T  KEL   + E       L V  NK D     S+ 
Sbjct: 82  YYADTAAVIFVVDSTDKDRMS---TASKELHLMLQEEELQDAALLVFANKQDQPGALSAS 138
Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGI 256
           EV++E      K    +   +SA++ +GI
Sbjct: 139 EVSKELNLVELKDRSWSIVASSAIKGEGI 167

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 36/127 (28%), Positives = 55/127 (43%), Gaps = 13/127 (10%)
Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           G GKT+++ +  +G++ +    PTIG +  T +       +   VWD  GQ+R RS+   
Sbjct: 10  GAGKTTVLYKLKLGEVIT--TIPTIGFNVETVQYK----NISFTVWDVGGQDRIRSLWRH 63
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE--PLVLCVVGNKTDLE---SSREV 229
           YYRN    + V D          +  V +   N DE       V  NK DL    S+ E+
Sbjct: 64  YYRNTEGVIFVVDSNDRSRIGEARE-VMQRMLNEDELRNAAWLVFANKQDLPEAMSAAEI 122
Query: 230 NREEAFH 236
             +   H
Sbjct: 123 TEKLGLH 129

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 36/127 (28%), Positives = 55/127 (43%), Gaps = 13/127 (10%)
Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           G GKT+++ +  +G++ +    PTIG +  T +       +   VWD  GQ+R RS+   
Sbjct: 27  GAGKTTVLYKLKLGEVIT--TIPTIGFNVETVQYK----NISFTVWDVGGQDRIRSLWRH 80
Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE--PLVLCVVGNKTDLE---SSREV 229
           YYRN    + V D          +  V +   N DE       V  NK DL    S+ E+
Sbjct: 81  YYRNTEGVIFVVDSNDRSRIGEARE-VMQRMLNEDELRNAAWLVFANKQDLPEAMSAAEI 139
Query: 230 NREEAFH 236
             +   H
Sbjct: 140 TEKLGLH 146

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 41/150 (27%), Positives = 64/150 (42%), Gaps = 11/150 (7%)
Query: 116 GVGKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           G GKT+++ R  +G++ +    PTIG +  T    V    +K QVWD  G    R     
Sbjct: 14  GAGKTTILYRLQVGEVVTTI--PTIGFNVET----VTYKNLKFQVWDLGGLTSIRPYWRC 67
Query: 175 YYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLE---SSREVN 230
           YY N +A + V D          K+  V  L+       +L V  NK D+E   +S E+ 
Sbjct: 68  YYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMA 127
Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVF 260
                   K      ++TSA +  G+++  
Sbjct: 128 NSLGLPALKDRKWQIFKTSATKGTGLDEAM 157

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	617
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-65
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	3e-09
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	6e-65
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	3e-09
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	8e-65
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	4e-09
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	3e-64
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	7e-09
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	3e-64
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	7e-09
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	2e-62
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	2e-08
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	4e-62
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-08
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	8e-59
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-07
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-58
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	3e-06
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-58
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-07
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	4e-58
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	3e-08
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	4e-58
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-07
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	4e-58
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	2e-07
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	5e-58
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	2e-07
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-57
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	4e-07
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-57
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	5e-07
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	3e-57
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	4e-07
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	5e-57
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	6e-07
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	5e-57
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	7e-07
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	7e-56
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-06
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-55
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-06
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	3e-55
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	2e-06
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	6e-55
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-06
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	6e-55
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	3e-06
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	8e-55
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-06
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-54
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	2e-06
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-54
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	3e-07
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	2e-54
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	9e-06
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	3e-54
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	3e-06
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	3e-54
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	4e-06
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	3e-54
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-08
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	4e-54
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	5e-08
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	5e-54
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-06
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	8e-54
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	6e-07
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-53
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	9e-07
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-53
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	5e-07
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-53
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	4e-07
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-52
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	5e-07
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	3e-52
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	4e-06
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	7e-52
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-04
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-51
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	8e-07
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	6e-51
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	1e-09
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	1e-50
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-04
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	1e-50
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	1e-06
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-50
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	6e-04
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-49
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	5e-05
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-49
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	4e-04
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	3e-49
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	7e-04
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	5e-49
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	7e-04
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	5e-49
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	3e-04
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	8e-49
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	6e-05
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	8e-49
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	8e-04
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	6e-48
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	8e-04
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	8e-48
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	7e-04
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-47
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-04
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-47
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-04
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	7e-47
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	4e-04
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-46
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	3e-04
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	3e-46
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	4e-04
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	4e-46
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	6e-04
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	8e-46
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-04
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	4e-45
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	7e-04
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	2e-44
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	4e-44
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	4e-04
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	1e-43
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	3e-05
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-42
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	2e-42
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	2e-05
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	4e-42
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-04
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-41
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	1e-40
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	3e-35
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-34
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	2e-33
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-32
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	4e-32
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	6e-32
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	4e-31
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	6e-31
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	6e-30
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	9e-30
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-29
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	3e-29
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	5e-27
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	8e-21
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	1e-16
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	2e-16
3llu_A	196	RAS-related GTP-binding protein C; structural geno	2e-14
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	1e-13
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	1e-13
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	2e-13
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	2e-13
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	2e-13
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	2e-13
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	4e-13
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	9e-13
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	2e-12
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	3e-12
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	6e-12
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	9e-12
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	9e-11
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	1e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	9e-09
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	5e-08
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	5e-08
2fh5_B	214	SR-beta, signal recognition particle receptor beta	1e-06
1nrj_B	218	SR-beta, signal recognition particle receptor beta	8e-06
2ged_A	193	SR-beta, signal recognition particle receptor beta	1e-05
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	2e-04

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  212 bits (541), Expect = 1e-65
 Identities = 63/152 (41%), Positives = 99/152 (65%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+S+V+R++   F      TIGA+FF+  + V +  VK ++WDTAGQER+ S+APMY
Sbjct: 22  GAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMY 81

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++VFD+T   SF   K WV+EL+   +  +V+ + GNK+DL  +R+V  E+A 
Sbjct: 82  YRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQ 141

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y++  G  + ETSA     ++++F  +++ L
Sbjct: 142 TYAQENGLFFMETSAKTATNVKEIFYEIARRL 173

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score = 56.0 bits (136), Expect = 3e-09
 Identities = 16/44 (36%), Positives = 27/44 (61%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           G GK+S+V+R++   F      TIGA+FF+  + V +  VK ++
Sbjct: 22  GAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEI 65

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  209 bits (535), Expect = 6e-65
 Identities = 64/153 (41%), Positives = 99/153 (64%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ R++   F  +I+PTIGASF T  +       K  +WDTAG ERFR++APMY
Sbjct: 16  GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  +F+ +K WV+EL+++    +V+ + GNK DL   REV   +A 
Sbjct: 76  YRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAK 135

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            Y+ SI   + ETSA     I ++F+ +S+ + 
Sbjct: 136 DYADSIHAIFVETSAKNAININELFIEISRRIP 168

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score = 55.6 bits (135), Expect = 3e-09
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S++ R++   F  +I+PTIGASF T  +       K  +
Sbjct: 16  GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLI 59

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  209 bits (534), Expect = 8e-65
 Identities = 76/153 (49%), Positives = 110/153 (71%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS+V+RY    F+     T+GASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct: 16  CVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct: 76  YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 135

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            Y++S+G  +Y TSA Q++GIE++FL++ K +I
Sbjct: 136 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score = 55.2 bits (134), Expect = 4e-09
 Identities = 20/44 (45%), Positives = 28/44 (63%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS+V+RY    F+     T+GASF T K+N+G  +V L +
Sbjct: 16  CVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAI 59

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  207 bits (530), Expect = 3e-64
 Identities = 65/152 (42%), Positives = 96/152 (63%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMY
Sbjct: 16  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA 
Sbjct: 76  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 135

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y+      + ETSA     + ++F+ ++K L
Sbjct: 136 SYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score = 54.4 bits (132), Expect = 7e-09
 Identities = 15/44 (34%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGK+S+V+R++   F      TIGA+F T  + + +  VK ++
Sbjct: 16  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEI 59

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  208 bits (532), Expect = 3e-64
 Identities = 75/152 (49%), Positives = 102/152 (67%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V R++   F H+ISPTIGASF T  +  G    K  +WDTAGQERF S+APMY
Sbjct: 33  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMY 92

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  SF  +K WVKELK +  E +V+ + GNK DL   REV  ++A 
Sbjct: 93  YRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAK 152

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
            Y++SIG    ETSA     IE++F  +S+ +
Sbjct: 153 EYAESIGAIVVETSAKNAINIEELFQGISRQI 184

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score = 54.9 bits (133), Expect = 7e-09
 Identities = 21/44 (47%), Positives = 28/44 (63%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+V R++   F H+ISPTIGASF T  +  G    K  +
Sbjct: 33  GVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLI 76

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  204 bits (522), Expect = 2e-62
 Identities = 54/152 (35%), Positives = 89/152 (58%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS++ R++   F +    TIG  F +  + + +  V+LQ+WDTAG ERFRS+ P Y
Sbjct: 26  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSY 85

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            R++  A++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE  
Sbjct: 86  IRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGE 145

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             +K +   + ETSA     ++ +F  V+  L
Sbjct: 146 RKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 177

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score = 53.9 bits (130), Expect = 2e-08
 Identities = 15/44 (34%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS++ R++   F +    TIG  F +  + + +  V+LQL
Sbjct: 26  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQL 69

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  202 bits (517), Expect = 4e-62
 Identities = 55/152 (36%), Positives = 90/152 (59%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS++ R++   F +    TIG  F +  + + +  V+LQ+WDTAGQERFRS+ P Y
Sbjct: 24  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY 83

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            R++  A++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE  
Sbjct: 84  IRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGE 143

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             +K +   + ETSA     ++ +F  V+  L
Sbjct: 144 RKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score = 53.3 bits (129), Expect = 2e-08
 Identities = 15/44 (34%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS++ R++   F +    TIG  F +  + + +  V+LQL
Sbjct: 24  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQL 67

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  194 bits (495), Expect = 8e-59
 Identities = 57/150 (38%), Positives = 90/150 (60%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAG ER+R++   Y
Sbjct: 39  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAY 98

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 99  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 158

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++  G ++ ETSAL    +E  F  +  
Sbjct: 159 AFAEKNGLSFIETSALDSTNVEAAFQTILT 188

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score = 50.7 bits (122), Expect = 2e-07
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+
Sbjct: 39  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 82

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  194 bits (496), Expect = 1e-58
 Identities = 44/154 (28%), Positives = 77/154 (50%), Gaps = 1/154 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAK-INVGENKVKLQVWDTAGQERFRSMAPM 174
           GVGKT+ + R +   F  + + T+GA       ++   N +K  VWDTAGQE+   +  +
Sbjct: 21  GVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDV 80

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YY  A+ A+L FD+T   +   +  WVKE +  V     + V  NK D+++ ++++++  
Sbjct: 81  YYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLV 140

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
               K     Y+E SA         FL++++   
Sbjct: 141 MEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFT 174

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score = 47.7 bits (114), Expect = 3e-06
 Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAK-INVGENKVKLQ 382
           GVGKT+ + R +   F  + + T+GA       ++   N +K  
Sbjct: 21  GVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFN 64

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  192 bits (491), Expect = 2e-58
 Identities = 59/150 (39%), Positives = 91/150 (60%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++ ++  K F      TIG  F T  I V   K+KLQ+WDTAGQERFR++   Y
Sbjct: 25  GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSY 84

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  AL+V+DIT+  ++  + +W+ + +   +   V+ ++GNK DLE+ R+V  EEA 
Sbjct: 85  YRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAK 144

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++  G  + E SA   + +ED FL  +K
Sbjct: 145 QFAEENGLLFLEASAKTGENVEDAFLEAAK 174

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score = 50.7 bits (122), Expect = 2e-07
 Identities = 17/44 (38%), Positives = 24/44 (54%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ ++ ++  K F      TIG  F T  I V   K+KLQ+
Sbjct: 25  GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQI 68

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  191 bits (489), Expect = 4e-58
 Identities = 54/153 (35%), Positives = 83/153 (54%), Gaps = 1/153 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+SM+ RY   +F+     TIG  F   +I V +  V+L +WDTAGQE F ++   Y
Sbjct: 15  AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A A +LVF  T   SF AI +W +++   V + +   +V NK DL     +  EEA 
Sbjct: 75  YRGAQACVLVFSTTDRESFEAISSWREKVVAEVGD-IPTALVQNKIDLLDDSCIKNEEAE 133

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             +K +   +Y TS  +D  + +VF  +++  +
Sbjct: 134 GLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL 166

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score = 52.5 bits (127), Expect = 3e-08
 Identities = 17/44 (38%), Positives = 24/44 (54%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGK+SM+ RY   +F+     TIG  F   +I V +  V+L L
Sbjct: 15  AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLML 58

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  191 bits (489), Expect = 4e-58
 Identities = 48/159 (30%), Positives = 74/159 (46%), Gaps = 4/159 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDTAGQERFRSMAPM 174
             GKTS+   +  + F      TIG  FF  +I + G   V LQ+WD  GQ     M   
Sbjct: 16  ASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDK 75

Query: 175 YYRNANAALLVFDITQYHSFAAIKTW---VKELKRNVDEPLVLCVVGNKTDLESSREVNR 231
           Y   A   LLV+DIT Y SF  ++ W   VK++    +   ++ +VGNK DLE  R +  
Sbjct: 76  YIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKP 135

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL 270
           E+   + +  G + +  SA     +   F  V+  ++ +
Sbjct: 136 EKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGI 174

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score = 50.6 bits (122), Expect = 1e-07
 Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 1/45 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQL 383
             GKTS+   +  + F      TIG  FF  +I + G   V LQ+
Sbjct: 16  ASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQI 60

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  192 bits (490), Expect = 4e-58
 Identities = 65/150 (43%), Positives = 96/150 (64%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT+++ R+    FSH    TIG  F T  + +G   VK Q+WDTAG ER+R++   Y
Sbjct: 35  GVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAY 94

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLVFD+T++ ++A ++ W+KEL  + +  +V+ +VGNK+DL  +REV  EEA 
Sbjct: 95  YRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEAR 154

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            ++++ G  + ETSAL    +E  F  V K
Sbjct: 155 MFAENNGLLFLETSALDSTNVELAFETVLK 184

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score = 50.7 bits (122), Expect = 2e-07
 Identities = 18/44 (40%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT+++ R+    FSH    TIG  F T  + +G   VK Q+
Sbjct: 35  GVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQI 78

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  192 bits (490), Expect = 5e-58
 Identities = 58/153 (37%), Positives = 91/153 (59%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I   F    + TIG  F +  +NVG   VKLQ+WDTAGQERFRS+   Y
Sbjct: 35  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSY 94

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   ++ ++  W+ + +      +V+ + GNK DL+  REV   EA 
Sbjct: 95  YRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEAS 154

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + ETSAL  + +E+ FL  ++ ++
Sbjct: 155 RFAQENELMFLETSALTGENVEEAFLKCARTIL 187

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score = 50.7 bits (122), Expect = 2e-07
 Identities = 16/44 (36%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           G GK+ ++ ++I   F    + TIG  F +  +NVG   VKLQ+
Sbjct: 35  GTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQI 78

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  191 bits (487), Expect = 1e-57
 Identities = 60/153 (39%), Positives = 94/153 (61%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I K F    + TIG  F +  INVG   VKLQ+WDTAGQERFRS+   Y
Sbjct: 20  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY 79

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   ++ A+  W+ + +    + +V+ + GNK DL++ REV   EA 
Sbjct: 80  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 139

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + ETSAL  + +E+ F+  ++ ++
Sbjct: 140 RFAQENELMFLETSALTGENVEEAFVQCARKIL 172

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score = 49.5 bits (119), Expect = 4e-07
 Identities = 18/44 (40%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           G GK+ ++ ++I K F    + TIG  F +  INVG   VKLQ+
Sbjct: 20  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQI 63

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  190 bits (486), Expect = 2e-57
 Identities = 58/150 (38%), Positives = 91/150 (60%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAGQER+R +   Y
Sbjct: 15  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 75  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++    ++ ETSAL    +E+ F N+  
Sbjct: 135 AFAEKNNLSFIETSALDSTNVEEAFKNILT 164

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score = 49.6 bits (119), Expect = 5e-07
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+
Sbjct: 15  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 58

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  191 bits (487), Expect = 3e-57
 Identities = 58/195 (29%), Positives = 103/195 (52%), Gaps = 1/195 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  + +   ++K Q+WDTAGQER+R++   Y
Sbjct: 23  GVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAY 82

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  AL+V+DI++  S+     W+ EL+ N D+ + + ++GNK+DL   R V  EE+ 
Sbjct: 83  YRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESK 142

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI-CLSQESLHTSSLRVYDSDNITSANPR 294
            +++     + ETSAL  + ++  F  +   +   +S+  +         + N  SA   
Sbjct: 143 TFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSANGNANGASAPNG 202

Query: 295 GVVEITPLSSLDTPP 309
             + +TP  + +   
Sbjct: 203 PTISLTPTPNENKKA 217

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score = 50.1 bits (120), Expect = 4e-07
 Identities = 13/44 (29%), Positives = 24/44 (54%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK++++ R+    F+     TIG  F T  + +   ++K Q+
Sbjct: 23  GVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQI 66

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  189 bits (483), Expect = 5e-57
 Identities = 59/150 (39%), Positives = 96/150 (64%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++++  K F      TIG  F    +N+   ++KLQ+WDTAGQE FRS+   Y
Sbjct: 31  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSY 90

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  + +W+++ +++    +V+ ++GNK+DLES R+V REE  
Sbjct: 91  YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGE 150

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++  G  + ETSA     +E+ F+N +K
Sbjct: 151 AFAREHGLIFMETSAKTACNVEEAFINTAK 180

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score = 49.1 bits (118), Expect = 6e-07
 Identities = 14/44 (31%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ +++++  K F      TIG  F    +N+   ++KLQ+
Sbjct: 31  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQI 74

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  189 bits (483), Expect = 5e-57
 Identities = 63/153 (41%), Positives = 94/153 (61%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT +V R+   +F      TIG  F    + +   KVKLQ+WDTAGQERFRS+   Y
Sbjct: 36  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSY 95

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+ANA +L +DIT   SF  +  W++E+++     ++  +VGNK DL   REV+++ A 
Sbjct: 96  YRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAE 155

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +S++    Y ETSA +   +E +FL+++  LI
Sbjct: 156 EFSEAQDMYYLETSAKESDNVEKLFLDLACRLI 188

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score = 49.2 bits (118), Expect = 7e-07
 Identities = 17/44 (38%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT +V R+   +F      TIG  F    + +   KVKLQ+
Sbjct: 36  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQI 79

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  186 bits (475), Expect = 7e-56
 Identities = 53/153 (34%), Positives = 88/153 (57%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 43  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 102

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 103 YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 162

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            ++ S+G  + ETSA     +E  F+ ++  + 
Sbjct: 163 EFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 195

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score = 48.4 bits (116), Expect = 1e-06
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+
Sbjct: 43  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 86

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  186 bits (474), Expect = 1e-55
 Identities = 60/154 (38%), Positives = 90/154 (58%), Gaps = 1/154 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +V R+    FS     TIG  F    + +   +VKLQ+WDTAGQERFR++   Y
Sbjct: 39  SVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSY 98

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+AN A+L +DIT+  SF ++  W++++++     +V  ++GNK+DL   REV+  EA 
Sbjct: 99  YRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQ 158

Query: 236 HYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI 268
             ++        ETSA     +E+ FL V+  LI
Sbjct: 159 SLAEHYDILCAIETSAKDSSNVEEAFLRVATELI 192

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score = 48.8 bits (117), Expect = 1e-06
 Identities = 16/44 (36%), Positives = 22/44 (50%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKT +V R+    FS     TIG  F    + +   +VKLQ+
Sbjct: 39  SVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 82

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  185 bits (471), Expect = 3e-55
 Identities = 53/153 (34%), Positives = 90/153 (58%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    +++    TIG  F    + +    VKLQ+WDTAGQERFR++   Y
Sbjct: 18  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 77

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR ++  ++V+D+T   SF  +K W++E+ R     ++  +VGNK DL+  R V  + A 
Sbjct: 78  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 137

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            ++ +    + ETSAL    +ED FL +++ + 
Sbjct: 138 EFADANKMPFLETSALDSTNVEDAFLTMARQIK 170

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score = 47.7 bits (114), Expect = 2e-06
 Identities = 13/43 (30%), Positives = 23/43 (53%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ 382
           GVGK+ +++R+    +++    TIG  F    + +    VKLQ
Sbjct: 18  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQ 60

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  183 bits (468), Expect = 6e-55
 Identities = 53/153 (34%), Positives = 84/153 (54%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS + RY    F+     T+G  F    +   + ++KLQ+WDTAGQER+R++   Y
Sbjct: 32  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAY 91

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   LL++DI    SFAA++ W  ++K    +   + +VGNK DLE  R V  E+  
Sbjct: 92  YRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGR 151

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             +  +G  ++E SA ++  ++ VF  +   + 
Sbjct: 152 RLADDLGFEFFEASAKENINVKQVFERLVDVIC 184

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score = 47.2 bits (113), Expect = 3e-06
 Identities = 14/44 (31%), Positives = 22/44 (50%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS + RY    F+     T+G  F    +   + ++KLQ+
Sbjct: 32  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQI 75

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  183 bits (468), Expect = 6e-55
 Identities = 53/150 (35%), Positives = 87/150 (58%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+WDTAGQERFR++   Y
Sbjct: 26  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY 85

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A+  ++V+D+T   SF  +K W++E+ R   E +   +VGNK DL + + V+   A 
Sbjct: 86  YRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAK 145

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            ++ S+G  + ETSA     +E  F+ ++ 
Sbjct: 146 EFADSLGIPFLETSAKNATNVEQSFMTMAA 175

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 47.2 bits (113), Expect = 3e-06
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ +++R+    ++     TIG  F    I +    +KLQ+
Sbjct: 26  GVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 69

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  183 bits (467), Expect = 8e-55
 Identities = 52/153 (33%), Positives = 86/153 (56%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT ++ R+    F+     TIG  F    I +   ++KLQ+WDTAGQERFR++   Y
Sbjct: 18  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 77

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   SF  I+ W++ ++ +    +   ++GNK D+   R+V++E   
Sbjct: 78  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 137

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             +   G  + ETSA  +  +E+ F  +++ + 
Sbjct: 138 KLALDYGIKFMETSAKANINVENAFFTLARDIK 170

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score = 47.6 bits (114), Expect = 2e-06
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT ++ R+    F+     TIG  F    I +   ++KLQ+
Sbjct: 18  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQI 61

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  183 bits (466), Expect = 1e-54
 Identities = 54/154 (35%), Positives = 90/154 (58%), Gaps = 1/154 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ R+    F      T+G  F    + +   K++LQ+WDTAGQERF S+   Y
Sbjct: 36  GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY 95

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+A   +LV+DIT+  +F  +  W+K + +   E   L +VGNK D E+ RE+ R++  
Sbjct: 96  YRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGE 155

Query: 236 HYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI 268
            +++ I G  + E SA  +  ++++FL +   ++
Sbjct: 156 KFAQQITGMRFCEASAKDNFNVDEIFLKLVDDIL 189

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score = 48.0 bits (115), Expect = 2e-06
 Identities = 14/44 (31%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ R+    F      T+G  F    + +   K++LQ+
Sbjct: 36  GVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQI 79

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  183 bits (466), Expect = 1e-54
 Identities = 57/154 (37%), Positives = 90/154 (58%), Gaps = 2/154 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    F   ++ TIG  F    I+V  NK KL +WDTAGQERFR++ P Y
Sbjct: 25  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSY 84

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLESSREVNREEA 234
           YR A   +LV+D+T+  +F  +  W+ EL+       ++ + VGNK D E +REV+R E 
Sbjct: 85  YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEG 143

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             +++     + E SA    G++  F  + + +I
Sbjct: 144 LKFARKHSMLFIEASAKTCDGVQCAFEELVEKII 177

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score = 49.9 bits (120), Expect = 3e-07
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+++R+    F   ++ TIG  F    I+V  NK KL +
Sbjct: 25  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 68

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  182 bits (464), Expect = 2e-54
 Identities = 60/154 (38%), Positives = 87/154 (56%), Gaps = 1/154 (0%)

Query: 116 GVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           GVGKT ++VR+    F +     T+G  F    ++V   KVKLQ+WDTAGQERFRS+   
Sbjct: 20  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHA 79

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR+A+A LL++D+T   SF  I+ W+ E+       + L ++GNK D    R V RE+ 
Sbjct: 80  YYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDG 139

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
              +K  G  + ETSA     ++  F  ++K L 
Sbjct: 140 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK 173

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score = 45.6 bits (109), Expect = 9e-06
 Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 340 GVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT ++VR+    F +     T+G  F    ++V   KVKLQ+
Sbjct: 20  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQM 64

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  182 bits (464), Expect = 3e-54
 Identities = 52/153 (33%), Positives = 83/153 (54%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS + RY    F+     T+G  F    +   E +VKLQ+WDTAGQER+R++   Y
Sbjct: 33  SVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAY 92

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +L++DIT   SF A++ W  ++K    +   + +VGNK D+E  R V  E+  
Sbjct: 93  YRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQ 152

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             ++ +G  ++E SA ++  +   F  +   + 
Sbjct: 153 LLAEQLGFDFFEASAKENISVRQAFERLVDAIC 185

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score = 47.2 bits (113), Expect = 3e-06
 Identities = 16/44 (36%), Positives = 22/44 (50%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS + RY    F+     T+G  F    +   E +VKLQ+
Sbjct: 33  SVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQI 76

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  182 bits (465), Expect = 3e-54
 Identities = 53/181 (29%), Positives = 88/181 (48%), Gaps = 7/181 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS + RY    F+     T+G  F    I   + ++KLQ+WDTAG ER+R++   Y
Sbjct: 18  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAY 77

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +L++DIT   SF A++ W  ++K    +   + +VGNK D+E  R V+ E   
Sbjct: 78  YRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGR 137

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRG 295
             +  +G  ++E SA  +  ++  F  +   +           S  +  +D   +   +G
Sbjct: 138 QLADHLGFEFFEASAKDNINVKQTFERLVDVI-------CEKMSESLDTADPAVTGAKQG 190

Query: 296 V 296
            
Sbjct: 191 P 191

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score = 46.9 bits (112), Expect = 4e-06
 Identities = 15/44 (34%), Positives = 22/44 (50%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS + RY    F+     T+G  F    I   + ++KLQ+
Sbjct: 18  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQI 61

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  181 bits (462), Expect = 3e-54
 Identities = 54/158 (34%), Positives = 81/158 (51%), Gaps = 6/158 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ RY+   F   +  TIG  F    + V  + V +Q+WDTAGQERFRS+   +
Sbjct: 17  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 76

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNR 231
           YR ++  LL F +    SF  +  W KE     D    E     ++GNK D+   R+V+ 
Sbjct: 77  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVST 135

Query: 232 EEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI 268
           EEA  + +  G   Y+ETSA     +   F    + ++
Sbjct: 136 EEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL 173

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score = 53.3 bits (129), Expect = 2e-08
 Identities = 15/43 (34%), Positives = 23/43 (53%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ 382
           GVGK+S++ RY+   F   +  TIG  F    + V  + V +Q
Sbjct: 17  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQ 59

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  182 bits (464), Expect = 4e-54
 Identities = 58/184 (31%), Positives = 91/184 (49%), Gaps = 6/184 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+WDTAGQERF+S+   +
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 77

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNR 231
           YR A+  +LVFD+T  ++F  + +W  E          E     V+GNK DLE+ +   +
Sbjct: 78  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATK 137

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSA 291
                        Y+ETSA +   +E  F  +++    L QE+         +   +   
Sbjct: 138 RAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNA--LKQETEVELYNEFPEPIKLDKN 195

Query: 292 NPRG 295
               
Sbjct: 196 ERAK 199

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score = 52.7 bits (127), Expect = 5e-08
 Identities = 19/44 (43%), Positives = 29/44 (65%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+
Sbjct: 18  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 61

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  181 bits (461), Expect = 5e-54
 Identities = 55/153 (35%), Positives = 94/153 (61%), Gaps = 1/153 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    FS     TIG  F    + +   KVKLQ+WDTAGQERFR++   Y
Sbjct: 19  GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTY 78

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR  +  ++V+D+T   SF  +K W+ E+ +N D+   + +VGNK D    + V  E+A+
Sbjct: 79  YRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRI-LVGNKNDDPERKVVETEDAY 137

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            ++  +G   +ETSA ++  +E++F  +++ ++
Sbjct: 138 KFAGQMGIQLFETSAKENVNVEEMFNCITELVL 170

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 47.6 bits (114), Expect = 2e-06
 Identities = 17/44 (38%), Positives = 25/44 (56%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+++R+    FS     TIG  F    + +   KVKLQ+
Sbjct: 19  GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQI 62

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  181 bits (461), Expect = 8e-54
 Identities = 53/156 (33%), Positives = 83/156 (53%), Gaps = 6/156 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S ++R     F  +IS T+G  F    + V   +  LQ+WDTAGQERFRS+A  Y
Sbjct: 38  AVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSY 97

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL------ESSREV 229
           +R A+  LL++D+T   SF  I+ WV  ++    E + + +VGNK D+      E  + V
Sbjct: 98  FRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCV 157

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
                   + + G  + ETSA     I +  L++++
Sbjct: 158 PGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAR 193

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score = 49.6 bits (119), Expect = 6e-07
 Identities = 15/44 (34%), Positives = 22/44 (50%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGK+S ++R     F  +IS T+G  F    + V   +  LQL
Sbjct: 38  AVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQL 81

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  179 bits (457), Expect = 1e-53
 Identities = 57/153 (37%), Positives = 92/153 (60%), Gaps = 1/153 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   +F  IK W K +  + ++   L +VGNK+D+E +R V  ++  
Sbjct: 73  YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGE 131

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             +K +G  + E+SA  D  + ++F  ++K + 
Sbjct: 132 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQ 164

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score = 48.3 bits (116), Expect = 9e-07
 Identities = 16/44 (36%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+
Sbjct: 13  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQI 56

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  181 bits (462), Expect = 1e-53
 Identities = 49/154 (31%), Positives = 79/154 (51%), Gaps = 5/154 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 25  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 84

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-PLVLCVVGNKTDLESSREVNREEA 234
           Y  A  A+++FD+T   ++  +  W ++L R  +  P+VLC  GNK D++  +   +   
Sbjct: 85  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLC--GNKVDIKDRKVKAKSIV 142

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           FH  K++   YY+ SA  +   E  FL +++ LI
Sbjct: 143 FHRKKNL--QYYDISAKSNYNFEKPFLWLARKLI 174

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score = 50.0 bits (120), Expect = 5e-07
 Identities = 10/44 (22%), Positives = 17/44 (38%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           G GKT+ V R++   F      T+G        +     +K  +
Sbjct: 25  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNV 68

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  180 bits (458), Expect = 1e-53
 Identities = 58/160 (36%), Positives = 90/160 (56%), Gaps = 7/160 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK-VKLQVWDTAGQERFRSMAPM 174
           GVGKTS++ RY+   +S     TIGA F T ++ V  +K   +QVWDTAGQERF+S+   
Sbjct: 18  GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVA 77

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESS-REV 229
           +YR A+  +LV+D+T   SF  IK+W  E   + +    E     ++GNK D E S + V
Sbjct: 78  FYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIV 137

Query: 230 NREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI 268
           + + A   +KS+G    + TSA     ++  F  +++  +
Sbjct: 138 SEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSAL 177

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score = 49.5 bits (119), Expect = 4e-07
 Identities = 18/45 (40%), Positives = 27/45 (60%), Gaps = 1/45 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK-VKLQL 383
           GVGKTS++ RY+   +S     TIGA F T ++ V  +K   +Q+
Sbjct: 18  GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQV 62

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  177 bits (452), Expect = 1e-52
 Identities = 52/155 (33%), Positives = 86/155 (55%), Gaps = 5/155 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-SMAPM 174
            VGKT +  R+    F      TIG  F    +++   ++K+Q+WDTAGQERFR SM   
Sbjct: 30  NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQH 89

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLESSREVNREE 233
           YYRN +A + V+D+T   SF ++  W++E K+++    +  + VGNK DL S+ +V  + 
Sbjct: 90  YYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDL 149

Query: 234 AFHYSKSIGGTYYETSALQD---QGIEDVFLNVSK 265
           A  ++ +     +ETSA        +E +F+ ++ 
Sbjct: 150 AQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAH 184

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score = 49.1 bits (118), Expect = 5e-07
 Identities = 13/44 (29%), Positives = 21/44 (47%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKT +  R+    F      TIG  F    +++   ++K+QL
Sbjct: 30  NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQL 73

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  177 bits (451), Expect = 3e-52
 Identities = 56/153 (36%), Positives = 92/153 (60%), Gaps = 1/153 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 30  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY 89

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+D+T   +F  IK W K +  + ++   L +VGNK+D+E +R V  ++  
Sbjct: 90  YRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGE 148

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
             +K +G  + E+SA  D  + ++F  ++K + 
Sbjct: 149 ALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQ 181

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score = 47.3 bits (113), Expect = 4e-06
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQL
Sbjct: 30  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQL 73

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  176 bits (449), Expect = 7e-52
 Identities = 57/161 (35%), Positives = 81/161 (50%), Gaps = 11/161 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV----------GENKVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++               KV LQ+WDTAGQ
Sbjct: 35  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ 94

Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLE 224
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ N        V +GNK DL 
Sbjct: 95  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP 154

Query: 225 SSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             REVN  +A   +   G  Y+ETSA   Q +E     +  
Sbjct: 155 DQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLD 195

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score = 42.7 bits (101), Expect = 1e-04
 Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 10/54 (18%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV----------GENKVKLQL 383
           GVGKT+ + RY    F+     T+G  F   ++               KV LQL
Sbjct: 35  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQL 88

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  175 bits (447), Expect = 1e-51
 Identities = 40/159 (25%), Positives = 78/159 (49%), Gaps = 9/159 (5%)

Query: 116 GVGKTSMVVRYIGKM--FSHHISPTIGASFFTAKINVGENKVKLQVW--DTAGQERFRSM 171
            VGK++++  +  K   F    + T G     A + + +  V ++++  DTAG + ++  
Sbjct: 30  TVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQ 89

Query: 172 APMYYRNANAALLVFDITQYHSFAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESSR- 227
              Y+     A+LVFD++   SF + K W + LK    + + PL   +V NKTDL   R 
Sbjct: 90  ISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRH 149

Query: 228 EVNREEAFHYSKSIGGTYYETSALQD-QGIEDVFLNVSK 265
           +V  + A  ++ +    +++ SA    +  +  FL+++ 
Sbjct: 150 QVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIAT 188

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 49.2 bits (118), Expect = 8e-07
 Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 2/46 (4%)

Query: 340 GVGKTSMVVRYIGKM--FSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGK++++  +  K   F    + T G     A + + +  V ++L
Sbjct: 30  TVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVEL 75

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score =  172 bits (438), Expect = 6e-51
 Identities = 66/155 (42%), Positives = 101/155 (65%), Gaps = 3/155 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F+ +  PTIGA+F T ++ + E+ VK ++WDTAGQERF S+AP Y
Sbjct: 13  AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD---LESSREVNRE 232
           YRNA AAL+V+D+T+  SF   + WVKEL     + +++ +VGNK D       R+V RE
Sbjct: 73  YRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVARE 132

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
           E    ++  G  ++ETSA   + + DVFL + + +
Sbjct: 133 EGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score = 56.7 bits (137), Expect = 1e-09
 Identities = 17/44 (38%), Positives = 31/44 (70%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGK+S+V+R++   F+ +  PTIGA+F T ++ + E+ VK ++
Sbjct: 13  AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEI 56

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  173 bits (440), Expect = 1e-50
 Identities = 46/151 (30%), Positives = 82/151 (54%), Gaps = 6/151 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS+  +++   FS    PT+  ++ +  + +G+++  L + DTAGQ+ +  +   +
Sbjct: 34  CVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSF 92

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
               +  +LV+ +T  HSF  I++  ++L     +   P+VL  VGNK DL   REV   
Sbjct: 93  IIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVL--VGNKADLSPEREVQAV 150

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           E    ++S G T+ E+SA ++Q  + +F  V
Sbjct: 151 EGKKLAESWGATFMESSARENQLTQGIFTKV 181

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 41.8 bits (99), Expect = 2e-04
 Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS+  +++   FS    PT+  + ++  + +G+++  L L
Sbjct: 34  CVGKTSLAHQFVEGEFSEGYDPTVENT-YSKIVTLGKDEFHLHL 76

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  173 bits (439), Expect = 1e-50
 Identities = 53/187 (28%), Positives = 89/187 (47%), Gaps = 40/187 (21%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVK------------------- 156
            VGK+S+V+R     F  + + TIGASF T  +N+ +  +K                   
Sbjct: 17  SVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNN 76

Query: 157 ------------------LQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK 198
                               +WDTAGQER+ S+ P+YYR A  A++VFDI+  ++    K
Sbjct: 77  VIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAK 136

Query: 199 TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIED 258
           TWV +LK + +   ++ +V NK D     +V+  E   Y++     + +TSA     I++
Sbjct: 137 TWVNQLKISSN--YIIILVANKIDKN-KFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKN 193

Query: 259 VFLNVSK 265
           +F  +++
Sbjct: 194 IFYMLAE 200

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 48.7 bits (116), Expect = 1e-06
 Identities = 18/73 (24%), Positives = 30/73 (41%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPTRNR 399
            VGK+S+V+R     F  + + TIGASF T  +N+ +  +K         +   +   N 
Sbjct: 17  SVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNN 76

Query: 400 EGATTGRITEPDT 412
              T       + 
Sbjct: 77  VIITNQHNNYNEN 89

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  172 bits (437), Expect = 2e-50
 Identities = 54/161 (33%), Positives = 81/161 (50%), Gaps = 11/161 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN----------KVKLQVWDTAGQ 165
           GVGKTS++ +Y    F+     T+G  F   ++    N          ++ LQ+WDTAG 
Sbjct: 21  GVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGL 80

Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLE 224
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ +        V  GNK+DLE
Sbjct: 81  ERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLE 140

Query: 225 SSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             R V  EEA   ++  G  Y+ETSA     I      +  
Sbjct: 141 DQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLD 181

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score = 40.3 bits (95), Expect = 6e-04
 Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 10/54 (18%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN----------KVKLQL 383
           GVGKTS++ +Y    F+     T+G  F   ++    N          ++ LQL
Sbjct: 21  GVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQL 74

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  168 bits (429), Expect = 2e-49
 Identities = 41/152 (26%), Positives = 69/152 (45%), Gaps = 6/152 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS-MAPM 174
           GVGK+++   + G    H          +  +I V + +V L V+D   Q      +   
Sbjct: 12  GVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDH 71

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNR 231
             +  +A L+VF +T   SF+ +   +  L+        P++L  VGNK+DL  SREV+ 
Sbjct: 72  CLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL--VGNKSDLARSREVSL 129

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           EE  H + ++   + ETSA       ++F   
Sbjct: 130 EEGRHLAGTLSCKHIETSAALHHNTRELFEGA 161

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 43.3 bits (103), Expect = 5e-05
 Identities = 10/44 (22%), Positives = 19/44 (43%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++   + G    H          +  +I V + +V L +
Sbjct: 12  GVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIV 55

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  168 bits (429), Expect = 2e-49
 Identities = 49/153 (32%), Positives = 77/153 (50%), Gaps = 6/153 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+ ++++   F     PTI  +F T  I V   +  LQ+ DTAGQ+ +      Y
Sbjct: 16  SVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
             + N  +LV+ +T   SF  IK    +L   V +   P++L  VGNK DL   R ++ E
Sbjct: 75  SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIML--VGNKKDLHMERVISYE 132

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           E    ++S    + E+SA ++Q   DVF  +  
Sbjct: 133 EGKALAESWNAAFLESSAKENQTAVDVFRRIIL 165

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score = 40.6 bits (96), Expect = 4e-04
 Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGK+S+ ++++   F     PTI  + FT  I V   +  LQL
Sbjct: 16  SVGKSSLTIQFVEGQFVDSYDPTIENT-FTKLITVNGQEYHLQL 58

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  168 bits (429), Expect = 3e-49
 Identities = 49/151 (32%), Positives = 86/151 (56%), Gaps = 6/151 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+   K+ +   +V++ + DTAGQE + ++   Y
Sbjct: 28  GVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNY 86

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
           +R+    L VF IT+  SFAA   + +++ R  ++   P +L  VGNK+DLE  R+V+ E
Sbjct: 87  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLL--VGNKSDLEDKRQVSVE 144

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           EA + ++     Y ETSA     ++ VF ++
Sbjct: 145 EAKNRAEQWNVNYVETSAKTRANVDKVFFDL 175

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score = 40.2 bits (95), Expect = 7e-04
 Identities = 10/44 (22%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ ++++   F     PT   S +  K+ +   +V++ +
Sbjct: 28  GVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEEVQIDI 70

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  167 bits (425), Expect = 5e-49
 Identities = 39/151 (25%), Positives = 66/151 (43%), Gaps = 7/151 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++   + G           G ++    I V   +  L V+D   Q+  R +    
Sbjct: 12  GVGKSALARIFGGVEDGPEA-EAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHC 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
               +A ++V+ +T   SF        +L+R       P++L  VGNK+DL  SREV+ +
Sbjct: 70  MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIIL--VGNKSDLVRSREVSVD 127

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           E    +      + ETSA     ++ +F  V
Sbjct: 128 EGRACAVVFDCKFIETSAALHHNVQALFEGV 158

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score = 39.8 bits (94), Expect = 7e-04
 Identities = 9/44 (20%), Positives = 17/44 (38%), Gaps = 2/44 (4%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++   + G           G + +   I V   +  L +
Sbjct: 12  GVGKSALARIFGGVEDGPEA-EAAGHT-YDRSIVVDGEEASLMV 53

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  167 bits (426), Expect = 5e-49
 Identities = 53/153 (34%), Positives = 77/153 (50%), Gaps = 6/153 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++I   F     PTI    +T   +V     +L + DTAGQE F +M   Y
Sbjct: 19  GVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQY 77

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R  +  LLVF I    SF  +     ++ R  D    P+VL  VGNK DLES R+V R 
Sbjct: 78  MRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVL--VGNKADLESQRQVPRS 135

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           EA  +  S    Y+E SA     +++ F  + +
Sbjct: 136 EASAFGASHHVAYFEASAKLRLNVDEAFEQLVR 168

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score = 41.0 bits (97), Expect = 3e-04
 Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ +++I   F     PTI    +T   +V     +L +
Sbjct: 19  GVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDI 61

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  167 bits (426), Expect = 8e-49
 Identities = 41/152 (26%), Positives = 69/152 (45%), Gaps = 6/152 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS-MAPM 174
           GVGK+++   + G        P      +  +I V + +V L V+D   Q      +   
Sbjct: 33  GVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDH 92

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNR 231
             +  +A L+VF +T   SF+ +   +  L+        P++L  VGNK+DL  SREV+ 
Sbjct: 93  CLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL--VGNKSDLARSREVSL 150

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           EE  H + ++   + ETSA       ++F   
Sbjct: 151 EEGRHLAGTLSCKHIETSAALHHNTRELFEGA 182

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score = 43.4 bits (103), Expect = 6e-05
 Identities = 10/44 (22%), Positives = 19/44 (43%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++   + G        P      +  +I V + +V L +
Sbjct: 33  GVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVV 76

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  166 bits (424), Expect = 8e-49
 Identities = 49/151 (32%), Positives = 85/151 (56%), Gaps = 6/151 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+   K+ +   +V++ + DTAGQE + ++   Y
Sbjct: 14  GVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
           +R+    L VF IT+  SFAA   + +++ R  ++   P +L  VGNK+DLE  R+V+ E
Sbjct: 73  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLL--VGNKSDLEDKRQVSVE 130

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           EA + +      Y ETSA     ++ VF ++
Sbjct: 131 EAKNRADQWNVNYVETSAKTRANVDKVFFDL 161

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score = 39.4 bits (93), Expect = 8e-04
 Identities = 10/44 (22%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ ++++   F     PT   S +  K+ +   +V++ +
Sbjct: 14  GVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEEVQIDI 56

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  165 bits (421), Expect = 6e-48
 Identities = 49/151 (32%), Positives = 86/151 (56%), Gaps = 6/151 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+   K+ +   +V++ + DTAGQE + ++   Y
Sbjct: 24  GVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNY 82

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
           +R+    L VF IT+  SFAA   + +++ R  ++   P +L  VGNK+DLE  R+V+ E
Sbjct: 83  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLL--VGNKSDLEDKRQVSVE 140

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           EA + ++     Y ETSA     ++ VF ++
Sbjct: 141 EAKNRAEQWNVNYVETSAKTRANVDKVFFDL 171

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score = 40.3 bits (95), Expect = 8e-04
 Identities = 10/44 (22%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ ++++   F     PT   S +  K+ +   +V++ +
Sbjct: 24  GVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEEVQIDI 66

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  164 bits (417), Expect = 8e-48
 Identities = 50/151 (33%), Positives = 80/151 (52%), Gaps = 6/151 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++   F     PTI   F+  +I V  +   L++ DTAG E+F SM  +Y
Sbjct: 13  GVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            +N    +LV+ +    SF  IK    ++ R       P++L  VGNK DLES REV+  
Sbjct: 72  IKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVIL--VGNKVDLESEREVSSS 129

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           E    ++  G  + ETSA     ++++F  +
Sbjct: 130 EGRALAEEWGCPFMETSAKSKTMVDELFAEI 160

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score = 39.8 bits (94), Expect = 7e-04
 Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ V+++   F     PTI   F+  +I V  +   L++
Sbjct: 13  GVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEI 55

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  163 bits (416), Expect = 1e-47
 Identities = 43/152 (28%), Positives = 78/152 (51%), Gaps = 7/152 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V+R++   F     PT+  ++    I+  ++   LQ+ DT G  +F +M  + 
Sbjct: 13  GVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLS 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE----PLVLCVVGNKTDLESSREVNR 231
               +A +LV+ IT   S   +K   +++     +    P++L  VGNK D   SREV  
Sbjct: 72  ISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIML--VGNKCDESPSREVQS 129

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
            EA   +++    + ETSA  +  ++++F  +
Sbjct: 130 SEAEALARTWKCAFMETSAKLNHNVKELFQEL 161

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score = 41.0 bits (97), Expect = 3e-04
 Identities = 13/44 (29%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+V+R++   F     PT+  + +   I+  ++   LQ+
Sbjct: 13  GVGKSSLVLRFVKGTFRESYIPTVEDT-YRQVISCDKSICTLQI 55

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  163 bits (415), Expect = 2e-47
 Identities = 40/153 (26%), Positives = 61/153 (39%), Gaps = 8/153 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS--MAP 173
           GVGKTS+   + GK              +   + V      L V DT   E+        
Sbjct: 14  GVGKTSLASLFAGKQERDLHEQLG-EDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQE 72

Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVN 230
              +  +A ++V+ I    SF +      +L+R       P++L  VGNK DL   REV+
Sbjct: 73  SCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIIL--VGNKADLARCREVS 130

Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
            EE    +      + ETSA     + ++F  V
Sbjct: 131 VEEGRACAVVFDCKFIETSATLQHNVAELFEGV 163

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score = 41.8 bits (99), Expect = 2e-04
 Identities = 10/44 (22%), Positives = 15/44 (34%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS+   + GK              +   + V      L +
Sbjct: 14  GVGKTSLASLFAGKQERDLHEQLG-EDVYERTLTVDGEDTTLVV 56

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  161 bits (411), Expect = 7e-47
 Identities = 44/152 (28%), Positives = 72/152 (47%), Gaps = 7/152 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++  K+F     PTI    +     +      L V DTAGQE F +M   Y
Sbjct: 28  GVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQY 86

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R  +  L+V+ +T   SF  +  + + + R  D    P++L  V NK DL   R+V R+
Sbjct: 87  MRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMIL--VANKVDLMHLRKVTRD 144

Query: 233 EAFHYSKSIGGTYYETSALQDQ-GIEDVFLNV 263
           +    +      Y ETSA      ++  F ++
Sbjct: 145 QGKEMATKYNIPYIETSAKDPPLNVDKTFHDL 176

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score = 40.6 bits (96), Expect = 4e-04
 Identities = 10/44 (22%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ +++  K+F     PTI    +     +      L +
Sbjct: 28  GVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAILDV 70

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  160 bits (408), Expect = 1e-46
 Identities = 54/151 (35%), Positives = 78/151 (51%), Gaps = 7/151 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+   ++ +      L + DTAGQE + +M   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I  + +++KR  D    P+VL  VGNK+DL  +R V   
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVL--VGNKSDLA-ARTVESR 128

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           +A   ++S G  Y ETSA   QG+ED F  +
Sbjct: 129 QAQDLARSYGIPYIETSAKTRQGVEDAFYTL 159

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score = 40.9 bits (97), Expect = 3e-04
 Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ ++ I   F     PTI  S +  ++ +      L +
Sbjct: 13  GVGKSALTIQLIQNHFVDECDPTIEDS-YRKQVVIDGETCLLDI 55

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  160 bits (408), Expect = 3e-46
 Identities = 55/148 (37%), Positives = 79/148 (53%), Gaps = 7/148 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+   ++ +      L + DTAGQE + +M   Y
Sbjct: 31  GVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQY 89

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SFA I  + +++KR  D    P+VL  VGNK DL  +R V+ +
Sbjct: 90  MRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVL--VGNKCDLP-TRTVDTK 146

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           +A   +KS G  + ETSA   QG+ED F
Sbjct: 147 QAHELAKSYGIPFIETSAKTRQGVEDAF 174

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score = 40.7 bits (96), Expect = 4e-04
 Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ 382
           GVGK+++ ++ I   F     PTI  S +  ++ +      L 
Sbjct: 31  GVGKSALTIQLIQNHFVDEYDPTIEDS-YRKQVVIDGETCLLD 72

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  160 bits (406), Expect = 4e-46
 Identities = 53/153 (34%), Positives = 80/153 (52%), Gaps = 7/153 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+   ++ +      L + DTAGQE + +M   Y
Sbjct: 14  GVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R     L VF I    SF  I  + +++KR  D    P+VL  VGNK DL  SR V+ +
Sbjct: 73  MRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVL--VGNKCDLP-SRTVDTK 129

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           +A   ++S G  + ETSA   QG++D F  + +
Sbjct: 130 QAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score = 40.3 bits (95), Expect = 6e-04
 Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+++ ++ I   F     PTI  S +  ++ +      L +
Sbjct: 14  GVGKSALTIQLIQNHFVDEYDPTIEDS-YRKQVVIDGETCLLDI 56

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  159 bits (405), Expect = 8e-46
 Identities = 47/152 (30%), Positives = 77/152 (50%), Gaps = 8/152 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++VVR++ K F     PT+ +++   +  + +  V +++ DTAGQE        +
Sbjct: 38  GVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQEDTI-QREGH 95

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            R     +LV+DIT   SF  +      L          L+L  VGNK DL+ SR+V+ E
Sbjct: 96  MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLIL--VGNKADLDHSRQVSTE 153

Query: 233 EAFHYSKSIGGTYYETSALQDQG-IEDVFLNV 263
           E    +  +   +YE SA   +G I ++F  +
Sbjct: 154 EGEKLATELACAFYECSACTGEGNITEIFYEL 185

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score = 41.8 bits (99), Expect = 2e-04
 Identities = 12/43 (27%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ 382
           GVGK+++VVR++ K F     PT+ ++ +  +  + +  V ++
Sbjct: 38  GVGKSALVVRFLTKRFIWEYDPTLEST-YRHQATIDDEVVSME 79

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  157 bits (400), Expect = 4e-45
 Identities = 37/152 (24%), Positives = 74/152 (48%), Gaps = 6/152 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+++ V+++ K F     P +  ++ +++  V    V L+V DTA  +  R+    Y
Sbjct: 31  GAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERY 88

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNV---DEPLVLCVVGNKTDLESSREVNRE 232
              A+A L+V+ +    SF +  ++++ L  +       +   ++GNK D+   R+V + 
Sbjct: 89  LNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKA 148

Query: 233 EAFHYSKSIGGTYYETSALQD-QGIEDVFLNV 263
           E    +   G  ++E SA  D + ++ VF   
Sbjct: 149 EGVALAGRFGCLFFEVSACLDFEHVQHVFHEA 180

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score = 40.3 bits (95), Expect = 7e-04
 Identities = 10/44 (22%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           G GK+++ V+++ K F     P +  + ++++  V    V L++
Sbjct: 31  GAGKSALTVKFLTKRFISEYDPNLEDT-YSSEETVDHQPVHLRV 73

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  154 bits (393), Expect = 2e-44
 Identities = 44/149 (29%), Positives = 80/149 (53%), Gaps = 7/149 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI  S+   ++ V   +  L++ DTAG E+F +M  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNRE 232
            +N     LV+ IT   +F  ++   +++ R  D    P++L  VGNK DLE  R V +E
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMIL--VGNKCDLEDERVVGKE 129

Query: 233 EAFHYSKSIGG-TYYETSALQDQGIEDVF 260
           +  + ++      + E+SA     + ++F
Sbjct: 130 QGQNLARQWCNCAFLESSAKSKINVNEIF 158

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  155 bits (394), Expect = 4e-44
 Identities = 43/149 (28%), Positives = 74/149 (49%), Gaps = 8/149 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V+R++   F     PTI  ++    I+  ++   LQ+ DT G  +F +M  + 
Sbjct: 18  GVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPAMQRLS 76

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE----PLVLCVVGNKTDLESSREVNR 231
               +A +LVF +T   S   +    K + +        P++L  VGNK D    REV+ 
Sbjct: 77  ISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVML--VGNKCDET-QREVDT 133

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
            EA   ++     + ETSA  +  ++++F
Sbjct: 134 REAQAVAQEWKCAFMETSAKMNYNVKELF 162

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score = 41.1 bits (97), Expect = 4e-04
 Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+V+R++   F     PTI  + +   I+  ++   LQ+
Sbjct: 18  GVGKSSLVLRFVKGTFRDTYIPTIEDT-YRQVISCDKSVCTLQI 60

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  153 bits (389), Expect = 1e-43
 Identities = 38/156 (24%), Positives = 64/156 (41%), Gaps = 15/156 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GK+++V RY+   +    SP  G   F  +I V      L + D  G    +     +
Sbjct: 30  SSGKSALVHRYLTGTYVQEESPEGG--RFKKEIVVDGQSYLLLIRDEGGPPELQ-----F 82

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDL--ESSREVN 230
               +A + VF +    SF  +  +   L    +    P+VL  VG +  +   + R ++
Sbjct: 83  AAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVL--VGTQDAISAANPRVID 140

Query: 231 REEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
              A   S  +   TYYET A     +E VF +V++
Sbjct: 141 DSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQ 176

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score = 44.1 bits (105), Expect = 3e-05
 Identities = 13/45 (28%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR 384
             GK+++V RY+   +    SP  G   F  +I V      L +R
Sbjct: 30  SSGKSALVHRYLTGTYVQEESPEGG--RFKKEIVVDGQSYLLLIR 72

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  151 bits (383), Expect = 2e-42
 Identities = 36/154 (23%), Positives = 66/154 (42%), Gaps = 9/154 (5%)

Query: 116 GVGKTSMVVRYIG--KMFSHHISPTIGASFFTAKINV-GE--NKVKLQVWDTAGQERFRS 170
           GVGK+++   + G                 +   + V GE    + L +W+  G+  +  
Sbjct: 47  GVGKSTLANIFAGVHDSMDSDCEVLG-EDTYERTLMVDGESATIILLDMWENKGENEW-- 103

Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREV 229
           +     +  +A L+V+ IT   SF        +L+R    E + + +VGNK+DL   REV
Sbjct: 104 LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREV 163

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           +  E    +      + ETSA     ++++F  +
Sbjct: 164 SVSEGRACAVVFDCKFIETSAAVQHNVKELFEGI 197

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  149 bits (379), Expect = 2e-42
 Identities = 30/156 (19%), Positives = 58/156 (37%), Gaps = 13/156 (8%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GK+S++ R++   +      T     +  ++ V      + + + AG    +     +
Sbjct: 17  RSGKSSLIHRFLTGSYQVLE-KTESE-QYKKEMLVDGQTHLVLIREEAGAPDAK-----F 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR-----NVDEPLVLCVVGNKTDLESSREVN 230
              A+A + VF +   +SF A+     +L            L L    ++    S R V 
Sbjct: 70  SGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVG 129

Query: 231 REEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
              A      +   +YYET A     ++ VF  V++
Sbjct: 130 DARARALXADMKRCSYYETXATYGLNVDRVFQEVAQ 165

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score = 44.5 bits (106), Expect = 2e-05
 Identities = 7/45 (15%), Positives = 18/45 (40%), Gaps = 2/45 (4%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR 384
             GK+S++ R++   +      T     +  ++ V      + +R
Sbjct: 17  RSGKSSLIHRFLTGSYQVLE-KTESE-QYKKEMLVDGQTHLVLIR 59

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  149 bits (377), Expect = 4e-42
 Identities = 30/164 (18%), Positives = 63/164 (38%), Gaps = 15/164 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHIS--PTIGASFFTAKINVGENK---VKLQVWDTAGQERFRS 170
           G GKT+++ + +    S       T+G       I + + +   + L VWD AG+E F S
Sbjct: 12  GSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYS 71

Query: 171 MAPMYYRNANAALLVFDITQYHS-FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE- 228
             P +       L V+D+++  +   A+K W+  +K       V+ +VG   D+   ++ 
Sbjct: 72  THPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVI-LVGTHLDVSDEKQR 130

Query: 229 --VNREEAFHYSKSIG-----GTYYETSALQDQGIEDVFLNVSK 265
                +         G       ++  +  +   +  +   +  
Sbjct: 131 KACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIIN 174

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 9/49 (18%), Positives = 20/49 (40%), Gaps = 5/49 (10%)

Query: 340 GVGKTSMVVRYIGKMFSHHIS--PTIGASFFTAKINVGENK---VKLQL 383
           G GKT+++ + +    S       T+G       I + + +   + L +
Sbjct: 12  GSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNV 60

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  147 bits (373), Expect = 2e-41
 Identities = 37/154 (24%), Positives = 67/154 (43%), Gaps = 9/154 (5%)

Query: 116 GVGKTSMVVRYIGKMFS--HHISPTIGASFFTAKINV-GE--NKVKLQVWDTAGQERFRS 170
           GVGK+++   + G   S             +   + V GE    + L +W+  G+  +  
Sbjct: 16  GVGKSTLANIFAGVHDSMDSDXEVLG-EDTYERTLMVDGESATIILLDMWENKGENEW-- 72

Query: 171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREV 229
           +     +  +A L+V+ IT   SF        +L+R    E + + +VGNK+DL   REV
Sbjct: 73  LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREV 132

Query: 230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           +  E    +      + ETSA     ++++F  +
Sbjct: 133 SVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGI 166

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  154 bits (391), Expect = 1e-40
 Identities = 30/161 (18%), Positives = 66/161 (40%), Gaps = 12/161 (7%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKI--------NVGENKVKLQVWDTAGQER 167
             GKTS++ + IG+ F    S T G +  T +         +    +     WD  GQE 
Sbjct: 51  MAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEI 110

Query: 168 FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR 227
             +    +   ++  +L+ D     + +    W++ +++   +  V+ VV NK D   S 
Sbjct: 111 MHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKYGGKSPVI-VVMNKIDENPSY 166

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            + +++      +I   ++  S     G+E +  ++   ++
Sbjct: 167 NIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVL 207

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  130 bits (329), Expect = 3e-35
 Identities = 45/150 (30%), Positives = 74/150 (49%), Gaps = 8/150 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ +          PT+  +F +  +     +  L +WDTAGQE +  + P+ 
Sbjct: 33  AVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQEEYDRLRPLS 91

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDL--ESSREVNR 231
           Y +++  LL F +    SF  I T W  E+K  +D    VL  VG K DL  + S +V +
Sbjct: 92  YADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVL--VGLKVDLRKDGSDDVTK 149

Query: 232 EEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
           +E     + +G   Y E S++   G+ +VF
Sbjct: 150 QEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score =  127 bits (321), Expect = 3e-34
 Identities = 47/158 (29%), Positives = 73/158 (46%), Gaps = 16/158 (10%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  +F +A + V    V L +WDTAGQE +  + P+ 
Sbjct: 18  AVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQEDYNRLRPLS 76

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           YR A+  +L F +    S+  +   W+ ELK      P+VL  VG K DL   ++     
Sbjct: 77  YRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVL--VGTKLDLRDDKQFFIDH 134

Query: 229 -----VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                +   +     K IG   Y E S+   + ++ VF
Sbjct: 135 PGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  125 bits (317), Expect = 2e-33
 Identities = 50/158 (31%), Positives = 74/158 (46%), Gaps = 18/158 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVWDTAGQERFRSMAP 173
            VGKT M++ Y    F     PT+   F  F+A + V    V L +WDTAGQE +  + P
Sbjct: 19  AVGKTCMLICYTSNKFPTDYIPTV---FDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRP 75

Query: 174 MYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDL-------- 223
           + YR A+  +L F +    S+  +   W+ EL+R     P+VL  VG K DL        
Sbjct: 76  LSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVL--VGTKLDLRDDKGYLA 133

Query: 224 ESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
           + +  +   +     K IG   Y E S+   Q ++ VF
Sbjct: 134 DHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF 171

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  124 bits (312), Expect = 1e-32
 Identities = 46/160 (28%), Positives = 74/160 (46%), Gaps = 18/160 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKTS+++ +    F    +PT+   +    + V    V L +WDTAGQ+ +  + P++
Sbjct: 44  GCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLF 102

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           Y +A+  LL FD+T  +SF  I   W  E+     + P+++  VG KTDL   +      
Sbjct: 103 YPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIV--VGCKTDLRKDKSLVNKL 160

Query: 229 -------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                  V        ++S+G   Y E SA     +  VF
Sbjct: 161 RRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF 200

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score =  122 bits (307), Expect = 4e-32
 Identities = 45/160 (28%), Positives = 75/160 (46%), Gaps = 18/160 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+    ++A + V    V L +WDTAGQE +  + P+ 
Sbjct: 40  AVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 98

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 99  YPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 156

Query: 229 -------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 157 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score =  121 bits (306), Expect = 6e-32
 Identities = 47/160 (29%), Positives = 69/160 (43%), Gaps = 18/160 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+    + A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 35  ACGKTCLLIVFSKDQFPEVYVPTVFE-NYIADIEVDGKQVELALWDTAGQEDYDRLRPLS 93

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           Y + +  L+ F I    S   I   W  E+K      P++L  VGNK DL          
Sbjct: 94  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIIL--VGNKKDLRQDEHTRREL 151

Query: 229 -------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                  V  EE    +  I    Y E SA   +G+ +VF
Sbjct: 152 AKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  119 bits (300), Expect = 4e-31
 Identities = 51/162 (31%), Positives = 80/162 (49%), Gaps = 22/162 (13%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVWDTAGQERFRSMAP 173
            VGKTS+VV Y    +     PT    F  F+A ++V    V+LQ+ DTAGQ+ F  + P
Sbjct: 30  AVGKTSLVVSYTTNGYPTEYIPTA---FDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRP 86

Query: 174 MYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE--- 228
           + Y N +  LL F +    SF  +   WV E++ +  + P++L  VG ++DL    +   
Sbjct: 87  LCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIIL--VGTQSDLREDVKVLI 144

Query: 229 ---------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                    V  E A   ++ I   +Y E SAL  + +++VF
Sbjct: 145 ELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score =  119 bits (299), Expect = 6e-31
 Identities = 45/160 (28%), Positives = 71/160 (44%), Gaps = 18/160 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++ +    F     PT+  ++  A I V   +V+L +WDTAGQE +  + P+ 
Sbjct: 35  ACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQEDYDRLRPLS 93

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           Y + +  L+ F +    S   I   WV E+K      P++L  V NK DL S        
Sbjct: 94  YPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIIL--VANKKDLRSDEHVRTEL 151

Query: 229 -------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                  V  ++    +  I    Y E SA   +G+ +VF
Sbjct: 152 ARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVF 191

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score =  115 bits (290), Expect = 6e-30
 Identities = 41/161 (25%), Positives = 82/161 (50%), Gaps = 19/161 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++  +    F  +  PT+  ++ TA   +   +++L +WDT+G   + ++ P+ 
Sbjct: 17  QCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLS 75

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE----- 228
           Y +++A L+ FDI++  +  ++   W  E++       ++L  VG K+DL +        
Sbjct: 76  YPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLL--VGCKSDLRTDVSTLVEL 133

Query: 229 -------VNREEAFHYSKSIGG-TYYETSALQDQ-GIEDVF 260
                  V+ ++  + +K IG  TY E SALQ +  + D+F
Sbjct: 134 SNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 174

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score =  114 bits (288), Expect = 9e-30
 Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 18/160 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+    ++A + V    V L +WDTAGQE +  + P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLS 73

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE----- 228
           Y   + +L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++     
Sbjct: 74  YPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKL 131

Query: 229 -------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                  +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 132 KEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score =  114 bits (286), Expect = 3e-29
 Identities = 42/163 (25%), Positives = 82/163 (50%), Gaps = 23/163 (14%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVWDTAGQERFRSMAP 173
             GKT+++  +    F  +  PT+   F  +TA   +   +++L +WDT+G   + ++ P
Sbjct: 38  QCGKTALLHVFAKDCFPENYVPTV---FENYTASFEIDTQRIELSLWDTSGSPYYDNVRP 94

Query: 174 MYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDL-------- 223
           + Y +++A L+ FDI++  +  ++   W  E++    +  ++L  VG K+DL        
Sbjct: 95  LSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLL--VGCKSDLRTDVSTLV 152

Query: 224 ----ESSREVNREEAFHYSKSIGG-TYYETSALQDQ-GIEDVF 260
                    V+ ++  + +K IG  TY E SALQ +  + D+F
Sbjct: 153 ELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 195

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score =  113 bits (285), Expect = 3e-29
 Identities = 47/162 (29%), Positives = 73/162 (45%), Gaps = 22/162 (13%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVWDTAGQERFRSMAP 173
            VGKT +++ Y    F     PT+   F  +   + VG  +  L ++DTAGQE +  + P
Sbjct: 28  AVGKTCLLMSYANDAFPEEYVPTV---FDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRP 84

Query: 174 MYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDLESSRE--- 228
           + Y   +  L+ F +    SF  +K  WV ELK      P +L  +G + DL    +   
Sbjct: 85  LSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLL--IGTQIDLRDDPKTLA 142

Query: 229 ---------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                    +  E+    +K IG   Y E SAL  +G++ VF
Sbjct: 143 RLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score =  108 bits (271), Expect = 5e-27
 Identities = 40/161 (24%), Positives = 74/161 (45%), Gaps = 19/161 (11%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+M+       +     PT+  ++ TA +   E +V+L +WDT+G   + ++ P+ 
Sbjct: 37  QCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLC 95

Query: 176 YRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDE-PLVLCVVGNKTDL---------- 223
           Y +++A LL FDI++  +  +    W  E+        ++L  +G KTDL          
Sbjct: 96  YSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLL--IGCKTDLRTDLSTLMEL 153

Query: 224 --ESSREVNREEAFHYSKSIGG-TYYETSALQDQ-GIEDVF 260
             +    ++ E+    +K +G   Y E SA   +  I  +F
Sbjct: 154 SHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIF 194

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score = 93.1 bits (231), Expect = 8e-21
 Identities = 44/159 (27%), Positives = 75/159 (47%), Gaps = 18/159 (11%)

Query: 117 VGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYY 176
           VGKT +++ Y    F     PT+  ++ +A + V    V L +WDTAG E +  + P+ Y
Sbjct: 166 VGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSY 224

Query: 177 RNANAALLVFDITQYHSFAAIKT-WVKELKRNV-DEPLVLCVVGNKTDLESSRE------ 228
              +  L+ F +    SF  ++  W  E++ +  + P++L  VG K DL   ++      
Sbjct: 225 PQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIIL--VGTKLDLRDDKDTIEKLK 282

Query: 229 ------VNREEAFHYSKSIGG-TYYETSALQDQGIEDVF 260
                 +   +    +K IG   Y E SAL  +G++ VF
Sbjct: 283 EKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 79.3 bits (195), Expect = 1e-16
 Identities = 29/149 (19%), Positives = 48/149 (32%), Gaps = 13/149 (8%)

Query: 125 RYIGKMFSHHISPTIGASFF---TAKINVGENKVKLQVWDTAGQER-FRSMA-PMYYRNA 179
            +I          T    +     A       K+     D  G E+ F     P      
Sbjct: 104 EFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLV 163

Query: 180 NAALLVFDITQ--YHSFAAIKTWVKELKRNVDE---PLVLCVVGNKTDLESSREVNREEA 234
           +  LL  D+++    +F     +V  L   + +   P+V+  V  K D    R +     
Sbjct: 164 DGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVV--VLTKCDEGVERYIRDAHT 221

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           F  SK       ETSA  +  ++  F  +
Sbjct: 222 FALSKK-NLQVVETSARSNVNVDLAFSTL 249

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 77.1 bits (190), Expect = 2e-16
 Identities = 29/171 (16%), Positives = 58/171 (33%), Gaps = 21/171 (12%)

Query: 116 GVGKTSMV--------VRYIGKMFS--HHISPTIGASFFTAKI-NVGENKVKLQVWDTAG 164
             GKT+ +            G+M S       T+   F    I  V   K +  ++   G
Sbjct: 24  LSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPG 83

Query: 165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE------PLVLCVVG 218
           Q  + +   +  R  +  + V D       A  ++  + ++ N+ E       + + +  
Sbjct: 84  QVFYNASRKLILRGVDGIVFVADSAPNRLRANAESM-RNMRENLAEYGLTLDDVPIVIQV 142

Query: 219 NKTDLESSREVNR-EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           NK DL  +  V                  E  A + +G+ +    VS+ ++
Sbjct: 143 NKRDLPDALPVEMVRAVVDPEGKF--PVLEAVATEGKGVFETLKEVSRLVL 191

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 71.5 bits (175), Expect = 2e-14
 Identities = 32/174 (18%), Positives = 59/174 (33%), Gaps = 28/174 (16%)

Query: 116 GVGKTSMVVRYIGKMFSH---HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMA 172
             GK+S+      KM  +    +  T          +   + V  Q+WD  GQ  F    
Sbjct: 30  RSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNS---SFVNFQIWDFPGQMDFFDPT 86

Query: 173 P---MYYRNANAALLVFDITQYH--SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR 227
               M +R   A + V D    +  +   +   V +  +   +      + +K D  S  
Sbjct: 87  FDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFI-HKVDGLS-- 143

Query: 228 EVNREEAF-------------HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
           + ++ E                  + +  ++Y TS + D  I + F  V + LI
Sbjct: 144 DDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTS-IYDHSIFEAFSKVVQKLI 196

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 68.8 bits (169), Expect = 1e-13
 Identities = 41/150 (27%), Positives = 60/150 (40%), Gaps = 15/150 (10%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+++ R           PTIG  F    ++     +KL VWD  GQ   R     YY 
Sbjct: 30  GKTTILYRLQIGEVVT-TKPTIG--FNVETLSYK--NLKLNVWDLGGQTSIRPYWRCYYA 84

Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSREVN 230
           +  A + V D T     +      KEL   + E       L V  NK D     S+ EV+
Sbjct: 85  DTAAVIFVVDSTDKDRMSTAS---KELHLMLQEEELQDAALLVFANKQDQPGALSASEVS 141

Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           +E      K    +   +SA++ +GI +  
Sbjct: 142 KELNLVELKDRSWSIVASSAIKGEGITEGL 171

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 68.4 bits (168), Expect = 1e-13
 Identities = 35/153 (22%), Positives = 58/153 (37%), Gaps = 21/153 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKTS++ R         + PT+G       +N+       +  +VWD  GQ   R     
Sbjct: 34  GKTSILYRLHLGDVVTTV-PTVG-------VNLETLQYKNISFEVWDLGGQTGVRPYWRC 85

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           Y+ + +A + V D T        K    EL   +DE      +L +  NK DL    S  
Sbjct: 86  YFSDTDAVIYVVDSTDRDRMGVAK---HELYALLDEDELRKSLLLIFANKQDLPDAASEA 142

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E+  +       +   T  ++S+    G+ +  
Sbjct: 143 EIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGM 175

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 68.4 bits (168), Expect = 2e-13
 Identities = 41/155 (26%), Positives = 63/155 (40%), Gaps = 24/155 (15%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+ V       F+  + PT+G   F    N+ +     V +++WD  GQ RFRSM   
Sbjct: 34  GKTTFVNVIASGQFNEDMIPTVG---F----NMRKITKGNVTIKLWDIGGQPRFRSMWER 86

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           Y R  +A + + D        A K    EL   +D+P    + + V+GNK DL      +
Sbjct: 87  YCRGVSAIVYMVDAADQEKIEASK---NELHNLLDKPQLQGIPVLVLGNKRDLPGALDEK 143

Query: 228 EVNREEAFHYSKSIGGTYY--ETSALQDQGIEDVF 260
           E+   E  + S            S  +   I+   
Sbjct: 144 EL--IEKMNLSAIQDREICCYSISCKEKDNIDITL 176

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 67.6 bits (166), Expect = 2e-13
 Identities = 41/153 (26%), Positives = 59/153 (38%), Gaps = 21/153 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+++ R           PTIG   F    NV       +K QVWD  G    R     
Sbjct: 19  GKTTILYRLQVGEVVT-TIPTIG---F----NVETVTYKNLKFQVWDLGGLTSIRPYWRC 70

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           YY N +A + V D          K    EL   ++E      +L V  NK D+E   +S 
Sbjct: 71  YYSNTDAVIYVVDSCDRDRIGISK---SELVAMLEEEELRKAILVVFANKQDMEQAMTSS 127

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E+         K      ++TSA +  G+++  
Sbjct: 128 EMANSLGLPALKDRKWQIFKTSATKGTGLDEAM 160

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 68.0 bits (167), Expect = 2e-13
 Identities = 33/153 (21%), Positives = 57/153 (37%), Gaps = 21/153 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+++ ++ G+     ISPT+G        N+        KL +WD  GQ+  RS    
Sbjct: 30  GKTTILKKFNGEDVDT-ISPTLG-------FNIKTLEHRGFKLNIWDVGGQKSLRSYWRN 81

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           Y+ + +  + V D          +   +EL+  + E       L +  NK DL    S  
Sbjct: 82  YFESTDGLIWVVDSADRQRMQDCQ---RELQSLLVEERLAGATLLIFANKQDLPGALSCN 138

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
            +         +S        SA+  + +    
Sbjct: 139 AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGI 171

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 68.1 bits (167), Expect = 2e-13
 Identities = 33/156 (21%), Positives = 67/156 (42%), Gaps = 23/156 (14%)

Query: 118 GKTSMVVRY-IGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAP 173
           GKT+++ +       S +I PTIG        ++ +   + +   V+D +GQ R+R++  
Sbjct: 33  GKTTIINKLKPSNAQSQNILPTIG-------FSIEKFKSSSLSFTVFDMSGQGRYRNLWE 85

Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP------LVLCVVGNKTDLE--- 224
            YY+   A + V D +        K   +EL   ++ P      + +    NK DL    
Sbjct: 86  HYYKEGQAIIFVIDSSDRLRMVVAK---EELDTLLNHPDIKHRRIPILFFANKMDLRDAV 142

Query: 225 SSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           +S +V++       K        + A++ +G+++  
Sbjct: 143 TSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGV 178

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 66.4 bits (163), Expect = 4e-13
 Identities = 35/153 (22%), Positives = 55/153 (35%), Gaps = 21/153 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+++ +           PTIG        NV       +   VWD  GQ++ R +   
Sbjct: 12  GKTTILYKLKLGEIVT-TIPTIG-------FNVETVEYKNISFTVWDVGGQDKIRPLWRH 63

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           Y++N    + V D          +    EL R + E      VL V  NK DL    ++ 
Sbjct: 64  YFQNTQGLIFVVDSNDRERVNEARE---ELMRMLAEDELRDAVLLVFANKQDLPNAMNAA 120

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E+  +   H  +        T A    G+ +  
Sbjct: 121 EITDKLGLHSLRHRNWYIQATCATSGDGLYEGL 153

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 66.1 bits (162), Expect = 9e-13
 Identities = 37/153 (24%), Positives = 60/153 (39%), Gaps = 21/153 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+++ +   +  SH I+PT G        N+        KL VWD  GQ + R     
Sbjct: 28  GKTTLLKQLASEDISH-ITPTQG-------FNIKSVQSQGFKLNVWDIGGQRKIRPYWRS 79

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           Y+ N +  + V D      F       +EL   ++E     + + +  NK DL     + 
Sbjct: 80  YFENTDILIYVIDSADRKRFEETG---QELTELLEEEKLSCVPVLIFANKQDLLTAAPAS 136

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E+      H  +         SAL  +G++D  
Sbjct: 137 EIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGM 169

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 65.0 bits (159), Expect = 2e-12
 Identities = 37/153 (24%), Positives = 60/153 (39%), Gaps = 21/153 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+++ ++      H  SPTIG        NV E   N  +  +WD  GQE  RS    
Sbjct: 28  GKTTILYQFSMNEVVH-TSPTIG-------SNVEEIVINNTRFLMWDIGGQESLRSSWNT 79

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           YY N    ++V D T     +  +   +EL + +         L +  NK D++   +  
Sbjct: 80  YYTNTEFVIVVVDSTDRERISVTR---EELYKMLAHEDLRKAGLLIFANKQDVKECMTVA 136

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E+++       K          AL  +G+    
Sbjct: 137 EISQFLKLTSIKDHQWHIQACCALTGEGLCQGL 169

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 65.0 bits (159), Expect = 3e-12
 Identities = 34/150 (22%), Positives = 55/150 (36%), Gaps = 15/150 (10%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+++ +           PTIG  F    +      +   VWD  GQ++ R +   Y++
Sbjct: 41  GKTTILYKLKLGEIVT-TIPTIG--FNVETVEYK--NICFTVWDVGGQDKIRPLWRHYFQ 95

Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSREVN 230
           N    + V D               EL++ + E      VL V  NK D+       E+ 
Sbjct: 96  NTQGLIFVVDSNDRERVQESA---DELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELT 152

Query: 231 REEAFHYSKSIGGTYYETSALQDQGIEDVF 260
            +    + +S       T A Q  G+ D  
Sbjct: 153 DKLGLQHLRSRTWYVQATCATQGTGLYDGL 182

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 63.4 bits (155), Expect = 6e-12
 Identities = 37/153 (24%), Positives = 60/153 (39%), Gaps = 21/153 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPM 174
           GKT+++ ++      H  SPTIG        NV E   N  +  +WD  GQE  RS    
Sbjct: 33  GKTTILYQFSMNEVVH-TSPTIG-------SNVEEIVINNTRFLMWDIGGQESLRSSWNT 84

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSR 227
           YY N    ++V D T     +  +   +EL + +         L +  NK D++   +  
Sbjct: 85  YYTNTEFVIVVVDSTDRERISVTR---EELYKMLAHEDLRKAGLLIFANKQDVKECMTVA 141

Query: 228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E+++       K          AL  +G+    
Sbjct: 142 EISQFLKLTSIKDHQWHIQACCALTGEGLCQGL 174

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 65.4 bits (159), Expect = 9e-12
 Identities = 32/172 (18%), Positives = 54/172 (31%), Gaps = 23/172 (13%)

Query: 116 GVGKTSMVVRYIGKMFSH---HISPTIGASFFTAKINVGENKVKLQVWDTAGQERF---- 168
           G GK+SM         +     +  TI       +       + L +WD  GQ+ F    
Sbjct: 13  GSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFL---GNMTLNLWDCGGQDVFMENY 69

Query: 169 -RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELK--RNVDEPLVLCVVGNKTDL-- 223
                   ++     + VFD+        I+ + K LK  R       + V+ +K DL  
Sbjct: 70  FTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQ 129

Query: 224 ESSREVNREEAFHYSKSI-------GGTYYETSALQDQGIEDVFLNVSKGLI 268
              RE   +                    + TS   D+ +   +  +   LI
Sbjct: 130 LDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIW-DESLYKAWSQIVCSLI 180

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 60.3 bits (147), Expect = 9e-11
 Identities = 25/157 (15%), Positives = 49/157 (31%), Gaps = 22/157 (14%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+++        +    PT      T++  +    +K   +D  G  + R +   Y+ 
Sbjct: 35  GKTTLLHMLKNDRLATLQ-PTWH---PTSE-ELAIGNIKFTTFDLGGHIQARRLWKDYFP 89

Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSREVN 230
             N  + + D      F   +    EL    +      +   ++GNK D     S  E+ 
Sbjct: 90  EVNGIVFLVDAADPERFDEAR---VELDALFNIAELKDVPFVILGNKIDAPNAVSEAELR 146

Query: 231 REEAFHYSKSIGGTY-------YETSALQDQGIEDVF 260
                  +              +  S +   G  + F
Sbjct: 147 SALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAF 183

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 60.4 bits (147), Expect = 1e-10
 Identities = 26/162 (16%), Positives = 56/162 (34%), Gaps = 27/162 (16%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKT+++          H+ PT+     + ++ +    +    +D  G  + R +   Y  
Sbjct: 37  GKTTLLHMLKDDRLGQHV-PTLH--PTSEELTIA--GMTFTTFDLGGHIQARRVWKNYLP 91

Query: 178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSREVN 230
             N  + + D   +      K   +EL   + +     + + ++GNK D     S   + 
Sbjct: 92  AINGIVFLVDCADHERLLESK---EELDSLMTDETIANVPILILGNKIDRPEAISEERLR 148

Query: 231 REEAFHYSKSIGGTY------------YETSALQDQGIEDVF 260
                +   +  G+             +  S L+ QG  + F
Sbjct: 149 EMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGF 190

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 60.3 bits (145), Expect = 1e-09
 Identities = 74/539 (13%), Positives = 147/539 (27%), Gaps = 181/539 (33%)

Query: 17  TYYETDLFLLNRTNQSK---EQLRRKQKE---GKIQTSSLTEVSVNLPKLNYQKNN-KNK 69
           T       L  +    +   E++ R   +     I+T    + S+       Q++   N 
Sbjct: 64  TLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR-QPSMMTRMYIEQRDRLYND 122

Query: 70  KKTLIPY----LEMLVSNKIKVGLLSDK-----FVVG--------LSI----NSRVPNCF 108
            +    Y    L+     K++  LL  +      + G        +++    + +V    
Sbjct: 123 NQVFAKYNVSRLQPY--LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM 180

Query: 109 EANWFWLGVGKTSMVVRYIGKM--FSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE 166
           +   FWL +   +     +  +    + I P      +T++ +   N +KL++     Q 
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN-----WTSRSDHSSN-IKLRIHSI--QA 232

Query: 167 RFRS-MAPMYYRNANAALLV------------FDI-------TQYHS------------- 193
             R  +    Y N    LLV            F++       T++               
Sbjct: 233 ELRRLLKSKPYEN---CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI 289

Query: 194 -----------------FA-AIKTWVKELKRNVDE--PLVLCVVG-----NKTDLESSRE 228
                                +    ++L R V    P  L ++           ++ + 
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH 349

Query: 229 VNREEAFHYSKSIGGTY-----YETSAL-QDQGI--EDVFLNVSKGLICL------SQE- 273
           VN ++    +  I  +       E   +     +       ++   L+ L        + 
Sbjct: 350 VNCDK---LTTIIESSLNVLEPAEYRKMFDRLSVFPPSA--HIPTILLSLIWFDVIKSDV 404

Query: 274 -----SLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETA---------KFV 319
                 LH  SL       +        + I P   L+     E E A            
Sbjct: 405 MVVVNKLHKYSL-------VEKQPKESTISI-PSIYLELKVKLENEYALHRSIVDHYNIP 456

Query: 320 VGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE--- 376
                +  +P   +  ++            +IG    HH+            I   E   
Sbjct: 457 KTFDSDDLIPPYLDQYFYS-----------HIG----HHLK----------NIEHPERMT 491

Query: 377 --NKVKLQLRTGLKVSKIPVPTRNREGATTGRITEPDTMNNNNKKKNRVATTGRPVRSR 433
               V L  R  L+  KI    R+   A     +  +T+      K  +     P   R
Sbjct: 492 LFRMVFLDFRF-LE-QKI----RHDSTAWNASGSILNTLQQLKFYKPYI-CDNDPKYER 543

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.4 bits (135), Expect = 2e-08
 Identities = 62/423 (14%), Positives = 124/423 (29%), Gaps = 124/423 (29%)

Query: 186 FDIT--QYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE----SSREVNREEAFHYSK 239
           F+    QY     +  +      N D   V        D+     S  E+  +       
Sbjct: 9   FETGEHQYQYKDILSVFEDAFVDNFDCKDVQ-------DMPKSILSKEEI--DHIIMSKD 59

Query: 240 SIGGTYYETSALQDQG-------IEDVFLNVSKGLIC--LSQESLHTS-SLRVYDS--DN 287
           ++ GT      L  +        +E+V L ++   +   +  E    S   R+Y    D 
Sbjct: 60  AVSGTLRLFWTLLSKQEEMVQKFVEEV-LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR 118

Query: 288 ITSAN----PRGVVEITPLSSLDTPPLTEAETAKFVV-------GLSI-------NSRVP 329
           + + N       V  + P   L    L E   AK V+       G +        + +V 
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQA-LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177

Query: 330 NCFEANWFWLGVGKTSMVVRYIGKM--FSHHISPTIGA-SFFTAKINVGENKVKLQLRTG 386
              +   FWL +   +     +  +    + I P   + S  ++ I +  + ++ +LR  
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL 237

Query: 387 LK-------------V------------SKIPVPTRNRE------GATTGRI-------- 407
           LK             V             KI + TR ++       ATT  I        
Sbjct: 238 LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 408 -TEPDTMNNNNKKKNRVATTGRPVRSRGGPDRLAINPEGVYCNARFMQAITLHIGDKVTV 466
            T  +  +   K  +       P       + L  NP          + +++ I + +  
Sbjct: 298 LTPDEVKSLLLKYLD-CRPQDLP------REVLTTNP----------RRLSI-IAESIRD 339

Query: 467 YTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTV----VDMKIFKLDDIVRI 522
                  ++ +      +   +I  +  ++      ++P         + +F       I
Sbjct: 340 GLAT---WDNWKHVNCDKLTTIIESS--LN-----VLEPAEYRKMFDRLSVFPPS--AHI 387

Query: 523 EAK 525
              
Sbjct: 388 PTI 390

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 56.4 bits (136), Expect = 9e-09
 Identities = 32/135 (23%), Positives = 49/135 (36%), Gaps = 20/135 (14%)

Query: 134 HISPTIGASFFTAKINVGE---NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ 190
              PTIG        NV       +   VWD  GQ++ R +   Y++N    + V D   
Sbjct: 192 TTIPTIG-------FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 244

Query: 191 YHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLE---SSREVNREEAFHYSKSIGG 243
                  +   +EL R + E      VL V  NK DL    ++ E+  +   H  +    
Sbjct: 245 RERVNEAR---EELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNW 301

Query: 244 TYYETSALQDQGIED 258
               T A    G+ +
Sbjct: 302 YIQATCATSGDGLYE 316

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 53.9 bits (129), Expect = 5e-08
 Identities = 23/171 (13%), Positives = 59/171 (34%), Gaps = 24/171 (14%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK--VKLQVWDTAGQERFRSMA- 172
             GK+S+       M        + +   T+  ++      + L V +  GQ  +   + 
Sbjct: 9   RCGKSSICKVVFHNMQPLDTL-YLES---TSNPSLEHFSTLIDLAVMELPGQLNYFEPSY 64

Query: 173 --PMYYRNANAALLVFDITQY--HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL---ES 225
                +++  A + V D      ++   +   ++   +      +  ++ +K D    + 
Sbjct: 65  DSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLI-HKVDGLSEDF 123

Query: 226 SREVNREEAFHYSKSIGG--------TYYETSALQDQGIEDVFLNVSKGLI 268
             +  R+      + +          ++Y TS + D  I + F  + + LI
Sbjct: 124 KVDAQRDIMQRTGEELLELGLDGVQVSFYLTS-IFDHSIYEAFSRIVQKLI 173

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 49.0 bits (117), Expect = 1e-06
 Identities = 26/121 (21%), Positives = 41/121 (33%), Gaps = 13/121 (10%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMA-PMYY 176
           GKT + VR +   +      +I  S    K+N       L + D  G E  R      + 
Sbjct: 19  GKTLLFVRLLTGQYRD-TQTSITDSSAIYKVN-NNRGNSLTLIDLPGHESLRFQLLDRFK 76

Query: 177 RNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLV-----LCVVGNKTDLESSREV 229
            +A A + V D   +         V E    V  D   +     L +  NK D+  ++  
Sbjct: 77  SSARAVVFVVDSAAFQREVKD---VAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSA 133

Query: 230 N 230
            
Sbjct: 134 K 134

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 46.3 bits (110), Expect = 8e-06
 Identities = 15/124 (12%), Positives = 40/124 (32%), Gaps = 17/124 (13%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKTS++           +  +              +   + + D  G  + R     Y +
Sbjct: 24  GKTSLLTLLTTDSVRPTV-VSQEPL-----SAADYDGSGVTLVDFPGHVKLRYKLSDYLK 77

Query: 178 NANAAL--LVFDI---TQYHSFAAIKTWVKEL-----KRNVDEPLVLCVVGNKTDLESSR 227
                +  L+F +              ++ ++         +   +L +  NK++L ++R
Sbjct: 78  TRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL-IACNKSELFTAR 136

Query: 228 EVNR 231
             ++
Sbjct: 137 PPSK 140

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 45.5 bits (108), Expect = 1e-05
 Identities = 17/126 (13%), Positives = 38/126 (30%), Gaps = 21/126 (16%)

Query: 118 GKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYR 177
           GKTS++           +  +              +   + + D  G  + R     Y +
Sbjct: 60  GKTSLLTLLTTDSVRPTV-VSQEPL-----SAADYDGSGVTLVDFPGHVKLRYKLSDYLK 113

Query: 178 NANAAL--LVFDI---TQYHSFAAIKTW------VKELKRNVDEP-LVLCVVGNKTDLES 225
                +  L+F +              +      + E         L+ C   NK++L +
Sbjct: 114 TRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC---NKSELFT 170

Query: 226 SREVNR 231
           +R  ++
Sbjct: 171 ARPPSK 176

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A* Length = 476

 Score = 42.9 bits (102), Expect = 2e-04
 Identities = 21/114 (18%), Positives = 35/114 (30%), Gaps = 17/114 (14%)

Query: 155 VKLQVWDTAGQ-------ERF---RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKEL 204
              ++ DTAG        E     RS   M    A+  L + D+        +    +  
Sbjct: 281 TMFRLTDTAGLREAGEEIEHEGIRRSRMKM--AEADLILYLLDLGTERLDDELTEIRELK 338

Query: 205 KRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIED 258
             +     +   V NK D  ++ +         +   G      SAL   GI+ 
Sbjct: 339 AAHPAAKFL--TVANKLDRAANADALIRAIADGT---GTEVIGISALNGDGIDT 387

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	617
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.96
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.96
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.95
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.95
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.95
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.95
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.95
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.95
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.95
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.95
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.95
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.95
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.95
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.95
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.95
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.95
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.95
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.95
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.95
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.95
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.95
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.95
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.95
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.95
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.95
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.95
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.95
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.95
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.95
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.95
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.95
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.95
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.95
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.95
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.95
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.94
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.94
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.94
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.94
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.94
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.94
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.94
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.94
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.94
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.94
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.94
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.94
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.94
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.94
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.94
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.94
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.94
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.94
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.94
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.94
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.94
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.94
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.94
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.94
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.94
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.94
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.94
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.93
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.93
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.93
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.93
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.93
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.93
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.93
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.93
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.93
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.93
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.93
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.93
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.93
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.92
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.92
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.92
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.92
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.91
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.91
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.91
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.91
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.91
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.91
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.91
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.91
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.91
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.91
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.91
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.91
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.91
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.9
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.9
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.9
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.9
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.9
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.9
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.9
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.83
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.89
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.88
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.88
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.87
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.86
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.86
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.86
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.86
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.85
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.85
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.85
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.85
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.85
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.84
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.83
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.83
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.83
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.82
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.81
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.8
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.8
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.79
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.78
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.78
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.77
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.77
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.76
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.75
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.75
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.74
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.73
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.71
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.71
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.7
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.69
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.67
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.67
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.67
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.67
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.67
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.66
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.66
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.66
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.65
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.65
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.65
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.64
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.64
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.63
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.63
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.63
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.63
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.61
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.6
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.6
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.59
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.59
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.59
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.59
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.58
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.58
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.58
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.57
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.57
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.56
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.54
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.52
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.52
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.52
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.51
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.51
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.51
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.5
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.5
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.49
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.49
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.49
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.48
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.48
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.48
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.47
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.44
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.44
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.44
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.43
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.4
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.39
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.34
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.33
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.33
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.33
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.32
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.3
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.28
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.2
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.18
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.16
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.14
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.12
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.11
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.11
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.1
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.06
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.02
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.0
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.95
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.94
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.93
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.83
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.74
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.71
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.69
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.66
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.63
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.61
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.48
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	98.4
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.25
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.21
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.2
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.17
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.07
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.75
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.71
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.58
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	97.53
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	97.48
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.46
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	97.44
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	97.43
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	97.42
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	97.4
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	97.39
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	97.39
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	97.38
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	97.38
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	97.37
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	97.36
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	97.33
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.33
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	97.31
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	97.3
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.3
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	97.27
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.26
2vxe_A	88	CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA	97.25
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	97.25
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.25
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	97.25
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	97.22
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	97.21
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	97.2
2fb7_A	95	SM-like protein, LSM-14_N (RAP55); DR.13312, BC055	97.19
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.19
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	97.18
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	97.18
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	97.17
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	97.13
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	97.13
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	97.11
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	97.1
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	97.09
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	97.08
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	97.08
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	97.07
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	97.06
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	97.05
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	97.05
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	97.05
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	97.04
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	97.04
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	97.03
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	97.03
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	97.03
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	97.02
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	97.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	97.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	96.99
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.98
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.97
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	96.97
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.96
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	96.95
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	96.94
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	96.92
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.91
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.9
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.9
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	96.87
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	96.85
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	96.84
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	96.83
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.83
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.8
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.77
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.76
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.76
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	96.75
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	96.74
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.74
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	96.71
1d3b_A	75	Protein (small nuclear ribonucleoprotein SM D3); s	96.69
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	96.68
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	96.67
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.67
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	96.67
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.64
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.62
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.54
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.54
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.54
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.54
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.51
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.5
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	96.48
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	96.45
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.45
1y96_A	86	Gemin6, SIP2, GEM-associated protein 6; SM fold, p	96.41
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.37
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	96.35
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.35
1i4k_A	77	Putative snRNP SM-like protein; core snRNP domain,	96.3
2y9a_D	126	Small nuclear ribonucleoprotein SM D3; splicing-RN	96.22
1th7_A	81	SnRNP-2, small nuclear riboprotein protein; archae	96.2
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	96.19
1h64_1	75	SnRNP SM-like protein; SM fold, spliceosome, snRNP	96.18
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	96.17
1b34_A	119	Protein (small nuclear ribonucleoprotein SM D1); s	96.08
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.04
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	96.05
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	96.05
3s6n_G	76	Small nuclear ribonucleoprotein G; SMN complex, SM	96.04
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.98
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.97
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	95.9
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	95.9
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	95.89
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.87
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.77
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.75
3s6n_F	86	Small nuclear ribonucleoprotein F; SMN complex, SM	95.73
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	95.73
1i8f_A	81	Putative snRNP SM-like protein; beta barrel-like S	95.7
4emh_A	105	Probable U6 snRNA-associated SM-like protein LSM4;	95.67
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.62
1ljo_A	77	Archaeal SM-like protein AF-SM2; snRNP, core snRNP	95.61
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.61
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	95.57
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	95.51
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.43
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	95.4
4emk_B	75	U6 snRNA-associated SM-like protein LSM6; SM fold,	95.34
3bw1_A	96	SMX4 protein, U6 snRNA-associated SM-like protein	95.3
1d3b_B	91	Protein (small nuclear ribonucleoprotein associat	95.3
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.27
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.26
1mgq_A	83	SM-like protein; LSM, RNA-binding, archea, RNA bin	95.18
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	95.11
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	95.1
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	95.05
1n9r_A	93	SMF, small nuclear ribonucleoprotein F, snRNP-F, S	95.02
1m5q_A	130	SMAP3, small nuclear ribonucleoprotein homolog, SM	95.0
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.99
2fh5_B	214	SR-beta, signal recognition particle receptor beta	94.92
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	94.9
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.83
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	94.8
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	94.77
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	94.65
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	94.52
4emk_A	94	U6 snRNA-associated SM-like protein LSM5; SM fold,	94.32
4emk_C	113	U6 snRNA-associated SM-like protein LSM7; SM fold,	94.18
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.16
3pgw_B	231	SM B; protein-RNA complex, U1 snRNA, SM fold, SM c	93.98
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	93.94
3llu_A	196	RAS-related GTP-binding protein C; structural geno	93.68
4a53_A	125	EDC3; RNA binding protein; NMR {Schizosaccharomyce	93.64
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	93.63
4emg_A	93	Probable U6 snRNA-associated SM-like protein LSM3;	93.44
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	93.29
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.06
2xxa_A	433	Signal recognition particle protein; protein trans	92.91
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	92.81
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	92.76
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	92.7
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	92.67
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.66
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	92.64
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	92.59
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	92.5
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	92.43
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	92.41
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	92.35
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.0
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	91.9
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	91.85
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	91.7
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.65
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	91.63
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	91.61
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	91.56
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	91.43
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	91.41
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	91.32
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	91.29
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	91.28
2hf9_A	226	Probable hydrogenase nickel incorporation protein	90.95
2fwk_A	121	U6 snRNA-associated SM-like protein LSM5; structur	90.93
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	90.81
3uc9_A	233	Increased recombination centers protein 6; rossman	90.7
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	90.66
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	90.49
1y96_B	85	Gemin7, SIP3, GEM-associated protein 7; SM fold, p	90.43
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	90.41
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	90.32
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	90.21
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	90.2
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	90.15
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	90.09
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	90.07
3s6n_E	92	Small nuclear ribonucleoprotein E; SMN complex, SM	89.98
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	89.88
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	89.76
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	89.66
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	89.63
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	89.61
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	89.59
1b0u_A	262	Histidine permease; ABC transporter, transport pro	89.49
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	89.45
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	89.44
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	89.42
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	89.38
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	89.2
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	89.19
1b34_B	118	Protein (small nuclear ribonucleoprotein SM D2); s	89.17
1sgw_A	214	Putative ABC transporter; structural genomics, P p	89.16
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	89.11
1g6h_A	257	High-affinity branched-chain amino acid transport	89.09
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.01
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	89.0
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	88.96
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	88.95
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	88.94
1ji0_A	240	ABC transporter; ATP binding protein, structural g	88.93
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	88.93
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	88.92
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	88.88
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	88.84
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	88.83
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	88.81
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	88.81
2ghi_A	260	Transport protein; multidrug resistance protein, M	88.78
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	88.71
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	88.62
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	88.59
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	88.49
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	88.43
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	88.41
2eyu_A	261	Twitching motility protein PILT; pilus retraction	88.38
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	88.34
2ged_A	193	SR-beta, signal recognition particle receptor beta	88.33
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	88.31
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	88.24
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	88.2
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	88.2
4a74_A	231	DNA repair and recombination protein RADA; hydrola	88.15
1nrj_B	218	SR-beta, signal recognition particle receptor beta	88.13
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	87.9
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	87.82
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	87.82
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	87.73
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	87.72
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	87.62
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	87.55
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	87.15
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	87.01
2vc8_A	84	Enhancer of mRNA-decapping protein 3; P-BODY compo	86.95
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	86.94
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	86.87
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	86.82
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	86.73
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	86.63
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	86.56
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	86.56
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	86.48
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	86.43
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	86.43
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	86.27
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	86.24
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	86.22
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	86.2
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	86.12
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	86.12
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	86.02
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	86.0
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	85.99
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	85.95
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	85.89

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=1.6e-32  Score=271.63  Aligned_cols=166  Identities=34%  Similarity=0.629  Sum_probs=146.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +++||+|+|+                      +|||||||++||+.+.|...+.||+|.++..+.+.+++..+.++||||
T Consensus        12 k~~KivlvGd----------------------~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDt   69 (216)
T 4dkx_A           12 RKFKLVFLGE----------------------QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDT   69 (216)
T ss_dssp             -CEEEEEECS----------------------TTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECC
T ss_pred             CcEEEEEECc----------------------CCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEEC
Confidence            4579999999                      999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|+++|..+++.|+++++++|+|||++++.||+.+..|+..+......++|++|||||+|+..++.++.+++.+++++++
T Consensus        70 aGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~  149 (216)
T 4dkx_A           70 AGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELN  149 (216)
T ss_dssp             SCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHT
T ss_pred             CCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhC
Confidence            99999999999999999999999999999999999999999988777779999999999999889999999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +.|++|||++|.||+++|+.|++.+...
T Consensus       150 ~~~~e~SAktg~nV~e~F~~i~~~i~~~  177 (216)
T 4dkx_A          150 VMFIETSAKAGYNVKQLFRRVAAALPGM  177 (216)
T ss_dssp             CEEEEEBTTTTBSHHHHHHHHHHHC---
T ss_pred             CeeEEEeCCCCcCHHHHHHHHHHHHHhh
Confidence            9999999999999999999999887643

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.96  E-value=2.2e-27  Score=228.65  Aligned_cols=169  Identities=37%  Similarity=0.639  Sum_probs=151.2

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.||
T Consensus        18 ~~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   75 (191)
T 2a5j_A           18 GSYLFKYIIIGD----------------------TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIW   75 (191)
T ss_dssp             TCEEEEEEEESS----------------------TTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEE
T ss_pred             cCcceEEEEECc----------------------CCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEE
Confidence            345689999999                      9999999999999999888888999999888888899989999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      ||+|++++..++..+++++|++|+|||++++.+++.+..|+..+.......+|++||+||+|+...+.+..+++..++..
T Consensus        76 Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~  155 (191)
T 2a5j_A           76 DTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFARE  155 (191)
T ss_dssp             CCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHH
T ss_pred             ECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999887666789999999999987777888889999999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++++||++|.||+++|++|.+.+.+..
T Consensus       156 ~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          156 HGLIFMETSAKTACNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             HTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999887654

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.96  E-value=2.9e-27  Score=227.20  Aligned_cols=168  Identities=33%  Similarity=0.566  Sum_probs=154.3

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|++..+...+.+++|.++....+.+.+..+.+.+|
T Consensus        19 ~~~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   76 (189)
T 2gf9_A           19 SDYMFKLLLIGN----------------------SSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIW   76 (189)
T ss_dssp             CSEEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEE
T ss_pred             cCceeEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEE
Confidence            345689999999                      9999999999999999888888999999888888888889999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      ||+|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+...+.+..+++.++++.
T Consensus        77 Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  156 (189)
T 2gf9_A           77 DTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADD  156 (189)
T ss_dssp             ECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHH
T ss_pred             eCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999887656689999999999987777888888999999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++++++++||++|.||+++|++|.+.+.+.
T Consensus       157 ~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          157 LGFEFFEASAKENINVKQVFERLVDVICEK  186 (189)
T ss_dssp             HTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999999988654

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=1.9e-27  Score=232.18  Aligned_cols=168  Identities=39%  Similarity=0.663  Sum_probs=155.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+|++.++..+.+.+++..+.+.+||
T Consensus        24 ~~~~ki~lvG~----------------------~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D   81 (201)
T 2ew1_A           24 DFLFKIVLIGN----------------------AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWD   81 (201)
T ss_dssp             SEEEEEEEEES----------------------TTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEE
T ss_pred             ccceEEEEECc----------------------CCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEE
Confidence            34589999999                      99999999999999998888899999999888898999999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+|+.+..|+..+.......+|++||+||+|+...+.+..+++..++...
T Consensus        82 t~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~  161 (201)
T 2ew1_A           82 TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQ  161 (201)
T ss_dssp             ECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998877667899999999999877778888888999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||++|.||+++|++|.+.+....
T Consensus       162 ~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          162 DMYYLETSAKESDNVEKLFLDLACRLISEA  191 (201)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999887654

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.95  E-value=1.8e-27  Score=231.78  Aligned_cols=168  Identities=38%  Similarity=0.611  Sum_probs=145.7

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+|++.++..+.+.+++..+.+.|||
T Consensus        27 ~~~~ki~vvG~----------------------~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D   84 (201)
T 2hup_A           27 DFLFKLVLVGD----------------------ASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWD   84 (201)
T ss_dssp             CEEEEEEEEEC----------------------TTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEEC
T ss_pred             ccceEEEEECc----------------------CCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEE
Confidence            44589999999                      99999999999999998888889999998888888898889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+|+.+..|+..+......++|++||+||+|+...+.+..+++.+++..+
T Consensus        85 t~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~  164 (201)
T 2hup_A           85 TAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHY  164 (201)
T ss_dssp             CTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHT
T ss_pred             CCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998877667899999999999877778888899999999


Q ss_pred             CC-eEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GG-TYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~-~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++ +++++||++|.||+++|++|.+.+....
T Consensus       165 ~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  195 (201)
T 2hup_A          165 DILCAIETSAKDSSNVEEAFLRVATELIMRH  195 (201)
T ss_dssp             TCSEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            99 9999999999999999999999887543

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.95  E-value=2.4e-27  Score=222.02  Aligned_cols=163  Identities=42%  Similarity=0.731  Sum_probs=149.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+|||
T Consensus         5 ~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~   62 (170)
T 1r2q_A            5 CQFKLVLLGE----------------------SAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDT   62 (170)
T ss_dssp             EEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEE
T ss_pred             ceEEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeC
Confidence            4578889998                      999999999999999888888899999988888888988999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+..++.+..+++..++...+
T Consensus        63 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~  142 (170)
T 1r2q_A           63 AGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNS  142 (170)
T ss_dssp             CCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTT
T ss_pred             CCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999988766678999999999998777778888889999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++++++||++|.|++++|++|.+.+
T Consensus       143 ~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          143 LLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999998754

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.95  E-value=9.1e-28  Score=228.91  Aligned_cols=168  Identities=33%  Similarity=0.614  Sum_probs=125.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+|||
T Consensus         7 ~~~ki~v~G~----------------------~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt   64 (183)
T 2fu5_C            7 YLFKLLLIGD----------------------SGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDT   64 (183)
T ss_dssp             EEEEEEEECC----------------------CCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC
T ss_pred             CceEEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcC
Confidence            3579999999                      999999999999998887788899999888888888888999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+..|+..+......++|++||+||+|+...+.+..+++..+++.++
T Consensus        65 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~  144 (183)
T 2fu5_C           65 AGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYG  144 (183)
T ss_dssp             ---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHT
T ss_pred             CCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999988766678999999999998777788888999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLSQ  272 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~~  272 (617)
                      ++++++||++|.||+++|++|.+.+.....
T Consensus       145 ~~~~~~Sa~~~~~i~~l~~~l~~~i~~~~~  174 (183)
T 2fu5_C          145 IKFMETSAKANINVENAFFTLARDIKAKMD  174 (183)
T ss_dssp             CEEEECCC---CCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999998876543

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.95  E-value=4.4e-27  Score=222.40  Aligned_cols=165  Identities=38%  Similarity=0.655  Sum_probs=152.6

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|++..+...+.++.+.++..+.+.+++..+.+.+||
T Consensus        13 ~~~~~i~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D   70 (179)
T 1z0f_A           13 SYIFKYIIIGD----------------------MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWD   70 (179)
T ss_dssp             SEEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEE
T ss_pred             ccceEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEE
Confidence            34689999999                      99999999999999998888889999999888888999999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+++.+..|+..+.......+|++||+||+|+..++.+..+++.++++.+
T Consensus        71 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~  150 (179)
T 1z0f_A           71 TAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEEN  150 (179)
T ss_dssp             CTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHT
T ss_pred             CCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998877667899999999999877778888899999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +++++++||++|.||+++|++|.+.+.
T Consensus       151 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~  177 (179)
T 1z0f_A          151 GLLFLEASAKTGENVEDAFLEAAKKIY  177 (179)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            999999999999999999999988763

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.95  E-value=8.9e-27  Score=224.31  Aligned_cols=167  Identities=34%  Similarity=0.615  Sum_probs=156.1

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.++.+.++....+.+++..+.+.||||
T Consensus        15 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt   72 (196)
T 3tkl_A           15 YLFKLLLIGD----------------------SGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT   72 (196)
T ss_dssp             EEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEE
T ss_pred             cceEEEEECc----------------------CCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEEC
Confidence            4579999999                      999999999999999988889999999998899999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++.+|++|+|||++++.+|..+..|+..+.......+|++||+||+|+...+.+..+++..++..++
T Consensus        73 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~  152 (196)
T 3tkl_A           73 AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLG  152 (196)
T ss_dssp             CCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTT
T ss_pred             CCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999988877778999999999998888888888999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++||++|.||+++|++|.+.+....
T Consensus       153 ~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  181 (196)
T 3tkl_A          153 IPFLETSAKNATNVEQSFMTMAAEIKKRM  181 (196)
T ss_dssp             CCEEEECTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             CcEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999887654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.95  E-value=2.1e-27  Score=222.91  Aligned_cols=164  Identities=49%  Similarity=0.856  Sum_probs=143.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+|||
T Consensus         5 ~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt   62 (170)
T 1z08_A            5 YSFKVVLLGE----------------------GCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDT   62 (170)
T ss_dssp             EEEEEEEECC----------------------TTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEEC
T ss_pred             cceEEEEECc----------------------CCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEEC
Confidence            4578999999                      999999999999999888888899999988888888888999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+..++.+..+++..+++.++
T Consensus        63 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  142 (170)
T 1z08_A           63 AGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVG  142 (170)
T ss_dssp             CCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTT
T ss_pred             CCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999877655568999999999998777788888999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++++++||++|.|++++|++|.+.+.
T Consensus       143 ~~~~~~Sa~~~~gi~~l~~~l~~~~~  168 (170)
T 1z08_A          143 AKHYHTSAKQNKGIEELFLDLCKRMI  168 (170)
T ss_dssp             CEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             CeEEEecCCCCCCHHHHHHHHHHHHh
Confidence            99999999999999999999998774

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.95  E-value=8.3e-27  Score=218.60  Aligned_cols=162  Identities=43%  Similarity=0.773  Sum_probs=150.1

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+...+.+++|.++....+.+.+..+.+.+|||+
T Consensus         6 ~~~i~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~   63 (170)
T 1z0j_A            6 ELKVCLLGD----------------------TGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTA   63 (170)
T ss_dssp             EEEEEEECC----------------------TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEEC
T ss_pred             ceEEEEECc----------------------CCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCC
Confidence            478888888                      9999999999999999888889999999888888899999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+...+++..+++..++..+++
T Consensus        64 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~  143 (170)
T 1z0j_A           64 GLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHA  143 (170)
T ss_dssp             CSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTC
T ss_pred             CchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999887666789999999999987777888888899999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++++||++|.|++++|++|.+.+
T Consensus       144 ~~~~~Sa~~~~~i~~l~~~i~~~i  167 (170)
T 1z0j_A          144 IFVETSAKNAININELFIEISRRI  167 (170)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             EEEEEeCCCCcCHHHHHHHHHHHH
Confidence            999999999999999999998765

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.95  E-value=8.2e-27  Score=224.64  Aligned_cols=168  Identities=40%  Similarity=0.663  Sum_probs=154.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+|+|+                      +|||||||+++|++..+...+.+++|.++..+.+.+.+..+.+.|||
T Consensus        23 ~~~~ki~v~G~----------------------~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D   80 (193)
T 2oil_A           23 NFVFKVVLIGE----------------------SGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWD   80 (193)
T ss_dssp             SEEEEEEEESS----------------------TTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEE
T ss_pred             CcceEEEEECc----------------------CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEe
Confidence            44589999999                      99999999999999998888889999999888888899999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+...+.+..+++..++...
T Consensus        81 t~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~  160 (193)
T 2oil_A           81 TAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENN  160 (193)
T ss_dssp             ESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT
T ss_pred             CCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998776667899999999999877777888888999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||++|.||+++|++|.+.+.+..
T Consensus       161 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          161 GLLFLETSALDSTNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999887643

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.95  E-value=6.6e-27  Score=222.06  Aligned_cols=166  Identities=41%  Similarity=0.730  Sum_probs=151.7

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|.                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+||
T Consensus        10 ~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D   67 (181)
T 2efe_B           10 SINAKLVLLGD----------------------VGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWD   67 (181)
T ss_dssp             CEEEEEEEECC----------------------TTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEE
T ss_pred             ccceEEEEECc----------------------CCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEe
Confidence            34578999998                      99999999999999998888889999999888888898899999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+..|+..+.......+|++||+||+|+...+.+..+++..+++.+
T Consensus        68 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~  147 (181)
T 2efe_B           68 TAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQEN  147 (181)
T ss_dssp             CCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHT
T ss_pred             CCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998876667899999999999877778888899999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++++++||++|.||+++|++|.+.+..
T Consensus       148 ~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  175 (181)
T 2efe_B          148 GLFFMETSAKTATNVKEIFYEIARRLPR  175 (181)
T ss_dssp             TCEEEECCSSSCTTHHHHHHHHHHTCC-
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999876643

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.95  E-value=9.7e-27  Score=225.96  Aligned_cols=167  Identities=31%  Similarity=0.545  Sum_probs=154.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.+++|.++....+.+++..+.+.+|||
T Consensus         7 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt   64 (203)
T 1zbd_A            7 YMFKILIIGN----------------------SSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDT   64 (203)
T ss_dssp             EEEEEEEECS----------------------TTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEE
T ss_pred             eeeEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEEC
Confidence            3579999999                      999999999999999988888899999988888888998999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+..|+..+.......+|++||+||+|+...+.+..+++..++..++
T Consensus        65 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  144 (203)
T 1zbd_A           65 AGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLG  144 (203)
T ss_dssp             CCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHT
T ss_pred             CCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999999999988765668999999999998877788888899999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++||++|.||+++|++|.+.+....
T Consensus       145 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  173 (203)
T 1zbd_A          145 FEFFEASAKDNINVKQTFERLVDVICEKM  173 (203)
T ss_dssp             CEEEECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999887654

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.95  E-value=5.2e-27  Score=223.24  Aligned_cols=166  Identities=30%  Similarity=0.435  Sum_probs=150.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+|.+.++ ...+.+++..+.+.+||
T Consensus         4 ~~~~ki~~~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D   60 (181)
T 3t5g_A            4 SKSRKIAILGY----------------------RSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVD   60 (181)
T ss_dssp             EEEEEEEEEES----------------------TTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEE
T ss_pred             CceEEEEEECc----------------------CCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEe
Confidence            45689999999                      99999999999998888889999999887 77778889999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      |+|++++..++..+++.+|++|+|||++++.+|+.+..|+..+..... ..+|++||+||+|+..++.+..+++..+++.
T Consensus        61 t~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~  140 (181)
T 3t5g_A           61 TAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAES  140 (181)
T ss_dssp             CCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHH
T ss_pred             CCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHH
Confidence            999999999999999999999999999999999999999998866543 4689999999999988888889999999999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++++++++||++|.|++++|++|++.+...
T Consensus       141 ~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  170 (181)
T 3t5g_A          141 WNAAFLESSAKENQTAVDVFRRIILEAEKM  170 (181)
T ss_dssp             TTCEEEECCTTSHHHHHHHHHHHHHHHHTC
T ss_pred             hCCcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999999999988654

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.95  E-value=6.8e-27  Score=223.23  Aligned_cols=167  Identities=37%  Similarity=0.621  Sum_probs=153.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||
T Consensus         9 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt   66 (186)
T 2bme_A            9 FLFKFLVIGN----------------------AGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDT   66 (186)
T ss_dssp             EEEEEEEEES----------------------TTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEE
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeC
Confidence            3579999999                      999999999999999988888899999988888888998899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+..++.+..+++..++...+
T Consensus        67 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  146 (186)
T 2bme_A           67 AGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENE  146 (186)
T ss_dssp             CCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTT
T ss_pred             CCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999887766678999999999998777788888889999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++||++|.||+++|++|.+.+....
T Consensus       147 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  175 (186)
T 2bme_A          147 LMFLETSALTGENVEEAFVQCARKILNKI  175 (186)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CEEEEecCCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999887654

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.95  E-value=6.1e-27  Score=219.25  Aligned_cols=153  Identities=43%  Similarity=0.792  Sum_probs=141.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+|||+|++++..++..+++++|++|+|||++++.++
T Consensus        12 ~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   91 (170)
T 1ek0_A           12 AAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSF   91 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHH
Confidence            99999999999999998888899999998888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc---cccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESS---REVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~---~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+......++|+++|+||+|+...   +++..+++..++..++++++++||++|.|++++|++|.+.+
T Consensus        92 ~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A           92 IKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            99999999998876667899999999999755   66778888899999999999999999999999999987654

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.95  E-value=1.6e-26  Score=225.23  Aligned_cols=167  Identities=33%  Similarity=0.621  Sum_probs=154.6

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+|||
T Consensus         7 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt   64 (206)
T 2bcg_Y            7 YLFKLLLIGN----------------------SGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT   64 (206)
T ss_dssp             EEEEEEEEES----------------------TTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECC
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeC
Confidence            3579999999                      999999999999999988888999999998888889999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+..|+..+.......+|++||+||+|+...+.+..+++..++..++
T Consensus        65 ~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  144 (206)
T 2bcg_Y           65 AGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANK  144 (206)
T ss_dssp             TTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTT
T ss_pred             CChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999988776678999999999998877788888889999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++||++|.||+++|++|.+.+....
T Consensus       145 ~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  173 (206)
T 2bcg_Y          145 MPFLETSALDSTNVEDAFLTMARQIKESM  173 (206)
T ss_dssp             CCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999887654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.95  E-value=1.4e-26  Score=219.25  Aligned_cols=167  Identities=34%  Similarity=0.657  Sum_probs=151.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||
T Consensus         8 ~~~~i~v~G~----------------------~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt   65 (181)
T 3tw8_B            8 HLFKLLIIGD----------------------SGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDT   65 (181)
T ss_dssp             EEEEEEEECC----------------------TTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEE
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcC
Confidence            4579999999                      999999999999999888888899999988888889999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..++.++|++|+|||++++.++..+..|+..+....+ .+|++||+||+|+...+.+..+++..++..++
T Consensus        66 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~  144 (181)
T 3tw8_B           66 AGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDPERKVVETEDAYKFAGQMG  144 (181)
T ss_dssp             TTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCT-TSEEEEEEECTTCGGGCCSCHHHHHHHHHHHT
T ss_pred             CCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCCCchhcccCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999987664 47999999999998877788888999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLSQ  272 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~~  272 (617)
                      ++++++||++|.||+++|++|.+.+.....
T Consensus       145 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (181)
T 3tw8_B          145 IQLFETSAKENVNVEEMFNCITELVLRAKK  174 (181)
T ss_dssp             CCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            999999999999999999999998876543

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.95  E-value=6.9e-27  Score=219.16  Aligned_cols=164  Identities=36%  Similarity=0.668  Sum_probs=143.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+|||+
T Consensus         3 ~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~   60 (170)
T 1g16_A            3 IMKILLIGD----------------------SGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA   60 (170)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCT
T ss_pred             ceEEEEECc----------------------CCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCC
Confidence            478999999                      9999999999999999888888999999888888888888999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..++..+++++|++|+|||++++.++..+..|+..+.......+|+++|+||+|+ ..+.+..+++..+++.+++
T Consensus        61 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~  139 (170)
T 1g16_A           61 GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGI  139 (170)
T ss_dssp             TGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTC
T ss_pred             CChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC-CcCccCHHHHHHHHHHcCC
Confidence            999999999999999999999999999999999999999998877667899999999999 4456777888899999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +++++||++|.|++++|++|.+.+.+.
T Consensus       140 ~~~~~Sa~~~~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A          140 PFIESSAKNDDNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             CEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999999888653

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=1.4e-26  Score=219.66  Aligned_cols=166  Identities=39%  Similarity=0.609  Sum_probs=143.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ...+||+++|+                      +|||||||+++|++..+. ..+.++++.++....+.+++..+.+.+|
T Consensus         8 ~~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~   65 (180)
T 2g6b_A            8 DVAFKVMLVGD----------------------SGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW   65 (180)
T ss_dssp             SEEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEE
T ss_pred             CcceEEEEECc----------------------CCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEE
Confidence            34579999999                      999999999999998874 4678999999888888889989999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      ||+|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+..++.+..+++..+++.
T Consensus        66 Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  145 (180)
T 2g6b_A           66 DTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKE  145 (180)
T ss_dssp             ECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHH
T ss_pred             eCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999887766789999999999988777888888899999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++++++++||++|.||+++|++|.+.+..
T Consensus       146 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (180)
T 2g6b_A          146 YGLPFMETSAKTGLNVDLAFTAIAKELKR  174 (180)
T ss_dssp             HTCCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             cCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999988754

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=7.8e-27  Score=225.15  Aligned_cols=165  Identities=48%  Similarity=0.794  Sum_probs=152.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+++|.++....+.+++..+.+.+||
T Consensus        21 ~~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D   78 (192)
T 2fg5_A           21 IRELKVCLLGD----------------------TGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWD   78 (192)
T ss_dssp             CEEEEEEEEEC----------------------TTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEE
T ss_pred             CCceEEEEECc----------------------CCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEc
Confidence            34689999999                      99999999999999998888999999998888888888899999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+..++.+..+++.++++.+
T Consensus        79 t~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~  158 (192)
T 2fg5_A           79 TAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESI  158 (192)
T ss_dssp             ECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTT
T ss_pred             CCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998877667899999999999876778888899999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +++++++||++|.||+++|++|.+.+.
T Consensus       159 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~  185 (192)
T 2fg5_A          159 GAIVVETSAKNAINIEELFQGISRQIP  185 (192)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHTCC
T ss_pred             CCEEEEEeCCCCcCHHHHHHHHHHHHH
Confidence            999999999999999999999987653

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.95  E-value=1e-26  Score=226.16  Aligned_cols=168  Identities=35%  Similarity=0.611  Sum_probs=144.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+|+|+                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||
T Consensus        23 ~~~~ki~v~G~----------------------~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D   80 (200)
T 2o52_A           23 DFLFKFLVIGS----------------------AGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWD   80 (200)
T ss_dssp             CEEEEEEEEES----------------------TTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEEC
T ss_pred             CcceEEEEECc----------------------CCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEc
Confidence            34589999999                      99999999999999998888889999998888888999889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+..++.+..+++..+++..
T Consensus        81 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~  160 (200)
T 2o52_A           81 TAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQEN  160 (200)
T ss_dssp             CTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT
T ss_pred             CCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999988776667899999999999877778888888999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||++|.||+++|++|.+.+....
T Consensus       161 ~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  190 (200)
T 2o52_A          161 ELMFLETSALTGENVEEAFLKCARTILNKI  190 (200)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999887654

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=1.5e-27  Score=229.80  Aligned_cols=168  Identities=32%  Similarity=0.552  Sum_probs=155.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+|+|+                      +|||||||+++|++..+...+.++++.++....+.+.+..+.+.|||
T Consensus        21 ~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D   78 (191)
T 3dz8_A           21 DYMFKLLIIGN----------------------SSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWD   78 (191)
T ss_dssp             EECEEEEEEES----------------------TTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEEC
T ss_pred             CeeeEEEEECC----------------------CCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEe
Confidence            35589999999                      99999999999999988888889999999989988888889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+|+.+..|+..+.......+|++||+||+|+..++.+..+++..++..+
T Consensus        79 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~  158 (191)
T 3dz8_A           79 TAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQL  158 (191)
T ss_dssp             HHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998877667899999999999887888888899999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||++|.||+++|++|.+.+....
T Consensus       159 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          159 GFDFFEASAKENISVRQAFERLVDAICDKM  188 (191)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            999999999999999999999999887643

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.95  E-value=6.9e-27  Score=225.71  Aligned_cols=166  Identities=34%  Similarity=0.656  Sum_probs=145.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+||
T Consensus        24 ~~~~ki~vvG~----------------------~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D   81 (192)
T 2il1_A           24 DFKLQVIIIGS----------------------RGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWD   81 (192)
T ss_dssp             SEEEEEEEECS----------------------TTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEE
T ss_pred             CCceEEEEECC----------------------CCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEe
Confidence            45689999999                      99999999999999988888889999999888888898899999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+++.+..|+..+.......+|++||+||+|+...+++..+++..+++.+
T Consensus        82 t~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~  161 (192)
T 2il1_A           82 TAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQI  161 (192)
T ss_dssp             ECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTS
T ss_pred             CCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999988877667899999999999877778888888888875


Q ss_pred             -CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         242 -GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       242 -g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                       +++++++||++|.||+++|++|.+.+.+
T Consensus       162 ~~~~~~~~SA~~g~gi~~l~~~l~~~i~~  190 (192)
T 2il1_A          162 TGMRFCEASAKDNFNVDEIFLKLVDDILK  190 (192)
T ss_dssp             TTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence             7899999999999999999999988754

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.95  E-value=8.7e-27  Score=218.01  Aligned_cols=163  Identities=34%  Similarity=0.579  Sum_probs=149.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.+|||
T Consensus         4 ~~~~i~v~G~----------------------~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt   61 (168)
T 1z2a_A            4 VAIKMVVVGN----------------------GAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDT   61 (168)
T ss_dssp             CEEEEEEECS----------------------TTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECC
T ss_pred             eeEEEEEECc----------------------CCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcC
Confidence            4578999999                      999999999999999988888999999998888888888999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++++|||++++.+++.+..|+..+.... ..+|+++|+||+|+...+.+..+++..+++.++
T Consensus        62 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  140 (168)
T 1z2a_A           62 AGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLK  140 (168)
T ss_dssp             TTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHT
T ss_pred             CCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999887765 457999999999998777778888889999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++++++||+++.|++++|++|.+.+.
T Consensus       141 ~~~~~~Sa~~~~~i~~l~~~l~~~~~  166 (168)
T 1z2a_A          141 LRFYRTSVKEDLNVSEVFKYLAEKHL  166 (168)
T ss_dssp             CEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHh
Confidence            99999999999999999999998774

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.95  E-value=5.5e-27  Score=222.03  Aligned_cols=165  Identities=30%  Similarity=0.481  Sum_probs=146.5

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC-eEEEEEEEe
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQVWD  161 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~-~~~~l~i~D  161 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.+|+|.++....+.+++ ..+.+.+||
T Consensus         5 ~~~ki~v~G~----------------------~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~D   62 (178)
T 2hxs_A            5 RQLKIVVLGD----------------------GASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWD   62 (178)
T ss_dssp             CEEEEEEECC----------------------TTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEE
T ss_pred             ceEEEEEECc----------------------CCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEE
Confidence            4578888888                      99999999999999988777889999988888888876 678999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC---CCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD---EPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~---~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      |+|++++..++..+++++|++|+|||++++.+++.+..|+..+.....   ...|++||+||+|+...+.+..+++..++
T Consensus        63 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~  142 (178)
T 2hxs_A           63 IGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFC  142 (178)
T ss_dssp             CTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHH
T ss_pred             CCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHH
Confidence            999999999999999999999999999999999999999998876431   32348999999999877778888888999


Q ss_pred             HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         239 KSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       239 ~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.++++++++||++|.||+++|++|.+.+..
T Consensus       143 ~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  173 (178)
T 2hxs_A          143 QENGFSSHFVSAKTGDSVFLCFQKVAAEILG  173 (178)
T ss_dssp             HHHTCEEEEECTTTCTTHHHHHHHHHHHHTT
T ss_pred             HHcCCcEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999987754

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.95  E-value=8.9e-27  Score=220.28  Aligned_cols=163  Identities=36%  Similarity=0.652  Sum_probs=149.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.++.+.++....+.+++..+.+.+|||
T Consensus        13 ~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt   70 (179)
T 2y8e_A           13 RKFKLVFLGE----------------------QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDT   70 (179)
T ss_dssp             EEEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEE
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEEC
Confidence            3478999999                      999999999999999888888999999988888889998999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+..++.+..+++..++...+
T Consensus        71 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  150 (179)
T 2y8e_A           71 AGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELN  150 (179)
T ss_dssp             CCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999887665668999999999998777788888889999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++++++||++|.|++++|++|.+.+
T Consensus       151 ~~~~~~Sa~~~~~i~~l~~~l~~~~  175 (179)
T 2y8e_A          151 VMFIETSAKAGYNVKQLFRRVAAAL  175 (179)
T ss_dssp             CEEEEEBTTTTBSHHHHHHHHHHTC
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999998755

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.95  E-value=2.5e-26  Score=217.62  Aligned_cols=168  Identities=30%  Similarity=0.472  Sum_probs=150.1

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      +...+||+++|+                      +|||||||+++|++..+...+.+|.+..+. ..+.+++..+.+.+|
T Consensus         6 ~~~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~   62 (181)
T 2fn4_A            6 PSETHKLVVVGG----------------------GGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDIL   62 (181)
T ss_dssp             SSCEEEEEEEEC----------------------TTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEE
T ss_pred             CCCceEEEEECC----------------------CCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEE
Confidence            345689999999                      999999999999999888888899988765 667788888999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHh-cCCCCCeEEEEEECCCCCCccccCHHHHHHHHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEAFHYSK  239 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~-~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~  239 (617)
                      ||+|++++..++..+++++|++++|||++++.++..+..|+..+.+ .....+|++||+||+|+...+.+..+++..++.
T Consensus        63 Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~  142 (181)
T 2fn4_A           63 DTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGA  142 (181)
T ss_dssp             ECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHH
T ss_pred             ECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988844 334568999999999998777788888889999


Q ss_pred             hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         240 SIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       240 ~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ..+++++++||++|.||+++|++|.+.+....
T Consensus       143 ~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  174 (181)
T 2fn4_A          143 SHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ  174 (181)
T ss_dssp             HTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             HcCCeEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999886544

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.95  E-value=1e-26  Score=225.55  Aligned_cols=166  Identities=26%  Similarity=0.344  Sum_probs=145.6

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|++..+...+.++.+.++..+.+.+++..+.+.+||
T Consensus        21 ~~~~ki~vvG~----------------------~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D   78 (195)
T 3cbq_A           21 DGIFKVMLVGE----------------------SGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYD   78 (195)
T ss_dssp             -CEEEEEEECS----------------------TTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEEC
T ss_pred             CcEEEEEEECC----------------------CCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEe
Confidence            34589999999                      99999999999986554444556777787888888899999999999


Q ss_pred             cCCcccccc-cchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHH
Q psy3029         162 TAGQERFRS-MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSK  239 (617)
Q Consensus       162 t~G~e~~~~-~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~  239 (617)
                      |+|++++.. ++..+++.+|++|+|||++++.+|..+..|+..+..... ..+|++||+||+|+...+.+..+++..+++
T Consensus        79 t~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~  158 (195)
T 3cbq_A           79 IWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG  158 (195)
T ss_dssp             CCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHH
T ss_pred             cCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHH
Confidence            999988765 778889999999999999999999999999999877653 468999999999998778888888999999


Q ss_pred             hcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         240 SIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       240 ~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .++++++++||++|.||+++|++|++.+..
T Consensus       159 ~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~  188 (195)
T 3cbq_A          159 TLSCKHIETSAALHHNTRELFEGAVRQIRL  188 (195)
T ss_dssp             HTTCEEEEEBTTTTBSHHHHHHHHHHHHHT
T ss_pred             HhCCEEEEEcCCCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999988754

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.95  E-value=8.8e-27  Score=224.16  Aligned_cols=164  Identities=23%  Similarity=0.420  Sum_probs=143.1

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|+++.+...+.+|++.++ ...+.+++..+.+.||
T Consensus        18 ~~~~~ki~vvG~----------------------~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   74 (187)
T 3c5c_A           18 GPLEVNLAILGR----------------------RGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVM   74 (187)
T ss_dssp             --CEEEEEEECC----------------------TTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             CCceEEEEEECC----------------------CCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEE
Confidence            345689999999                      99999999999999998888999999776 4567788889999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC---CCCeEEEEEECCCCCCccccCHHHHHHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD---EPLVLCVVGNKTDLESSREVNREEAFHY  237 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~---~~iPvIlVgNK~DL~~~~~v~~~e~~~~  237 (617)
                      ||+|++++..+ ..+++++|++|+|||++++.+|+.+..|+..+.....   ..+|++||+||+|+...+.+..+++.++
T Consensus        75 Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~  153 (187)
T 3c5c_A           75 DTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVAL  153 (187)
T ss_dssp             ECCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHH
T ss_pred             ECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHH
Confidence            99999988875 6799999999999999999999999999999877531   4579999999999987778888899999


Q ss_pred             HHhcCCeEEEEcC-CCCCCHHHHHHHHHHHHH
Q psy3029         238 SKSIGGTYYETSA-LQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       238 ~~~~g~~~~evSA-ktg~gI~eLf~~I~~~l~  268 (617)
                      ++.++++++++|| ++|.||+++|+.|++.+.
T Consensus       154 ~~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~i~  185 (187)
T 3c5c_A          154 AGRFGCLFFEVSACLDFEHVQHVFHEAVREAR  185 (187)
T ss_dssp             HHHHTCEEEECCSSSCSHHHHHHHHHHHHHHH
T ss_pred             HHHcCCcEEEEeecCccccHHHHHHHHHHHHh
Confidence            9999999999999 899999999999988764

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.95  E-value=3.3e-26  Score=218.09  Aligned_cols=165  Identities=27%  Similarity=0.436  Sum_probs=149.7

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+||
T Consensus        16 ~~~~ki~v~G~----------------------~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D   72 (183)
T 3kkq_A           16 LPTYKLVVVGD----------------------GGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLD   72 (183)
T ss_dssp             CCEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEE
T ss_pred             CCceEEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEE
Confidence            34579999999                      99999999999999988888999998876 67778889999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      |+|++++..++..+++++|++|+|||++++.+|+.+..|+..+... ....+|++||+||+|+...+.+..+++..+++.
T Consensus        73 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~  152 (183)
T 3kkq_A           73 TAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATK  152 (183)
T ss_dssp             CCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHH
T ss_pred             CCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999988664 335689999999999988888899999999999


Q ss_pred             cCCeEEEEcCC-CCCCHHHHHHHHHHHHHH
Q psy3029         241 IGGTYYETSAL-QDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       241 ~g~~~~evSAk-tg~gI~eLf~~I~~~l~~  269 (617)
                      ++++++++||+ ++.||+++|++|.+.+.+
T Consensus       153 ~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          153 YNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             HTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             hCCeEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            99999999999 999999999999987753

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.95  E-value=1.9e-26  Score=216.47  Aligned_cols=164  Identities=26%  Similarity=0.343  Sum_probs=133.0

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+.....++.+.+.....+.+++..+.+.+|||+
T Consensus         2 ~~ki~ivG~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   59 (169)
T 3q85_A            2 VFKVMLVGE----------------------SGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIW   59 (169)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCC
T ss_pred             cEEEEEECC----------------------CCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECC
Confidence            368888888                      9999999999999877766666777788888888899999999999999


Q ss_pred             Ccccccc-cchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         164 GQERFRS-MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       164 G~e~~~~-~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |++++.. +...+++++|++++|||++++.+|+.+..|+..+..... .++|++||+||+|+.+.+.+..+++..+++.+
T Consensus        60 g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~  139 (169)
T 3q85_A           60 EQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTL  139 (169)
T ss_dssp             CC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHT
T ss_pred             CccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHc
Confidence            9998876 777889999999999999999999999999999887654 36899999999999877888899999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++++++||++|.|++++|++|.+.+..
T Consensus       140 ~~~~~~~Sa~~~~~v~~l~~~l~~~i~~  167 (169)
T 3q85_A          140 SCKHIETSAALHHNTRELFEGAVRQIRL  167 (169)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCcEEEecCccCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999988754

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.95  E-value=3e-26  Score=216.12  Aligned_cols=165  Identities=27%  Similarity=0.358  Sum_probs=136.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+.. ..+++|.++....+.+++..+.+.+|||+
T Consensus         4 ~~ki~i~G~----------------------~~vGKSsl~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~D~~   60 (175)
T 2nzj_A            4 LYRVVLLGD----------------------PGVGKTSLASLFAGKQERD-LHEQLGEDVYERTLTVDGEDTTLVVVDTW   60 (175)
T ss_dssp             EEEEEEECC----------------------TTSSHHHHHHHHHCC------CCCSSSSEEEEEEEETTEEEEEEEECCC
T ss_pred             EEEEEEECC----------------------CCccHHHHHHHHhcCCCcc-ccCccccceeEEEEEECCEEEEEEEEecC
Confidence            468888888                      9999999999999988654 34678888888888899999999999999


Q ss_pred             Cccc--ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         164 GQER--FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       164 G~e~--~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      |++.  +..+...+++.+|++++|||++++.+|+.+..|+..+.... ...+|++||+||+|+...+++..+++..++..
T Consensus        61 g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~  140 (175)
T 2nzj_A           61 EAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVV  140 (175)
T ss_dssp             -------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHH
T ss_pred             CCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHH
Confidence            9987  56677888999999999999999999999999999887753 34589999999999988778888888889999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++++||++|.||+++|++|.+.+....
T Consensus       141 ~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  171 (175)
T 2nzj_A          141 FDCKFIETSATLQHNVAELFEGVVRQLRLRR  171 (175)
T ss_dssp             HTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999886543

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.95  E-value=3e-26  Score=217.43  Aligned_cols=161  Identities=22%  Similarity=0.380  Sum_probs=137.7

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+.. +.+|++.. +.+.+.+++..+.+.+||
T Consensus         5 ~~~~ki~~vG~----------------------~~vGKTsli~~l~~~~~~~-~~~t~~~~-~~~~~~~~~~~~~l~i~D   60 (178)
T 2iwr_A            5 IPELRLGVLGD----------------------ARSGKSSLIHRFLTGSYQV-LEKTESEQ-YKKEMLVDGQTHLVLIRE   60 (178)
T ss_dssp             CCEEEEEEECC----------------------GGGCHHHHHHHHHHSCCCC-CSSCSSSE-EEEEEEETTEEEEEEEEE
T ss_pred             CCceEEEEECC----------------------CCCCHHHHHHHHHhCCCCC-cCCCccee-EEEEEEECCEEEEEEEEE
Confidence            45678999998                      9999999999999998875 78888865 467778888899999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc---CCCCCeEEEEEECCCCC--CccccCHHHHHH
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN---VDEPLVLCVVGNKTDLE--SSREVNREEAFH  236 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~---~~~~iPvIlVgNK~DL~--~~~~v~~~e~~~  236 (617)
                      |+|+++     ..+++++|++|+|||++++.+|..+..|+..+...   ....+|++||+||+|+.  ..+.+..+++.+
T Consensus        61 t~G~~~-----~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~  135 (178)
T 2iwr_A           61 EAGAPD-----AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARA  135 (178)
T ss_dssp             CSSSCC-----HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHH
T ss_pred             CCCCch-----hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHH
Confidence            999986     56889999999999999999999999876665443   33568999999999993  456778888888


Q ss_pred             HHHhc-CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         237 YSKSI-GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       237 ~~~~~-g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++..+ +++++++||++|.||+++|++|.+.+....
T Consensus       136 ~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  171 (178)
T 2iwr_A          136 LXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLR  171 (178)
T ss_dssp             HHHHHSSEEEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCCeEEEEeccccCCHHHHHHHHHHHHHHHH
Confidence            98876 689999999999999999999999887654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.95  E-value=1.2e-26  Score=229.61  Aligned_cols=168  Identities=33%  Similarity=0.600  Sum_probs=145.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+|+|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.|||
T Consensus        11 ~~~~ki~v~G~----------------------~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D   68 (223)
T 3cpj_B           11 DLLFKIVLIGD----------------------SGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWD   68 (223)
T ss_dssp             CEEEEEEEESC----------------------TTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEEC
T ss_pred             CeeeEEEEECc----------------------CCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEE
Confidence            34579999999                      99999999999999998888889999999888888999889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|+++|..++..+++.+|++|+|||++++.+|+.+..|+..+.......+|++||+||+|+...+.+..+++..++..+
T Consensus        69 t~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~  148 (223)
T 3cpj_B           69 TAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQEN  148 (223)
T ss_dssp             CTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHT
T ss_pred             CCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998876666899999999999877778888888999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||+++.||+++|++|.+.+....
T Consensus       149 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  178 (223)
T 3cpj_B          149 QLLFTETSALNSENVDKAFEELINTIYQKV  178 (223)
T ss_dssp             TCEEEECCCC-CCCHHHHHHHHHHHHTTCC
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999886543

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.95  E-value=1.5e-26  Score=222.15  Aligned_cols=166  Identities=34%  Similarity=0.606  Sum_probs=148.0

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.||
T Consensus        17 ~~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   74 (189)
T 1z06_A           17 RSRIFKIIVIGD----------------------SNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLW   74 (189)
T ss_dssp             --CEEEEEEECC----------------------TTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEE
T ss_pred             CCceEEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEE
Confidence            345689999999                      9999999999999999888889999999988888899989999999


Q ss_pred             ecCCccccc-ccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         161 DTAGQERFR-SMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       161 Dt~G~e~~~-~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      ||+|++++. .++..+++++|++|+|||++++.+|..+..|+..+.... ..++|++||+||+|+...+++..+++..++
T Consensus        75 Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~  154 (189)
T 1z06_A           75 DTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFA  154 (189)
T ss_dssp             ECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHH
T ss_pred             ECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHH
Confidence            999999998 889999999999999999999999999999999988765 456899999999999877778888889999


Q ss_pred             HhcCCeEEEEcCCCC---CCHHHHHHHHHHHHH
Q psy3029         239 KSIGGTYYETSALQD---QGIEDVFLNVSKGLI  268 (617)
Q Consensus       239 ~~~g~~~~evSAktg---~gI~eLf~~I~~~l~  268 (617)
                      ..++++++++||+++   .||+++|++|++.+.
T Consensus       155 ~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          155 DTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             HHTTCCEEECCSSSGGGGSCHHHHHHHHC----
T ss_pred             HHcCCEEEEEeCCcCCcccCHHHHHHHHHHHHh
Confidence            999999999999999   999999999987663

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.94  E-value=5.8e-26  Score=218.89  Aligned_cols=165  Identities=34%  Similarity=0.586  Sum_probs=147.1

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeE------
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK------  154 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~------  154 (617)
                      ....+||+++|.                      +|||||||+++|++..+...+.+|++.++....+.+++..      
T Consensus         4 ~~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~   61 (208)
T 3clv_A            4 KKSSYKTVLLGE----------------------SSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSN   61 (208)
T ss_dssp             CCSSEEEEEECC----------------------TTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC--------
T ss_pred             CCcceEEEEECC----------------------CCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccc
Confidence            345689999999                      9999999999999999888899999999888888777655      


Q ss_pred             -------------------------------EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHH
Q psy3029         155 -------------------------------VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKE  203 (617)
Q Consensus       155 -------------------------------~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~  203 (617)
                                                     +.+.||||+|++++..++..+++.+|++|+|||++++.++..+..|+..
T Consensus        62 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~  141 (208)
T 3clv_A           62 NEKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQ  141 (208)
T ss_dssp             -----------------------CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHH
Confidence                                           8999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         204 LKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       204 i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +.....  +|+++|+||+| ..++.+..+++.+++...+++++++||++|.|++++|++|.+.+.+.
T Consensus       142 i~~~~~--~piilv~NK~D-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  205 (208)
T 3clv_A          142 LKISSN--YIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKN  205 (208)
T ss_dssp             HHHHSC--CEEEEEEECTT-CC-CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHhhCC--CcEEEEEECCC-cccccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            887654  79999999999 55567788889999999999999999999999999999999887654

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.94  E-value=1.1e-26  Score=225.52  Aligned_cols=166  Identities=33%  Similarity=0.557  Sum_probs=138.7

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+|+|+                      +|||||||+++|+++.+...+.+++|.++....+.+++..+.+.||
T Consensus        25 ~~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   82 (199)
T 2p5s_A           25 SQKAYKIVLAGD----------------------AAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLW   82 (199)
T ss_dssp             ---CEEEEEESS----------------------TTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEE
T ss_pred             cCCCeEEEEECc----------------------CCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEE
Confidence            345689999999                      9999999999999999888888999999888888899999999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC------CccccCHHHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE------SSREVNREEA  234 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~------~~~~v~~~e~  234 (617)
                      ||+|++++..++..+++++|++|+|||++++.++..+..|+..+.......+|++||+||+|+.      ..+.+..+++
T Consensus        83 Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~  162 (199)
T 2p5s_A           83 DTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFG  162 (199)
T ss_dssp             ECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHH
T ss_pred             ECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHH
Confidence            9999999999999999999999999999999999999999999887765668999999999995      3466778888


Q ss_pred             HHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       235 ~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..++..++++++++||++|.||+++|++|++.+.
T Consensus       163 ~~~~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          163 EKLAMTYGALFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             HHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            8999999999999999999999999999988764

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.94  E-value=4.8e-26  Score=218.68  Aligned_cols=162  Identities=25%  Similarity=0.442  Sum_probs=142.5

Q ss_pred             ccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          80 LVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        80 ~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      .....+||+++|+                      +|||||||+++|+++.+...+.+|.+ . +.+.+.+++..+.+.|
T Consensus        16 ~~~~~~ki~ivG~----------------------~~vGKSsL~~~~~~~~~~~~~~~t~~-~-~~~~~~~~~~~~~l~i   71 (184)
T 3ihw_A           16 FQGPELKVGIVGN----------------------LSSGKSALVHRYLTGTYVQEESPEGG-R-FKKEIVVDGQSYLLLI   71 (184)
T ss_dssp             CCCCEEEEEEECC----------------------TTSCHHHHHHHHHHSSCCCCCCTTCE-E-EEEEEEETTEEEEEEE
T ss_pred             CCCCeeEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCcCCCcc-e-EEEEEEECCEEEEEEE
Confidence            3456789999999                      99999999999999998888888743 3 4577888999999999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCC--CccccCHHHHHH
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLE--SSREVNREEAFH  236 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~--~~~~v~~~e~~~  236 (617)
                      |||+|++++.     +++++|++|+|||++++.+|+.+..|+..+..... ..+|++||+||+|+.  ..+.+..+++..
T Consensus        72 ~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~  146 (184)
T 3ihw_A           72 RDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARK  146 (184)
T ss_dssp             EECSSSCCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHH
T ss_pred             EECCCChhhh-----eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHH
Confidence            9999998876     88899999999999999999999999999987653 458999999999993  556788889999


Q ss_pred             HHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         237 YSKSIG-GTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       237 ~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++..++ ++|++|||++|.||+++|++|++.+...
T Consensus       147 ~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~  181 (184)
T 3ihw_A          147 LSTDLKRCTYYETCATYGLNVERVFQDVAQKVVAL  181 (184)
T ss_dssp             HHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Confidence            999997 8999999999999999999999988654

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.94  E-value=3.7e-26  Score=218.82  Aligned_cols=167  Identities=34%  Similarity=0.551  Sum_probs=150.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEE-EEEEEECCe--------
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFF-TAKINVGEN--------  153 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~-~~~i~~~~~--------  153 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.+|++.++. .+.+.+++.        
T Consensus        10 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~   67 (195)
T 3bc1_A           10 YLIKFLALGD----------------------SGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRG   67 (195)
T ss_dssp             EEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCC
T ss_pred             eeEEEEEECC----------------------CCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccC
Confidence            4579999999                      999999999999999888888899999877 566666655        


Q ss_pred             -EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCH
Q psy3029         154 -KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNR  231 (617)
Q Consensus       154 -~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~  231 (617)
                       .+.+.+|||+|++++..++..+++++|++|+|||++++.++..+..|+..+..... ..+|++||+||+|+..++.+..
T Consensus        68 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~  147 (195)
T 3bc1_A           68 QRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKE  147 (195)
T ss_dssp             EEEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCH
T ss_pred             cEEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCH
Confidence             78999999999999999999999999999999999999999999999999887664 5689999999999987777888


Q ss_pred             HHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       232 ~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++.+++..++++++++||+++.||+++|++|.+.+.+..
T Consensus       148 ~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          148 EEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             HHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            8888999999999999999999999999999999887654

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.94  E-value=1.6e-26  Score=227.57  Aligned_cols=165  Identities=27%  Similarity=0.488  Sum_probs=146.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+|++.++ ...+.+++..+.+.|||
T Consensus        25 ~~~~ki~vvG~----------------------~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D   81 (214)
T 3q3j_B           25 VARCKLVLVGD----------------------VQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWD   81 (214)
T ss_dssp             --CEEEEEECS----------------------TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEE
T ss_pred             cceEEEEEECc----------------------CCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEE
Confidence            34589999999                      99999999999999999888999999876 55667788889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHH-HHHHHHHHHhcCCCCCeEEEEEECCCCCCc------------cc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAA-IKTWVKELKRNVDEPLVLCVVGNKTDLESS------------RE  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~-l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~  228 (617)
                      |+|+++|..++..+++++|++|+|||++++.+|.. +..|+..+....+ ++|++||+||+|+..+            +.
T Consensus        82 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  160 (214)
T 3q3j_B           82 TSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP-STRVLLIGCKTDLRTDLSTLMELSHQKQAP  160 (214)
T ss_dssp             ECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCT-TSEEEEEEECGGGGGCHHHHHHHHHTTCCC
T ss_pred             CCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccchhhhhhhcccccCc
Confidence            99999999999999999999999999999999998 6899999988764 5899999999999653            66


Q ss_pred             cCHHHHHHHHHhcCC-eEEEEcCCCCCC-HHHHHHHHHHHHHHh
Q psy3029         229 VNREEAFHYSKSIGG-TYYETSALQDQG-IEDVFLNVSKGLICL  270 (617)
Q Consensus       229 v~~~e~~~~~~~~g~-~~~evSAktg~g-I~eLf~~I~~~l~~~  270 (617)
                      +..+++..+++.+++ +|++|||++|.| |+++|+.|.+.+...
T Consensus       161 v~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~  204 (214)
T 3q3j_B          161 ISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNK  204 (214)
T ss_dssp             CCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC-
T ss_pred             cCHHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhcc
Confidence            888999999999999 999999999998 999999999988654

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=6.8e-26  Score=217.69  Aligned_cols=164  Identities=36%  Similarity=0.687  Sum_probs=149.6

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.||||
T Consensus        14 ~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt   71 (195)
T 1x3s_A           14 TTLKILIIGE----------------------SGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDT   71 (195)
T ss_dssp             EEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEE
T ss_pred             CceEEEEECC----------------------CCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeC
Confidence            4579999999                      999999999999999988889999999998888889999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+..... ..+|++||+||+|+. .+.+..+++..+++.+
T Consensus        72 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~  150 (195)
T 1x3s_A           72 AGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKH  150 (195)
T ss_dssp             CSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHT
T ss_pred             CCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999877652 468999999999994 4567778888999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++++++||+++.||+++|++|.+.+..
T Consensus       151 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  178 (195)
T 1x3s_A          151 SMLFIEASAKTCDGVQCAFEELVEKIIQ  178 (195)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCEEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999998864

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.94  E-value=1.8e-26  Score=224.32  Aligned_cols=170  Identities=28%  Similarity=0.451  Sum_probs=145.6

Q ss_pred             cccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEE
Q psy3029          79 MLVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ  158 (617)
Q Consensus        79 ~~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~  158 (617)
                      |.....+||+++|+                      +|||||||+++|++..+...+.+|.+..+ ...+.+++..+.+.
T Consensus        19 ~~~~~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~   75 (201)
T 3oes_A           19 MPLVRYRKVVILGY----------------------RCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLH   75 (201)
T ss_dssp             ----CEEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEE
T ss_pred             CCCCCcEEEEEECC----------------------CCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEE
Confidence            33456789999999                      99999999999999999888889998776 56666677788999


Q ss_pred             EEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHH
Q psy3029         159 VWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHY  237 (617)
Q Consensus       159 i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~  237 (617)
                      ||||+|++++..++..+++++|++|+|||++++.+|+.+..|+..+..... ..+|++||+||+|+..++.+..+++..+
T Consensus        76 l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~  155 (201)
T 3oes_A           76 LVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKL  155 (201)
T ss_dssp             EEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHH
T ss_pred             EEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHH
Confidence            999999999999999999999999999999999999999999999876532 4589999999999988888888899999


Q ss_pred             HHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         238 SKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       238 ~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++.++++++++||++|.||+++|++|.+.+....
T Consensus       156 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~~  189 (201)
T 3oes_A          156 AESWGATFMESSARENQLTQGIFTKVIQEIARVE  189 (201)
T ss_dssp             HHHHTCEEEECCTTCHHHHHHHHHHHHHHHHHC-
T ss_pred             HHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            9999999999999999999999999999887654

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.94  E-value=8.8e-26  Score=220.47  Aligned_cols=166  Identities=35%  Similarity=0.653  Sum_probs=151.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+|+|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.||||
T Consensus        19 ~~~~i~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt   76 (213)
T 3cph_A           19 SIMKILLIGD----------------------SGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDT   76 (213)
T ss_dssp             -CEEEEEECS----------------------TTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECC
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeC
Confidence            3579999999                      999999999999999888888899999988888888998899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..++..+|++|+|||++++.+|..+..|+..+.......+|++||+||+|+ ..+.+..+++..++..++
T Consensus        77 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~  155 (213)
T 3cph_A           77 AGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELG  155 (213)
T ss_dssp             TTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999998877667899999999999 456677788888999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ++++++||++|.||+++|++|.+.+....
T Consensus       156 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  184 (213)
T 3cph_A          156 IPFIESSAKNDDNVNEIFFTLAKLIQEKI  184 (213)
T ss_dssp             CCEEECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999887654

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.94  E-value=5.8e-26  Score=214.77  Aligned_cols=164  Identities=35%  Similarity=0.632  Sum_probs=143.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.+|||
T Consensus         6 ~~~~i~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt   63 (177)
T 1wms_A            6 SLFKVILLGD----------------------GGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDT   63 (177)
T ss_dssp             EEEEEEEECC----------------------TTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEEC
T ss_pred             ceeEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeC
Confidence            4578999999                      999999999999999888888899999988888889998899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC----CCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~----~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+.....    ..+|+++|+||+|+. .+.+..+++.+++
T Consensus        64 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~  142 (177)
T 1wms_A           64 AGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWC  142 (177)
T ss_dssp             CCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHH
T ss_pred             CCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHH
Confidence            99999999999999999999999999999999999999998876543    568999999999997 4567778888888


Q ss_pred             H-hcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         239 K-SIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       239 ~-~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      . ..+++++++||++|.|++++|++|.+.+..
T Consensus       143 ~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (177)
T 1wms_A          143 RDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  174 (177)
T ss_dssp             HHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HhcCCceEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            8 567899999999999999999999988754

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.94  E-value=5.4e-26  Score=212.39  Aligned_cols=152  Identities=28%  Similarity=0.530  Sum_probs=136.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.+|||+|++++..++..+++++|++++|||++++.++
T Consensus        12 ~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   90 (167)
T 1c1y_A           12 GGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTF   90 (167)
T ss_dssp             TTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            99999999999999988888889988765 45667788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhc-CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSI-GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~-g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+.... ...+|+++|+||+|+..++.+..+++..+++.+ +++++++||++|.|++++|++|.+.+
T Consensus        91 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  165 (167)
T 1c1y_A           91 NDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             HTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHH
Confidence            99999998887653 346899999999999877778888888999887 78999999999999999999998876

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.94  E-value=5.1e-26  Score=212.83  Aligned_cols=162  Identities=25%  Similarity=0.315  Sum_probs=122.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++..+ ....++.+.++ ...+.+++..+.+.+|||+
T Consensus         2 ~~ki~~vG~----------------------~~~GKSsli~~l~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~   57 (166)
T 3q72_A            2 VYKVLLLGA----------------------PGVGKSALARIFGGVED-GPEAEAAGHTY-DRSIVVDGEEASLMVYDIW   57 (166)
T ss_dssp             CCEEEEEES----------------------TTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC
T ss_pred             eEEEEEECC----------------------CCCCHHHHHHHHcCccc-cCCCCccccce-EEEEEECCEEEEEEEEECC
Confidence            368888888                      99999999999997764 35567777765 5667788999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      |++++..++..+++.+|++++|||++++.+|+.+..|+..+.... ..++|++||+||+|+..++.+..+++..++..++
T Consensus        58 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~  137 (166)
T 3q72_A           58 EQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFD  137 (166)
T ss_dssp             ---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTT
T ss_pred             CCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999987753 3468999999999998888888999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++++++||++|.|++++|++|.+.+..
T Consensus       138 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~  164 (166)
T 3q72_A          138 CKFIETSAALHHNVQALFEGVVRQIRL  164 (166)
T ss_dssp             CEEEECBGGGTBSHHHHHHHHHHHHHH
T ss_pred             CcEEEeccCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999988754

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.94  E-value=7.8e-26  Score=218.15  Aligned_cols=164  Identities=26%  Similarity=0.504  Sum_probs=147.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+|++.++. ..+.+++..+.+.+||
T Consensus        21 ~~~~ki~~vG~----------------------~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~D   77 (194)
T 3reg_A           21 KKALKIVVVGD----------------------GAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWD   77 (194)
T ss_dssp             CEEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEE
T ss_pred             ceeeEEEEECc----------------------CCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEE
Confidence            45689999999                      999999999999999988888999988765 4667888999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCc--cccCHHHHHHHH
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESS--REVNREEAFHYS  238 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~--~~v~~~e~~~~~  238 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+ ..|+..+..... .+|++||+||+|+..+  +.+..+++..++
T Consensus        78 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~  156 (194)
T 3reg_A           78 TAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID-TAKTVLVGLKVDLRKDGSDDVTKQEGDDLC  156 (194)
T ss_dssp             ECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TSEEEEEEECGGGCCTTTTCCCHHHHHHHH
T ss_pred             CCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhccCCCCcccHHHHHHHH
Confidence            999999999999999999999999999999999997 679888877654 4799999999999753  667888899999


Q ss_pred             HhcCCe-EEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         239 KSIGGT-YYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       239 ~~~g~~-~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+++. ++++||++|.||+++|++|.+.+..
T Consensus       157 ~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  188 (194)
T 3reg_A          157 QKLGCVAYIEASSVAKIGLNEVFEKSVDCIFS  188 (194)
T ss_dssp             HHHTCSCEEECBTTTTBSHHHHHHHHHHHHHC
T ss_pred             HhcCCCEEEEeecCCCCCHHHHHHHHHHHHHh
Confidence            999997 9999999999999999999998764

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.94  E-value=5.6e-26  Score=211.99  Aligned_cols=153  Identities=31%  Similarity=0.526  Sum_probs=135.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+|||+|++++..++..+++++|++++|||++++.++
T Consensus        13 ~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   91 (168)
T 1u8z_A           13 GGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF   91 (168)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHH
Confidence            99999999999999988888888888764 45567788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+..|+..+..... ..+|+++|+||+|+...+++..+++..++..++++++++||++|.|++++|++|.+.+.
T Consensus        92 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (168)
T 1u8z_A           92 AATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR  166 (168)
T ss_dssp             HHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHH
Confidence            999999999877654 46899999999999877778888899999999999999999999999999999998774

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=7.1e-26  Score=218.24  Aligned_cols=164  Identities=28%  Similarity=0.514  Sum_probs=145.9

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.+|
T Consensus        15 ~~~~~ki~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   71 (194)
T 2atx_A           15 GALMLKCVVVGD----------------------GAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLY   71 (194)
T ss_dssp             EEEEEEEEEEEC----------------------TTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEE
T ss_pred             CCceEEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEE
Confidence            345689999999                      99999999999999988888889988775 4566777888999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------c
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------R  227 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~  227 (617)
                      ||+|++++..++..+++++|++|+|||++++.+|..+. .|+..+....+ ++|++||+||+|+...            +
T Consensus        72 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~  150 (194)
T 2atx_A           72 DTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP-NVPFLLIGTQIDLRDDPKTLARLNDMKEK  150 (194)
T ss_dssp             CCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECTTSTTCHHHHHHHTTTTCC
T ss_pred             ECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhcccccchhhcccccCc
Confidence            99999999999999999999999999999999999997 79999888654 5799999999999753            4


Q ss_pred             ccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         228 EVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       228 ~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      .+..+++..+++.+++ +++++||++|.||+++|++|.+.+.
T Consensus       151 ~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          151 PICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             CCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            6778888999999998 9999999999999999999998764

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.94  E-value=2e-26  Score=226.29  Aligned_cols=169  Identities=36%  Similarity=0.586  Sum_probs=150.8

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCe-------
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN-------  153 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~-------  153 (617)
                      ....+||+|+|+                      +|||||||+++|++..+...+.+|++.++..+.+.+++.       
T Consensus        22 ~~~~~ki~vvG~----------------------~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~   79 (217)
T 2f7s_A           22 YDYLIKLLALGD----------------------SGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSG   79 (217)
T ss_dssp             CSEEEEEEEESC----------------------TTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------C
T ss_pred             cceeEEEEEECc----------------------CCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCcccccccc
Confidence            345689999999                      999999999999999888888899998888777777665       


Q ss_pred             ---EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCcccc
Q psy3029         154 ---KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREV  229 (617)
Q Consensus       154 ---~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v  229 (617)
                         .+.+.||||+|++++..++..+++++|++|+|||++++.++..+..|+..+..... ..+|++||+||+|+..++.+
T Consensus        80 ~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v  159 (217)
T 2f7s_A           80 KAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREV  159 (217)
T ss_dssp             CEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCS
T ss_pred             CceeEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCcccccccc
Confidence               78999999999999999999999999999999999999999999999988766543 56899999999999877778


Q ss_pred             CHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         230 NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       230 ~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ..+++..++..++++++++||+++.||+++|++|.+.+....
T Consensus       160 ~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  201 (217)
T 2f7s_A          160 NERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM  201 (217)
T ss_dssp             CHHHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHCCCcEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            888899999999999999999999999999999999887654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.94  E-value=7.9e-27  Score=226.57  Aligned_cols=170  Identities=25%  Similarity=0.425  Sum_probs=113.9

Q ss_pred             ccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC--CCCCccCCCcceeEEEEEEEECCe--EE
Q psy3029          80 LVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK--MFSHHISPTIGASFFTAKINVGEN--KV  155 (617)
Q Consensus        80 ~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~--~~~~~~~~t~g~~~~~~~i~~~~~--~~  155 (617)
                      +....+||+++|+                      +|||||||+++|++.  .+...+.+|++.++....+.+++.  .+
T Consensus        16 ~~~~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~   73 (208)
T 2yc2_C           16 TATLRCKVAVVGE----------------------ATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSV   73 (208)
T ss_dssp             SEEEEEEEEEC--------------------------------------------------------CEEEECTTSSEEE
T ss_pred             ccccceEEEEECC----------------------CCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEE
Confidence            4456789999999                      999999999999998  777788899998888888888876  89


Q ss_pred             EEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC---CCCeEEEEEECCCCCC-ccccCH
Q psy3029         156 KLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD---EPLVLCVVGNKTDLES-SREVNR  231 (617)
Q Consensus       156 ~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~---~~iPvIlVgNK~DL~~-~~~v~~  231 (617)
                      .+.||||+|++++..++..+++++|++|+|||++++.+|..+..|+..+.....   ..+|++||+||+|+.. .+.+..
T Consensus        74 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~  153 (208)
T 2yc2_C           74 ELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRL  153 (208)
T ss_dssp             EEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCH
T ss_pred             EEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCH
Confidence            999999999999999999999999999999999999999999999999988765   5689999999999987 677888


Q ss_pred             HHHHHHHHhcCCeEEEEcCCC-CCCHHHHHHHHHHHHHHhh
Q psy3029         232 EEAFHYSKSIGGTYYETSALQ-DQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       232 ~e~~~~~~~~g~~~~evSAkt-g~gI~eLf~~I~~~l~~~~  271 (617)
                      +++..+++.++++++++||++ |.||+++|++|.+.+....
T Consensus       154 ~~~~~~~~~~~~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~~  194 (208)
T 2yc2_C          154 DMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNY  194 (208)
T ss_dssp             HHHHHHHHHTTCEEEECCC-------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCEEEEeccCCCCcCHHHHHHHHHHHHHHHH
Confidence            889999999999999999999 9999999999999886554

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.94  E-value=5.4e-26  Score=211.86  Aligned_cols=153  Identities=31%  Similarity=0.519  Sum_probs=137.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.++.+.. ....+.+++..+.+.+|||+|++++..++..+++++|++++|||++++.++
T Consensus        12 ~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   90 (167)
T 1kao_A           12 GGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSF   90 (167)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHcCCCcccCCCCccee-EEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHH
Confidence            9999999999999998888888888755 466777888899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+..|+..+..... ..+|+++|+||+|+..++++..+++..++..++++++++||++|.|++++|++|.+.+.
T Consensus        91 ~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  165 (167)
T 1kao_A           91 QDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHHHHHh
Confidence            999999988876543 46899999999999877778888888999999999999999999999999999988764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=8.5e-26  Score=218.41  Aligned_cols=167  Identities=28%  Similarity=0.466  Sum_probs=147.0

Q ss_pred             ccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          80 LVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        80 ~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      .....+||+++|+                      +|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.+
T Consensus        24 ~~~~~~ki~v~G~----------------------~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l   80 (196)
T 2atv_A           24 AKSAEVKLAIFGR----------------------AGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEI   80 (196)
T ss_dssp             ---CCEEEEEECC----------------------TTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEE
T ss_pred             CCCCceEEEEECC----------------------CCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEE
Confidence            3456689999999                      99999999999999998888889988764 556778888999999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      |||+|+++ ..++..+++++|++|+|||++++.+|+.+..|+..+.... ...+|++||+||+|+...+.+..+++..++
T Consensus        81 ~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~  159 (196)
T 2atv_A           81 LDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLA  159 (196)
T ss_dssp             EECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHH
T ss_pred             EECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHH
Confidence            99999988 7788899999999999999999999999999999887753 346899999999999877778888899999


Q ss_pred             HhcCCeEEEEcCCCCC-CHHHHHHHHHHHHHHh
Q psy3029         239 KSIGGTYYETSALQDQ-GIEDVFLNVSKGLICL  270 (617)
Q Consensus       239 ~~~g~~~~evSAktg~-gI~eLf~~I~~~l~~~  270 (617)
                      +.++++++++||++|. ||+++|++|.+.+.+.
T Consensus       160 ~~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~  192 (196)
T 2atv_A          160 TELACAFYECSACTGEGNITEIFYELCREVRRR  192 (196)
T ss_dssp             HHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCCeEEEECCCcCCcCHHHHHHHHHHHHHhh
Confidence            9999999999999999 9999999999988654

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=1e-25  Score=221.98  Aligned_cols=164  Identities=21%  Similarity=0.314  Sum_probs=139.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC--CCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF--SHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~--~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ..+||+|+|+                      +|||||||+++|++...  ... .+++|.+++.+.+.+++..+.+.+|
T Consensus        36 ~~~kVvlvG~----------------------~~vGKSSLl~r~~~~~~~~~~~-~~~~g~d~~~~~i~~~~~~~~l~~~   92 (211)
T 2g3y_A           36 TYYRVVLIGE----------------------QGVGKSTLANIFAGVHDSMDSD-CEVLGEDTYERTLMVDGESATIILL   92 (211)
T ss_dssp             CEEEEEEECC----------------------TTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEE
T ss_pred             CceEEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCc-CCccceeeEEEEEEECCeeeEEEEe
Confidence            4579999999                      99999999999996432  333 3567888888888899999999999


Q ss_pred             ecCCccc-ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         161 DTAGQER-FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       161 Dt~G~e~-~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      ||+|.+. +..+...|++.+|++|+|||++++.+|+.+..|+..+.+.. ..++|+|||+||+||...+.+..+++..++
T Consensus        93 Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a  172 (211)
T 2g3y_A           93 DMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACA  172 (211)
T ss_dssp             CCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHH
T ss_pred             ecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHH
Confidence            9999876 45566778889999999999999999999999998887642 245899999999999877778888888889


Q ss_pred             HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         239 KSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       239 ~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..++++|++|||++|.||+++|++|++.+..
T Consensus       173 ~~~~~~~~e~SAk~g~~v~elf~~l~~~i~~  203 (211)
T 2g3y_A          173 VVFDCKFIETSAAVQHNVKELFEGIVRQVRL  203 (211)
T ss_dssp             HHHTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHcCCEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            8999999999999999999999999998754

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.94  E-value=1.7e-25  Score=216.90  Aligned_cols=167  Identities=32%  Similarity=0.493  Sum_probs=138.8

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.+|
T Consensus        17 ~~~~~ki~~~G~----------------------~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   73 (201)
T 2q3h_A           17 EGRGVKCVLVGD----------------------GAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLC   73 (201)
T ss_dssp             ---CEEEEEECS----------------------TTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEE
T ss_pred             CCcceEEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEE
Confidence            345689999999                      99999999999999988888889988664 5567778888999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCC------------cc
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLES------------SR  227 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~------------~~  227 (617)
                      ||+|+++|..++..++.++|++|+|||++++.+|..+. .|+..+....+ .+|++||+||+|+..            .+
T Consensus        74 Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~  152 (201)
T 2q3h_A           74 DTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLREDVKVLIELDKCKEK  152 (201)
T ss_dssp             ECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCS-SSCEEEEEECGGGGGCHHHHHHHHTTTCC
T ss_pred             ECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEECHhhhhchhhhhhhcccccc
Confidence            99999999999999999999999999999999999997 79998887664 589999999999965            25


Q ss_pred             ccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         228 EVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       228 ~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      .+..+++..++..+++ ++++|||++|.||+++|++|.+.+....
T Consensus       153 ~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  197 (201)
T 2q3h_A          153 PVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYS  197 (201)
T ss_dssp             CCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHhccc
Confidence            5677888899999898 9999999999999999999999886543

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.94  E-value=1.7e-25  Score=213.01  Aligned_cols=166  Identities=30%  Similarity=0.490  Sum_probs=147.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.||||
T Consensus        17 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt   73 (187)
T 2a9k_A           17 ALHKVIMVGS----------------------GGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDT   73 (187)
T ss_dssp             CEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEEC
T ss_pred             CceEEEEECC----------------------CCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEEC
Confidence            3478888888                      99999999999999988888888888764 455677888899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+..... ..+|++||+||+|+...+.+..+++..+++.+
T Consensus        74 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~  153 (187)
T 2a9k_A           74 AGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQW  153 (187)
T ss_dssp             CCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHT
T ss_pred             CCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999877654 36899999999999877778888899999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||+++.||+++|++|.+.+....
T Consensus       154 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          154 NVNYVETSAKTRANVDKVFFDLMREIRARK  183 (187)
T ss_dssp             TCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEeCCCCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999886543

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.94  E-value=2.7e-25  Score=215.66  Aligned_cols=166  Identities=30%  Similarity=0.490  Sum_probs=149.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+|+|+                      +|||||||+++|++..+...+.+|.+..+ ...+.+++..+.+.||||
T Consensus        13 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt   69 (206)
T 2bov_A           13 ALHKVIMVGS----------------------GGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDT   69 (206)
T ss_dssp             CEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEEC
T ss_pred             ceEEEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcC
Confidence            4579999999                      99999999999999988888888888765 456677888899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|++++..++..+++.+|++|+|||++++.+|..+..|+..+..... ..+|++||+||+|+...+++..+++..++..+
T Consensus        70 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~  149 (206)
T 2bov_A           70 AGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQW  149 (206)
T ss_dssp             CCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHH
T ss_pred             CChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999887653 46899999999999877778888899999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||++|.||+++|++|.+.+....
T Consensus       150 ~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  179 (206)
T 2bov_A          150 NVNYVETSAKTRANVDKVFFDLMREIRARK  179 (206)
T ss_dssp             TCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHcc
Confidence            999999999999999999999999887653

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.94  E-value=7.8e-26  Score=216.48  Aligned_cols=163  Identities=26%  Similarity=0.538  Sum_probs=143.2

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|++..+...+.+|++..+ ...+.+++..+.+.+||
T Consensus         5 ~~~~ki~v~G~----------------------~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D   61 (184)
T 1m7b_A            5 NVKCKIVVVGD----------------------SQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWD   61 (184)
T ss_dssp             -CEEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEE
T ss_pred             ceEEEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEE
Confidence            34578999999                      99999999999999998888889998775 45667788889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCc------------cc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESS------------RE  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~  228 (617)
                      |+|+++|..++..+++++|++|+|||++++.+|..+ ..|+..+....+ .+|++||+||+|+..+            +.
T Consensus        62 t~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  140 (184)
T 1m7b_A           62 TSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTP  140 (184)
T ss_dssp             ECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCC
T ss_pred             CCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEEcchhhcchhhHhhhhhcccCC
Confidence            999999999999999999999999999999999998 689988877654 4799999999999642            55


Q ss_pred             cCHHHHHHHHHhcC-CeEEEEcCC-CCCCHHHHHHHHHHHHH
Q psy3029         229 VNREEAFHYSKSIG-GTYYETSAL-QDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       229 v~~~e~~~~~~~~g-~~~~evSAk-tg~gI~eLf~~I~~~l~  268 (617)
                      +..+++..+++.++ +++++|||+ ++.||+++|+.|.+.+.
T Consensus       141 v~~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l  182 (184)
T 1m7b_A          141 VSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV  182 (184)
T ss_dssp             CCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHHh
Confidence            77888889999888 699999999 68999999999998775

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.94  E-value=1.9e-25  Score=217.13  Aligned_cols=166  Identities=37%  Similarity=0.642  Sum_probs=148.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+|+|+                      +|||||||+++|++..+...+.++++.++....+.+++..+.+.||||
T Consensus         7 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt   64 (207)
T 1vg8_A            7 VLLKVIILGD----------------------SGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDT   64 (207)
T ss_dssp             CEEEEEEECC----------------------TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEE
T ss_pred             cceEEEEECc----------------------CCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeC
Confidence            4578999999                      999999999999999988889999999988888888888899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC----CCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~----~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      +|++++..++..+++++|++|+|||++++.++..+..|+..+.....    ..+|++||+||+|+. .+.+..+++..++
T Consensus        65 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~  143 (207)
T 1vg8_A           65 AGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWC  143 (207)
T ss_dssp             CSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHH
T ss_pred             CCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHH
Confidence            99999999999999999999999999999999999999998876542    357999999999997 4556777788888


Q ss_pred             H-hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         239 K-SIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       239 ~-~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      . ..+++++++||++|.||+++|++|.+.+....
T Consensus       144 ~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  177 (207)
T 1vg8_A          144 YSKNNIPYFETSAKEAINVEQAFQTIARNALKQE  177 (207)
T ss_dssp             HHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HhcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            7 67789999999999999999999999887654

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.94  E-value=8.2e-26  Score=221.12  Aligned_cols=166  Identities=31%  Similarity=0.523  Sum_probs=144.3

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.+|
T Consensus         6 ~~~~~ki~i~G~----------------------~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   62 (212)
T 2j0v_A            6 VSKFIKCVTVGD----------------------GAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLW   62 (212)
T ss_dssp             CCCEEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEE
T ss_pred             cCceEEEEEECC----------------------CCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEE
Confidence            345689999999                      99999999999999998888889998765 4566778888999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccc--------cCH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSRE--------VNR  231 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--------v~~  231 (617)
                      ||+|+++|..++..+++++|++|+|||++++.+|..+. .|+..+....+ .+|++||+||+|+..++.        +..
T Consensus        63 Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~v~~  141 (212)
T 2j0v_A           63 DTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRDDKGYLADHTNVITS  141 (212)
T ss_dssp             CCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHTCSSCCCH
T ss_pred             ECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEeCHHhhhCccccccccCCCCH
Confidence            99999999999999999999999999999999999986 79999887654 579999999999966543        367


Q ss_pred             HHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         232 EEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       232 ~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +++..++..+++ +++++||++|.||+++|++|++.+...
T Consensus       142 ~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          142 TQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             HHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhh
Confidence            788889999996 999999999999999999999888643

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.94  E-value=1e-25  Score=213.61  Aligned_cols=167  Identities=35%  Similarity=0.603  Sum_probs=133.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVW  160 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~  160 (617)
                      ...++|+++|.                      +|||||||+++|++..+...+.++++.++....+.++ +..+.+.+|
T Consensus         6 ~~~~~i~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   63 (182)
T 1ky3_A            6 KNILKVIILGD----------------------SGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVW   63 (182)
T ss_dssp             -CEEEEEEECC----------------------TTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEE
T ss_pred             CceEEEEEECC----------------------CCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEE
Confidence            34578999999                      9999999999999999888888999998888888776 556899999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC----CCCeEEEEEECCCCCC-ccccCHHHHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLES-SREVNREEAF  235 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~----~~iPvIlVgNK~DL~~-~~~v~~~e~~  235 (617)
                      ||+|++++..++..+++++|++|+|||++++.++..+..|+..+.....    ..+|++||+||+|+.. .+.+..+++.
T Consensus        64 Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~  143 (182)
T 1ky3_A           64 DTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQ  143 (182)
T ss_dssp             CCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHH
T ss_pred             ECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHH
Confidence            9999999999999999999999999999999999999999998876542    5689999999999953 3456777888


Q ss_pred             HHHH-hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         236 HYSK-SIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       236 ~~~~-~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      .++. ..+++++++||++|.||+++|++|.+.+...
T Consensus       144 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          144 ELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ  179 (182)
T ss_dssp             HHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCeEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            8887 5667999999999999999999999988654

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.94  E-value=1e-25  Score=220.43  Aligned_cols=164  Identities=26%  Similarity=0.532  Sum_probs=144.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|++..+...+.+|++.++ .+.+.+++..+.+.|||
T Consensus        26 ~~~~ki~vvG~----------------------~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D   82 (205)
T 1gwn_A           26 NVKCKIVVVGD----------------------SQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWD   82 (205)
T ss_dssp             -CEEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEE
T ss_pred             ceeeEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEe
Confidence            45689999999                      99999999999999998888889998775 45667788889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCc------------cc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESS------------RE  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~  228 (617)
                      |+|+++|..++..+++++|++|+|||++++.+|..+ ..|+..+....+ .+|++||+||+|+..+            +.
T Consensus        83 t~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  161 (205)
T 1gwn_A           83 TSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP-NTKMLLVGCKSDLRTDVSTLVELSNHRQTP  161 (205)
T ss_dssp             ECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCEEEEEEECGGGGGCHHHHHHHHTTTCCC
T ss_pred             CCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCC-CCCEEEEEechhhccchhhhhhhcccccCC
Confidence            999999999999999999999999999999999998 689998887654 4799999999999642            45


Q ss_pred             cCHHHHHHHHHhcC-CeEEEEcCC-CCCCHHHHHHHHHHHHHH
Q psy3029         229 VNREEAFHYSKSIG-GTYYETSAL-QDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       229 v~~~e~~~~~~~~g-~~~~evSAk-tg~gI~eLf~~I~~~l~~  269 (617)
                      +..+++..+++.++ +++++|||+ ++.||+++|+.|++.+..
T Consensus       162 v~~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          162 VSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             CCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            77888889999888 699999999 689999999999987754

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.93  E-value=3.1e-25  Score=215.69  Aligned_cols=165  Identities=28%  Similarity=0.519  Sum_probs=145.8

Q ss_pred             ccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          80 LVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        80 ~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      ++...+||+++|+                      +|||||||+++|+++.+...+.++++.++.. .+.+++..+.+.+
T Consensus        21 m~~~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~l~i   77 (201)
T 2gco_A           21 MAAIRKKLVIVGD----------------------GACGKTCLLIVFSKDQFPEVYVPTVFENYIA-DIEVDGKQVELAL   77 (201)
T ss_dssp             -CCEEEEEEEEES----------------------TTSSHHHHHHHHHHSSCCSSCCCSSCCCCEE-EEEETTEEEEEEE
T ss_pred             CcccceEEEEECC----------------------CCCCHHHHHHHHHhCcCCcccCCcccceEEE-EEEECCEEEEEEE
Confidence            4566789999999                      9999999999999999888888999887653 4677888899999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCc------------
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESS------------  226 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------  226 (617)
                      |||+|++++..++..+++++|++|+|||++++.+|..+ ..|+..+....+ .+|++||+||+|+...            
T Consensus        78 ~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~  156 (201)
T 2gco_A           78 WDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-NVPIILVGNKKDLRQDEHTRRELAKMKQ  156 (201)
T ss_dssp             ECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGTTCHHHHHHHHTTTC
T ss_pred             EECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEecHHhhcCccchhhhccccc
Confidence            99999999999999999999999999999999999998 678888877654 4799999999999765            


Q ss_pred             cccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         227 REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       227 ~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+..+++..++..+++ +++++||++|.||+++|++|.+.+.
T Consensus       157 ~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          157 EPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             CCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            45677888899999998 8999999999999999999998764

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.93  E-value=2.6e-25  Score=211.72  Aligned_cols=162  Identities=28%  Similarity=0.565  Sum_probs=142.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.+|||
T Consensus         4 ~~~~i~~~G~----------------------~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt   60 (186)
T 1mh1_A            4 QAIKCVVVGD----------------------GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDT   60 (186)
T ss_dssp             EEEEEEEECS----------------------TTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECC
T ss_pred             cEEEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEEC
Confidence            3468888888                      99999999999999988888888887664 556678889999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------ccc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------REV  229 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v  229 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+. .|+..+....+ .+|++||+||+|+...            +.+
T Consensus        61 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  139 (186)
T 1mh1_A           61 AGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTPI  139 (186)
T ss_dssp             CCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST-TSCEEEEEECHHHHTCHHHHHHHHHTTCCCC
T ss_pred             CCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCC-CCCEEEEeEcccccccchhhhhhcccccccC
Confidence            999999999999999999999999999999999987 79988887655 5799999999998653            456


Q ss_pred             CHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         230 NREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       230 ~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+++..+++.+++ +++++||++|.||+++|++|.+.+.
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  179 (186)
T 1mh1_A          140 TYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (186)
T ss_dssp             CHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHh
Confidence            77888889999997 9999999999999999999998774

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.93  E-value=1.4e-25  Score=220.39  Aligned_cols=167  Identities=28%  Similarity=0.452  Sum_probs=146.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC-eEEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQVW  160 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~-~~~~l~i~  160 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.++.+.++....+...+ ..+.+.+|
T Consensus         9 ~~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~   66 (218)
T 4djt_A            9 ELTYKICLIGD----------------------GGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVW   66 (218)
T ss_dssp             -CEEEEEEECC----------------------TTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEE
T ss_pred             cCccEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEE
Confidence            35689999999                      99999999999999988888889999887776665544 44899999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      ||+|++++..++..++.++|++|+|||++++.++..+..|+..+.......+|++||+||+|+...+.+..+++..++..
T Consensus        67 Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  146 (218)
T 4djt_A           67 DTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKG  146 (218)
T ss_dssp             EECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTT
T ss_pred             ecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999887766689999999999987778888888899999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      .+++++++||++|.||+++|++|.+.+...
T Consensus       147 ~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~  176 (218)
T 4djt_A          147 KNYEYFEISAKTAHNFGLPFLHLARIFTGR  176 (218)
T ss_dssp             CCCEEEEEBTTTTBTTTHHHHHHHHHHHCC
T ss_pred             cCCcEEEEecCCCCCHHHHHHHHHHHHhcc
Confidence            999999999999999999999999988654

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.93  E-value=9.1e-25  Score=208.51  Aligned_cols=165  Identities=30%  Similarity=0.498  Sum_probs=143.1

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.++.+. .....+.+++..+.+.+|||
T Consensus         3 ~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt   59 (189)
T 4dsu_A            3 TEYKLVVVGA----------------------DGVGKSALTIQLIQNHFVDEYDPTIED-SYRKQVVIDGETCLLDILDT   59 (189)
T ss_dssp             EEEEEEEECC----------------------TTSSHHHHHHHHHHSSCCCCCCTTCCE-EEEEEEEETTEEEEEEEEEC
T ss_pred             cEEEEEEECC----------------------CCCCHHHHHHHHHhCCCCCCCCCCchh-eEEEEEEECCcEEEEEEEEC
Confidence            4578999998                      999999999999999888888888754 45567778889999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|++++..++..+++.+|++++|||++++.+|..+..|+..+.... ...+|++||+||+|+.. +.+..+++..++..+
T Consensus        60 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~  138 (189)
T 4dsu_A           60 AGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSY  138 (189)
T ss_dssp             CCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999987754 34689999999999964 556778888999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++++||++|.|++++|++|.+.+....
T Consensus       139 ~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  168 (189)
T 4dsu_A          139 GIPFIETSAKTRQGVDDAFYTLVREIRKHK  168 (189)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999999999887654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.93  E-value=2e-25  Score=209.27  Aligned_cols=162  Identities=27%  Similarity=0.434  Sum_probs=141.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +.+||+++|+                      +|||||||+++|+++.+...+.++.+.++ ...+..++..+.+.+|||
T Consensus         2 ~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~~Dt   58 (172)
T 2erx_A            2 NDYRVAVFGA----------------------GGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDT   58 (172)
T ss_dssp             CEEEEEEECC----------------------TTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEEC
T ss_pred             CceEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEEC
Confidence            3578899998                      99999999999999988778888888664 445667888899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      +|++++..++..+++.+|++|+|||++++.+++.+..|+..+.+...  ..+|++||+||+|+...+++..++...++..
T Consensus        59 ~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~  138 (172)
T 2erx_A           59 TGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALART  138 (172)
T ss_dssp             CSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHH
T ss_pred             CCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999888776532  3579999999999987777888888889999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++++++++||++|.|++++|++|.+.+
T Consensus       139 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (172)
T 2erx_A          139 WKCAFMETSAKLNHNVKELFQELLNLE  165 (172)
T ss_dssp             HTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             hCCeEEEecCCCCcCHHHHHHHHHHHH
Confidence            999999999999999999999998754

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.93  E-value=5.5e-26  Score=215.89  Aligned_cols=163  Identities=29%  Similarity=0.530  Sum_probs=126.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+|++..+. ..+.+++..+.+.+||
T Consensus         6 ~~~~ki~v~G~----------------------~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~D   62 (182)
T 3bwd_D            6 SRFIKCVTVGD----------------------GAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWD   62 (182)
T ss_dssp             -CCCEEEEECS----------------------TTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEEC
T ss_pred             CceEEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEE
Confidence            44578889988                      999999999999998888888888876543 3344566778899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccc----------cC
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSRE----------VN  230 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~----------v~  230 (617)
                      |+|++++..++..+++++|++|+|||++++.+|+.+. .|+..+....+ .+|++||+||+|+...+.          +.
T Consensus        63 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~v~  141 (182)
T 3bwd_D           63 TAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDLRDDKQFFIDHPGAVPIT  141 (182)
T ss_dssp             CCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TCCEEEEEECHHHHTCHHHHHHC--CCCCC
T ss_pred             CCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEechhhhcCcccccccccCCCCC
Confidence            9999999999999999999999999999999999997 69998887654 579999999999966544          36


Q ss_pred             HHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         231 REEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       231 ~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      .+++..+++.+++ +++++||++|.||+++|++|.+.+.
T Consensus       142 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          142 TVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             HHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            7788889999997 9999999999999999999988763

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.93  E-value=7.6e-25  Score=213.91  Aligned_cols=166  Identities=27%  Similarity=0.486  Sum_probs=139.2

Q ss_pred             ccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          80 LVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        80 ~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      +...++||+++|+                      +|||||||+++|+++.+...+.++++.++.. .+.+++..+.+.|
T Consensus        21 ~~~~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i   77 (207)
T 2fv8_A           21 QSMIRKKLVVVGD----------------------GACGKTCLLIVFSKDEFPEVYVPTVFENYVA-DIEVDGKQVELAL   77 (207)
T ss_dssp             GGSEEEEEEEEEC----------------------TTSSHHHHHHHHHHSSCC-------CCEEEE-EEEETTEEEEEEE
T ss_pred             ccccCcEEEEECc----------------------CCCCHHHHHHHHhcCCCCCcCCCcccceEEE-EEEECCEEEEEEE
Confidence            3455689999999                      9999999999999999888888888877544 4677888899999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCCCeEEEEEECCCCCCc------------
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEPLVLCVVGNKTDLESS------------  226 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------  226 (617)
                      |||+|++++..++..+++++|++|+|||++++.+|..+ ..|+..+....+ .+|++||+||+|+...            
T Consensus        78 ~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~  156 (207)
T 2fv8_A           78 WDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCP-NVPIILVANKKDLRSDEHVRTELARMKQ  156 (207)
T ss_dssp             EECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHST-TCCEEEEEECGGGGGCHHHHHHHHHTTC
T ss_pred             EECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEchhhhccccchhhhhhccc
Confidence            99999999999999999999999999999999999998 678888877653 4799999999999654            


Q ss_pred             cccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         227 REVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       227 ~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +.+..+++..++..+++ +++++||++|.||+++|++|.+.+..
T Consensus       157 ~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          157 EPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQ  200 (207)
T ss_dssp             CCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            44677788889988888 99999999999999999999988754

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.93  E-value=4.5e-25  Score=216.92  Aligned_cols=163  Identities=31%  Similarity=0.561  Sum_probs=124.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.||||
T Consensus        33 ~~~ki~vvG~----------------------~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt   89 (214)
T 2j1l_A           33 RSVKVVLVGD----------------------GGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDT   89 (214)
T ss_dssp             CEEEEEEEEC----------------------TTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC
T ss_pred             ceEEEEEECc----------------------CCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEEC
Confidence            4589999999                      99999999999999988888888887654 556778888999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCcc------------cc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSR------------EV  229 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~------------~v  229 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+. .|+..+..... .+|++||+||+|+....            .+
T Consensus        90 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v  168 (214)
T 2j1l_A           90 AGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCK-KVPIIVVGCKTDLRKDKSLVNKLRRNGLEPV  168 (214)
T ss_dssp             ---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCS-SCCEEEEEECGGGGSCHHHHHHHHHTTCCCC
T ss_pred             CCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEChhhhccchhhhhhcccccCcc
Confidence            999999999999999999999999999999999986 79998877653 47999999999997643            56


Q ss_pred             CHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         230 NREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       230 ~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+++..+++.+++ +++++||++|.||+++|++|.+.+..
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~  209 (214)
T 2j1l_A          169 TYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALS  209 (214)
T ss_dssp             CHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHH
Confidence            77788899999998 99999999999999999999988865

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.93  E-value=1.2e-24  Score=210.53  Aligned_cols=164  Identities=21%  Similarity=0.326  Sum_probs=136.4

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCC--CCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM--FSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~--~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      .+||+++|+                      +|||||||+++|++..  +... .+++|.++..+.+.+++..+.+.+||
T Consensus         6 ~~kv~lvG~----------------------~~vGKSsL~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~D   62 (192)
T 2cjw_A            6 YYRVVLIGE----------------------QGVGKSTLANIFAGVHDSMDSD-XEVLGEDTYERTLMVDGESATIILLD   62 (192)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEEC
T ss_pred             eEEEEEECC----------------------CCCCHHHHHHHHhcCcCCcCcc-ccccceeEEEEEEEECCeEEEEEEEE
Confidence            468999999                      9999999999999633  3333 34578888888888999999999999


Q ss_pred             cCCccc-ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH
Q psy3029         162 TAGQER-FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK  239 (617)
Q Consensus       162 t~G~e~-~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~  239 (617)
                      |+|.+. +..+...+++.+|++|+|||++++.+|+.+..|+..+.... ..++|++||+||+|+..++.+..+++..++.
T Consensus        63 t~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~  142 (192)
T 2cjw_A           63 MWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAV  142 (192)
T ss_dssp             CCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHH
T ss_pred             eccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHH
Confidence            999876 55677888899999999999999999999999988877653 3458999999999997777788888888888


Q ss_pred             hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         240 SIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       240 ~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      .++++|++|||++|.||+++|++|++.+...
T Consensus       143 ~~~~~~~e~SA~~g~~v~~lf~~l~~~~~~~  173 (192)
T 2cjw_A          143 VFDXKFIETSAAVQHNVKELFEGIVRQVRLR  173 (192)
T ss_dssp             HTTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HhCCceEEeccccCCCHHHHHHHHHHHHHhh
Confidence            8899999999999999999999999988543

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.93  E-value=1.8e-24  Score=201.07  Aligned_cols=152  Identities=34%  Similarity=0.559  Sum_probs=134.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++..+...+.++.+.. ....+.+++..+.+.+|||+|++++..++..++..+|++++|||++++.++
T Consensus        12 ~~~GKssl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~   90 (166)
T 2ce2_X           12 GGVGKSALTIQLIQNHFVDECDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSF   90 (166)
T ss_dssp             TTSSHHHHHHHHHHSSCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCcCccccCCccceE-EEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHH
Confidence            9999999999999998877788887755 356677788889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+..|+..+..... .++|+++|+||+|+.. +.+..+++.++++.++++++++||++|.|+++++++|.+.+.
T Consensus        91 ~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X           91 EDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             HHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            999999998877643 3589999999999876 456677888999999999999999999999999999998764

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.93  E-value=1.9e-24  Score=207.40  Aligned_cols=164  Identities=32%  Similarity=0.531  Sum_probs=134.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.++.+..+ ...+.+++..+.+.+|||
T Consensus        20 ~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt   76 (190)
T 3con_A           20 TEYKLVVVGA----------------------GGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDT   76 (190)
T ss_dssp             EEEEEEEECS----------------------TTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEEC
T ss_pred             ceeEEEEECc----------------------CCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEEC
Confidence            4578999998                      99999999999999888777888877654 456777888899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|++++..++..+++.+|++++|||++++.++..+..|+..+..... ..+|++||+||+|+.. +.+..+++.++++.+
T Consensus        77 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~  155 (190)
T 3con_A           77 AGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSY  155 (190)
T ss_dssp             CC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999998877543 4589999999999975 556778888999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +++++++||+++.|++++|++|.+.+...
T Consensus       156 ~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  184 (190)
T 3con_A          156 GIPFIETSAKTRQGVEDAFYTLVREIRQY  184 (190)
T ss_dssp             TCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999988654

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.93  E-value=1.1e-25  Score=216.15  Aligned_cols=165  Identities=16%  Similarity=0.172  Sum_probs=137.3

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCc-----------cCCCcceeEEEEEE-
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHH-----------ISPTIGASFFTAKI-  148 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~-----------~~~t~g~~~~~~~i-  148 (617)
                      ....+||+++|+                      +|||||||++.+.+ .+...           +.+|++.++..+.+ 
T Consensus        11 ~~~~~ki~vvG~----------------------~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~   67 (198)
T 3t1o_A           11 REINFKIVYYGP----------------------GLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIG   67 (198)
T ss_dssp             TEEEEEEEEECS----------------------TTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCC
T ss_pred             cccccEEEEECC----------------------CCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccc
Confidence            345689999999                      99999999966654 44444           34577766665555 


Q ss_pred             EECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCC------ChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         149 NVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDIT------QYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       149 ~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis------~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      .+++..+.+.+|||+|++++..++..+++++|++|+|||++      +..+|..+.+|+..+.. ...++|++||+||+|
T Consensus        68 ~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-~~~~~piilv~NK~D  146 (198)
T 3t1o_A           68 EVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-TLDDVPIVIQVNKRD  146 (198)
T ss_dssp             CSSSCEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-CTTSSCEEEEEECTT
T ss_pred             cccCCceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-ccCCCCEEEEEEchh
Confidence            56778899999999999999999999999999999999999      55678888889888743 234589999999999


Q ss_pred             CCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         223 LESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       223 L~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +...  +..+++.++++.+++ +++++||++|.||+++|++|.+.+....
T Consensus       147 l~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~  194 (198)
T 3t1o_A          147 LPDA--LPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARV  194 (198)
T ss_dssp             STTC--CCHHHHHHHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             cccc--cCHHHHHHHHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence            9654  677888999999999 9999999999999999999999887654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.93  E-value=4.8e-27  Score=227.96  Aligned_cols=165  Identities=34%  Similarity=0.636  Sum_probs=140.8

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.++++.++....+.+++..+.+.|||
T Consensus        31 ~~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D   88 (199)
T 3l0i_B           31 DYLFKLLLIGD----------------------SGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWD   88 (199)
T ss_dssp             SEEEEEEEECC----------------------TTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEEC
T ss_pred             CcceEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEE
Confidence            34589999999                      99999999999999998888889999998888898999999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+..|+..+.......+|++||+||+|+...+.+..+++..++..+
T Consensus        89 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~  168 (199)
T 3l0i_B           89 TAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSL  168 (199)
T ss_dssp             CTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTT
T ss_pred             CCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998877667899999999999877777666778899999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +++++++||++|.||+++|++|.+.+.
T Consensus       169 ~~~~~~vSA~~g~gv~~l~~~l~~~l~  195 (199)
T 3l0i_B          169 GIPFLETSAKNATNVEQSFMTMAAEIK  195 (199)
T ss_dssp             TCCBCCCCC---HHHHHHHHHHTTTTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999977653

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.92  E-value=6.2e-25  Score=211.91  Aligned_cols=165  Identities=19%  Similarity=0.294  Sum_probs=130.4

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCC-ccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~-~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      .....||+|+|+                      +|||||||+++|++..+.. .+.+|+|..+..  +  +...+.+.|
T Consensus        14 ~~~~~ki~v~G~----------------------~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~--~--~~~~~~~~i   67 (199)
T 4bas_A           14 SKTKLQVVMCGL----------------------DNSGKTTIINQVKPAQSSSKHITATVGYNVET--F--EKGRVAFTV   67 (199)
T ss_dssp             --CEEEEEEECC----------------------TTSCHHHHHHHHSCCC----CCCCCSSEEEEE--E--EETTEEEEE
T ss_pred             CCCCcEEEEECC----------------------CCCCHHHHHHHHhcCCCcccccccccceeEEE--E--EeCCEEEEE
Confidence            456679999999                      9999999999999999877 788999855433  3  235578999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC--------CCCeEEEEEECCCCCCccc---
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD--------EPLVLCVVGNKTDLESSRE---  228 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~--------~~iPvIlVgNK~DL~~~~~---  228 (617)
                      |||+|++++..++..+++++|++|+|||++++.+|..+..|+..+.....        ..+|++||+||+|+.....   
T Consensus        68 ~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~  147 (199)
T 4bas_A           68 FDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAE  147 (199)
T ss_dssp             EEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHH
T ss_pred             EECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHH
Confidence            99999999999999999999999999999999999999999988765421        2579999999999976532   


Q ss_pred             cCHHHHHH-HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         229 VNREEAFH-YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       229 v~~~e~~~-~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +....... +++..++++++|||++|.||+++|++|.+.+....
T Consensus       148 ~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          148 LVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             HHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             HHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            11111111 12456779999999999999999999999887653

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.92  E-value=9.1e-25  Score=213.13  Aligned_cols=162  Identities=28%  Similarity=0.557  Sum_probs=139.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.++.+.. ....+.+++..+.+.+||
T Consensus        28 ~~~~ki~vvG~----------------------~~~GKSsLi~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D   84 (204)
T 4gzl_A           28 GQAIKCVVVGD----------------------GAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWD   84 (204)
T ss_dssp             --CEEEEEEES----------------------TTSSHHHHHHHHHHSCCCC-CCCCSEEE-EEEEEECC-CEEEEEEEE
T ss_pred             CCeEEEEEECc----------------------CCCCHHHHHHHHHhCCCCCCcCCeecce-eEEEEEECCEEEEEEEEE
Confidence            34589999999                      9999999999999998888888888654 456667788889999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccc------------
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSRE------------  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~------------  228 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+. .|+..+.... .++|++||+||+|+.....            
T Consensus        85 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~  163 (204)
T 4gzl_A           85 TAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTP  163 (204)
T ss_dssp             ECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCC
T ss_pred             CCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhcccccc
Confidence            9999999999999999999999999999999999997 7998888766 4579999999999965433            


Q ss_pred             cCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         229 VNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       229 v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +..+++..+++.+++ +++++||++|.||+++|++|.+.+
T Consensus       164 v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          164 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            677788889999887 699999999999999999998743

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.92  E-value=2.7e-25  Score=219.16  Aligned_cols=164  Identities=27%  Similarity=0.517  Sum_probs=146.4

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+.+.+...+.+++|.++....+.+++..+.+.|||
T Consensus        13 ~~~~ki~v~G~----------------------~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D   70 (221)
T 3gj0_A           13 QVQFKLVLVGD----------------------GGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWD   70 (221)
T ss_dssp             CCEEEEEEEEC----------------------TTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEE
T ss_pred             ccceEEEEECC----------------------CCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEe
Confidence            45589999999                      99999999999887777788899999999999999999999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+..|+..+..... ++|++||+||+|+..... . .+...+++..
T Consensus        71 t~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~-~-~~~~~~~~~~  147 (221)
T 3gj0_A           71 TAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKV-K-AKSIVFHRKK  147 (221)
T ss_dssp             ECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHST-TCCEEEEEECTTSSSCSS-C-GGGCCHHHHH
T ss_pred             CCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECCccccccc-c-HHHHHHHHHc
Confidence            999999999999999999999999999999999999999999988764 579999999999975433 2 2455778888


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +++++++||++|.||+++|++|.+.+...
T Consensus       148 ~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~  176 (221)
T 3gj0_A          148 NLQYYDISAKSNYNFEKPFLWLARKLIGD  176 (221)
T ss_dssp             TCEEEECBGGGTBTTTHHHHHHHHHHHTC
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999988653

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.92  E-value=1.8e-24  Score=208.59  Aligned_cols=162  Identities=27%  Similarity=0.402  Sum_probs=141.4

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|+                      +|||||||+++|+++.+...+.++.+.++ ...+.+++..+.+.+|||
T Consensus         7 ~~~ki~vvG~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt   63 (199)
T 2gf0_A            7 NDYRVVVFGA----------------------GGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDT   63 (199)
T ss_dssp             CCEEEEEEEC----------------------TTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEEEEEEEEC
T ss_pred             CeeEEEEECC----------------------CCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEEEEEEEeC
Confidence            4579999999                      99999999999999988878888888664 455667888899999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      +|++++..++..++.++|++|+|||++++.++..+..|+..+.....  ..+|++||+||+|+.. +.+..+++..++..
T Consensus        64 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~  142 (199)
T 2gf0_A           64 TGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQE  142 (199)
T ss_dssp             CGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHH
T ss_pred             CChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHH
Confidence            99999999999999999999999999999999999888877766432  3579999999999965 55677888889999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++++++++||++|.||+++|++|.+.+.
T Consensus       143 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  170 (199)
T 2gf0_A          143 WKCAFMETSAKMNYNVKELFQELLTLET  170 (199)
T ss_dssp             HTCEEEECBTTTTBSHHHHHHHHHHHCS
T ss_pred             hCCeEEEEecCCCCCHHHHHHHHHHHHh
Confidence            9999999999999999999999988653

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.91  E-value=3.3e-24  Score=201.27  Aligned_cols=158  Identities=23%  Similarity=0.322  Sum_probs=126.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|+                      +|||||||+++|+++.+. .+.+|++...  ..+.++  .+.+.+|||
T Consensus         6 ~~~~i~v~G~----------------------~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~~~Dt   58 (171)
T 1upt_A            6 REMRILILGL----------------------DGAGKTTILYRLQVGEVV-TTIPTIGFNV--ETVTYK--NLKFQVWDL   58 (171)
T ss_dssp             SCEEEEEECS----------------------TTSSHHHHHHHHHHSSCC-CCCCCSSEEE--EEEEET--TEEEEEEEE
T ss_pred             CccEEEEECC----------------------CCCCHHHHHHHHhcCCCC-CcCCcCccce--EEEEEC--CEEEEEEEC
Confidence            3578888888                      999999999999988864 5678887554  344444  578999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHH-----H
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAF-----H  236 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~-----~  236 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+..|+..+.... ...+|++||+||+|+.....  .++..     .
T Consensus        59 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~  136 (171)
T 1upt_A           59 GGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLP  136 (171)
T ss_dssp             CCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGG
T ss_pred             CCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCch
Confidence            9999999999999999999999999999999999999888876542 24579999999999976432  22222     2


Q ss_pred             HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       237 ~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++...+++++++||++|.|++++|++|.+.+.+
T Consensus       137 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          137 ALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             GCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hccCCceEEEECcCCCCcCHHHHHHHHHHHHhh
Confidence            233446689999999999999999999987753

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.91  E-value=2.7e-23  Score=201.58  Aligned_cols=167  Identities=37%  Similarity=0.646  Sum_probs=148.1

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|++..+...+.+++|.++....+.+++..+.+.+||+
T Consensus         4 ~~~kv~lvG~----------------------~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt   61 (199)
T 2f9l_A            4 YLFKVVLIGD----------------------SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT   61 (199)
T ss_dssp             EEEEEEEESS----------------------TTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEEC
T ss_pred             ceEEEEEECc----------------------CCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEEC
Confidence            3478888888                      999999999999999888888899999988888999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..++..++++|+|||+++..++..+..|+..+........|+++|+||+|+...+.+..+++..++...+
T Consensus        62 ~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~  141 (199)
T 2f9l_A           62 AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNN  141 (199)
T ss_dssp             SSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTT
T ss_pred             CCchhhhhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999899988876554567999999999998767777788889999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +.++++||+++.|++++|+.|.+.+....
T Consensus       142 ~~~~d~Sal~~~~i~~l~~~l~~~~~~~~  170 (199)
T 2f9l_A          142 LSFIETSALDSTNVEEAFKNILTEIYRIV  170 (199)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999887654

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.91  E-value=1.1e-24  Score=203.23  Aligned_cols=147  Identities=21%  Similarity=0.280  Sum_probs=116.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+. .+.||++...  ..+..  ..+.+.+|||+|++++..++..+++++|++|+|||++++.+|
T Consensus         9 ~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~   83 (164)
T 1r8s_A            9 DAAGKTTILYKLKLGEIV-TTIPTIGFNV--ETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERV   83 (164)
T ss_dssp             TTSSHHHHHHHHHHHCSS-CCCCCSSCCE--EEEEC--SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHHcCCcC-cccCcCceeE--EEEEE--CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHH
Confidence            999999999999988865 4678888543  33333  457899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHH-----HHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHY-----SKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~-----~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+..|+..+.... ..++|++||+||+|+....  ..++....     +...+++++++||++|.||+++|++|.+.+.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  161 (164)
T 1r8s_A           84 NEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLR  161 (164)
T ss_dssp             HHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHHHHh
Confidence            99999998876532 2457999999999996542  22222221     2223557999999999999999999988764

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.91  E-value=7.2e-25  Score=210.05  Aligned_cols=163  Identities=20%  Similarity=0.332  Sum_probs=124.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC--CCCCccCCCcceeEEEEEEEE---CCeEEEEE
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK--MFSHHISPTIGASFFTAKINV---GENKVKLQ  158 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~--~~~~~~~~t~g~~~~~~~i~~---~~~~~~l~  158 (617)
                      ++||+++|+                      +|||||||+++|++.  .+...+.+|+|.++..+.+.+   ++..+.+.
T Consensus         2 ~~kv~ivG~----------------------~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~   59 (184)
T 2zej_A            2 RMKLMIVGN----------------------TGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLN   59 (184)
T ss_dssp             -CEEEEESC----------------------TTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEE
T ss_pred             ceEEEEECC----------------------CCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEE
Confidence            468888888                      999999999999984  455667899998887766554   33577899


Q ss_pred             EEecCCcccccccchhhhccCCEEEEEEeCCCh-hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC---HHHH
Q psy3029         159 VWDTAGQERFRSMAPMYYRNANAALLVFDITQY-HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN---REEA  234 (617)
Q Consensus       159 i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~-~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~---~~e~  234 (617)
                      +|||+|+++|..+++.++++++++++|||++++ .+|..+..|+..+....+ ++|++||+||+|+...+.+.   .+..
T Consensus        60 i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~-~~piilv~nK~Dl~~~~~~~~~~~~~~  138 (184)
T 2zej_A           60 VWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGTHLDVSDEKQRKACMSKIT  138 (184)
T ss_dssp             EEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCT-TCEEEEEEECGGGCCHHHHHHHHHHHH
T ss_pred             EEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCC-CCcEEEEEECCCcccchhhHHHHHHHH
Confidence            999999999999999999999999999999997 479999999999877653 47999999999997654432   2334


Q ss_pred             HHHHHhcCCe----EEEEcCCCCC-CHHHHHHHHHHHHHH
Q psy3029         235 FHYSKSIGGT----YYETSALQDQ-GIEDVFLNVSKGLIC  269 (617)
Q Consensus       235 ~~~~~~~g~~----~~evSAktg~-gI~eLf~~I~~~l~~  269 (617)
                      ..+++.++++    ++++||+++. ++++|++.|.+.+..
T Consensus       139 ~~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~  178 (184)
T 2zej_A          139 KELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN  178 (184)
T ss_dssp             HHTTTCTTSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcCCcchhheEEEecccCchhHHHHHHHHHHHHhc
Confidence            5666677776    9999999997 999999999887754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.91  E-value=6.8e-26  Score=247.13  Aligned_cols=213  Identities=16%  Similarity=0.191  Sum_probs=136.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc--------cccccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE--------RFRSMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e--------~~~~~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++.++ +.+.+++|.+++.....+......+.+|||+|++        ++..++..+++++|++|+|+
T Consensus        12 ~nvGKStL~n~l~~~~~-~~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vv   90 (436)
T 2hjg_A           12 PNVGKSTIFNRIAGERI-SIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMV   90 (436)
T ss_dssp             TTSSHHHHHHHHEEEEC-C-----------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCc-eeecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEE
Confidence            99999999999998774 4566788888777666666556789999999985        56667788899999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~  265 (617)
                      |++++.++.+  .|+..+.+.  .++|++||+||+|+...+.    +..+++ .+++ +++++||++|.|+++|+++|.+
T Consensus        91 D~~~~~~~~d--~~~~~~l~~--~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~  161 (436)
T 2hjg_A           91 NGREGVTAAD--EEVAKILYR--TKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAE  161 (436)
T ss_dssp             ETTTCSCHHH--HHHHHHHTT--CCSCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTHHHHHHHHHH
T ss_pred             eCCCCCCHHH--HHHHHHHHH--cCCCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCChHHHHHHHHH
Confidence            9998766543  444443332  3579999999999864321    112333 4565 7899999999999999999987


Q ss_pred             HHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeeccccccc
Q psy3029         266 GLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTS  345 (617)
Q Consensus       266 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKss  345 (617)
                      .+....   .               .                 ......++++++|++                +|||||
T Consensus       162 ~l~~~~---~---------------~-----------------~~~~~~~ki~lvG~~----------------nvGKSS  190 (436)
T 2hjg_A          162 HFKNIP---E---------------T-----------------KYNEEVIQFCLIGRP----------------NVGKSS  190 (436)
T ss_dssp             TGGGCC---S---------------S-----------------CCCTTCEEEEEECST----------------TSSHHH
T ss_pred             hcCccc---c---------------c-----------------cccccCcEEEEEcCC----------------CCCHHH
Confidence            552100   0               0                 001124678888888                999999


Q ss_pred             ceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         346 MVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       346 i~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      +++++++..+. ....++++.++..+.+.++++.+.|--++|+.
T Consensus       191 Lin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~~l~DT~G~~  234 (436)
T 2hjg_A          191 LVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMR  234 (436)
T ss_dssp             HHHHHHTSTTEEEC---------CCEEEEETTEEEEETTHHHHT
T ss_pred             HHHHHhCCCceeecCCCCceeeeeEEEEEECCeEEEEEECCCcC
Confidence            99999987764 44567777888888999999887766666653

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.91  E-value=8.1e-25  Score=238.83  Aligned_cols=213  Identities=16%  Similarity=0.165  Sum_probs=135.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCccee--EEEEEEEECCeEEEEEEEecCCccc---------ccccchhhhccCCEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGAS--FFTAKINVGENKVKLQVWDTAGQER---------FRSMAPMYYRNANAAL  183 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~--~~~~~i~~~~~~~~l~i~Dt~G~e~---------~~~~~~~~~~~ad~iI  183 (617)
                      ||||||||+|+|++.+. +.+.+++|++  +....+.+.+.  .+.+|||+|++.         +..+...+++++|++|
T Consensus        10 pnvGKStL~nrl~~~~~-~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il   86 (439)
T 1mky_A           10 PNVGKSTLFNKLVKKKK-AIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVL   86 (439)
T ss_dssp             TTSSHHHHHHHHHC---------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEE
T ss_pred             CCCCHHHHHHHHhCCCC-ceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEE
Confidence            99999999999998774 2334445554  33445555554  588999999764         2345677899999999


Q ss_pred             EEEeCCChhhHHH--HHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH-HHHHHhcCC-eEEEEcCCCCCCHHHH
Q psy3029         184 LVFDITQYHSFAA--IKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA-FHYSKSIGG-TYYETSALQDQGIEDV  259 (617)
Q Consensus       184 lV~Dis~~~S~~~--l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~-~~~~~~~g~-~~~evSAktg~gI~eL  259 (617)
                      +|+|++++.+..+  +.+|+..      .++|++||+||+|+...  . ..+. .+++ .+++ +++++||++|.|++++
T Consensus        87 ~V~D~~~~~~~~d~~i~~~l~~------~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g~gv~~L  156 (439)
T 1mky_A           87 FVVDGKRGITKEDESLADFLRK------STVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEHNINLDTM  156 (439)
T ss_dssp             EEEETTTCCCHHHHHHHHHHHH------HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTTTBSHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH------cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccCCCCHHHH
Confidence            9999988655432  3344432      23699999999998432  1 1223 4454 5676 7999999999999999


Q ss_pred             HHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeec
Q psy3029         260 FLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWL  339 (617)
Q Consensus       260 f~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~  339 (617)
                      +++|.+.+........               ..                +.....++++++|++                
T Consensus       157 ~~~i~~~l~~~~~~~~---------------~~----------------~~~~~~~kvaivG~~----------------  189 (439)
T 1mky_A          157 LETIIKKLEEKGLDLE---------------SK----------------PEITDAIKVAIVGRP----------------  189 (439)
T ss_dssp             HHHHHHHHHHTTCCSS---------------SC----------------CCCCSCEEEEEECST----------------
T ss_pred             HHHHHHhcccccccch---------------hc----------------cccccCceEEEECCC----------------
Confidence            9999887753210000               00                000123678888877                


Q ss_pred             ccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         340 GVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       340 ~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ++||||+++++++..+. ....|+++.++....+.++|+.+.+--++|+
T Consensus       190 gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~~~~l~Dt~G~  238 (439)
T 1mky_A          190 NVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGL  238 (439)
T ss_dssp             TSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTEEEEESSCSCC
T ss_pred             CCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCEEEEEEECCCC
Confidence            99999999999977542 3445777788878889999987665434444

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.91  E-value=6e-24  Score=206.46  Aligned_cols=155  Identities=16%  Similarity=0.185  Sum_probs=122.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +.+||+++|+                      +|||||||+++|+++.+ ..+.+|++.+.  ..+.+++  +.+.+|||
T Consensus        24 ~~~ki~lvG~----------------------~~vGKSsLi~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~l~i~Dt   76 (198)
T 1f6b_A           24 KTGKLVFLGL----------------------DNAGKTTLLHMLKDDRL-GQHVPTLHPTS--EELTIAG--MTFTTFDL   76 (198)
T ss_dssp             CCEEEEEEEE----------------------TTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEE
T ss_pred             CCcEEEEECC----------------------CCCCHHHHHHHHhcCCC-CccCCCCCcee--EEEEECC--EEEEEEEC
Confidence            4578999999                      99999999999998886 45778888764  3445555  78999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHh-
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKS-  240 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-  240 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+..|+..+.+.. ..++|++||+||+|+..  .+..+++.+++.. 
T Consensus        77 ~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~  154 (198)
T 1f6b_A           77 GGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLY  154 (198)
T ss_dssp             CC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCT
T ss_pred             CCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcc
Confidence            9999999999999999999999999999999999999999887642 24589999999999965  4566777666542 


Q ss_pred             ----------------cCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         241 ----------------IGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       241 ----------------~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                                      .++++++|||++|.||+++|++|.+.
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          155 GQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             TTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             cccccccccccccccCceEEEEEEECCCCCCHHHHHHHHHHh
Confidence                            34589999999999999999998753

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.91  E-value=1.8e-24  Score=207.82  Aligned_cols=159  Identities=23%  Similarity=0.332  Sum_probs=129.7

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+|+|+                      +|||||||+++|+++.+...+.+|++.++..  +.  ...+.+.+|
T Consensus        19 ~~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~--~~~~~~~l~   72 (188)
T 1zd9_A           19 SKEEMELTLVGL----------------------QYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--IT--KGNVTIKLW   72 (188)
T ss_dssp             CCEEEEEEEECS----------------------TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EE--ETTEEEEEE
T ss_pred             CCCccEEEEECC----------------------CCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EE--eCCEEEEEE
Confidence            345689999999                      9999999999999998887888999987643  22  245789999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH-
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS-  238 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~-  238 (617)
                      ||+|++++..++..+++++|++|+|||++++.++..+..|+..+.... ...+|++||+||+|+....  ..++..... 
T Consensus        73 Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~  150 (188)
T 1zd9_A           73 DIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMN  150 (188)
T ss_dssp             EECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTT
T ss_pred             ECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC--CHHHHHHHhC
Confidence            999999999999999999999999999999999999999998876542 2458999999999996532  222222221 


Q ss_pred             ----HhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         239 ----KSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       239 ----~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                          ...++++++|||++|.||+++|++|.+.+
T Consensus       151 ~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~  183 (188)
T 1zd9_A          151 LSAIQDREICCYSISCKEKDNIDITLQWLIQHS  183 (188)
T ss_dssp             GGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC
T ss_pred             hhhhccCCeeEEEEECCCCCCHHHHHHHHHHHH
Confidence                12345899999999999999999998765

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.91  E-value=1.6e-23  Score=201.92  Aligned_cols=155  Identities=17%  Similarity=0.242  Sum_probs=128.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++.+. .+.+|++.+  ...+.+++  +.+.+|||
T Consensus        22 ~~~ki~~vG~----------------------~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt   74 (190)
T 1m2o_B           22 KHGKLLFLGL----------------------DNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN--IKFTTFDL   74 (190)
T ss_dssp             --CEEEEEES----------------------TTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT--EEEEEEEC
T ss_pred             CccEEEEECC----------------------CCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC--EEEEEEEC
Confidence            3468999999                      999999999999998864 677888875  34455555  78999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHh-
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKS-  240 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-  240 (617)
                      +|++++..++..+++++|++|+|||++++.+|+.+..|+..+.+.. ..++|++||+||+|+..  .+..+++.+++.. 
T Consensus        75 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~  152 (190)
T 1m2o_B           75 GGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLL  152 (190)
T ss_dssp             CCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCS
T ss_pred             CCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCc
Confidence            9999999999999999999999999999999999999998886642 24589999999999965  4556666665543 


Q ss_pred             -----------cCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         241 -----------IGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       241 -----------~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                                 .++++++|||++|.||+++|++|.+.
T Consensus       153 ~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          153 NTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             SCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             cccccccccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence                       34589999999999999999998753

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.91  E-value=1.3e-23  Score=201.91  Aligned_cols=160  Identities=22%  Similarity=0.298  Sum_probs=130.1

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCC-CCCccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~-~~~~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      ....+||+++|+                      +|||||||+++|++.. +...+.+|++..  ...+.+++  +.+.+
T Consensus        18 ~~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~t~~~~--~~~~~~~~--~~~~l   71 (190)
T 2h57_A           18 GSKEVHVLCLGL----------------------DNSGKTTIINKLKPSNAQSQNILPTIGFS--IEKFKSSS--LSFTV   71 (190)
T ss_dssp             ---CEEEEEEEC----------------------TTSSHHHHHHHTSCGGGCCSSCCCCSSEE--EEEEECSS--CEEEE
T ss_pred             CCCccEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCcCCcccee--EEEEEECC--EEEEE
Confidence            345689999999                      9999999999999887 566778888743  44444443  68999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC---CCCeEEEEEECCCCCCccccCHHHHHH
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD---EPLVLCVVGNKTDLESSREVNREEAFH  236 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~---~~iPvIlVgNK~DL~~~~~v~~~e~~~  236 (617)
                      |||+|++++..++..+++++|++|+|||++++.+|..+..|+..+.....   ..+|++||+||+|+...  ...+++.+
T Consensus        72 ~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~  149 (190)
T 2h57_A           72 FDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA--VTSVKVSQ  149 (190)
T ss_dssp             EEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CCHHHHHH
T ss_pred             EECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC--CCHHHHHH
Confidence            99999999999999999999999999999999999999999988876543   46899999999999653  33455555


Q ss_pred             HHH-----hcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         237 YSK-----SIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       237 ~~~-----~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++.     ..+++++++||++|.||+++|++|.+.+.
T Consensus       150 ~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  186 (190)
T 2h57_A          150 LLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQ  186 (190)
T ss_dssp             HHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             HhChhhccCCceEEEEccCCCCcCHHHHHHHHHHHHH
Confidence            542     23568999999999999999999988764

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.91  E-value=1.3e-23  Score=201.28  Aligned_cols=158  Identities=22%  Similarity=0.294  Sum_probs=126.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|+                      +|||||||+++|+++.+. .+.+|+|.+..  .+.+++  +.+.+||
T Consensus        14 ~~~~~i~v~G~----------------------~~~GKssl~~~l~~~~~~-~~~~t~~~~~~--~~~~~~--~~~~i~D   66 (187)
T 1zj6_A           14 HQEHKVIIVGL----------------------DNAGKTTILYQFSMNEVV-HTSPTIGSNVE--EIVINN--TRFLMWD   66 (187)
T ss_dssp             TSCEEEEEEES----------------------TTSSHHHHHHHHHTTSCE-EEECCSCSSCE--EEEETT--EEEEEEE
T ss_pred             CCccEEEEECC----------------------CCCCHHHHHHHHhcCCCC-cCcCCCccceE--EEEECC--EEEEEEE
Confidence            34579999999                      999999999999988876 77788886644  334443  7899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH--
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS--  238 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~--  238 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+..|+..+.... ...+|++||+||+|+...  ...++..+..  
T Consensus        67 t~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~  144 (187)
T 1zj6_A           67 IGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKL  144 (187)
T ss_dssp             CCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTG
T ss_pred             CCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhCh
Confidence            99999999999999999999999999999999999999999887652 245799999999999653  2334443332  


Q ss_pred             ---HhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         239 ---KSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       239 ---~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                         ...+++++++||++|.||+++|++|.+.+.
T Consensus       145 ~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (187)
T 1zj6_A          145 TSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK  177 (187)
T ss_dssp             GGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHC
T ss_pred             hhhcCCCcEEEEccCCCCcCHHHHHHHHHHHHH
Confidence               234568999999999999999999998764

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.91  E-value=8.1e-24  Score=201.84  Aligned_cols=157  Identities=22%  Similarity=0.285  Sum_probs=127.1

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+++|+                      +|||||||+++|+++.+ ..+.+|+|..+..  +.+++  +.+.+|
T Consensus        18 ~~~~~~i~v~G~----------------------~~~GKSsli~~l~~~~~-~~~~~t~~~~~~~--~~~~~--~~~~i~   70 (181)
T 2h17_A           18 GSQEHKVIIVGL----------------------DNAGKTTILYQFSMNEV-VHTSPTIGSNVEE--IVINN--TRFLMW   70 (181)
T ss_dssp             ---CEEEEEEEE----------------------TTSSHHHHHHHHHTTSC-EEEECCSSSSCEE--EEETT--EEEEEE
T ss_pred             CCceeEEEEECC----------------------CCCCHHHHHHHHhcCCC-CccCCcCceeeEE--EEECC--EEEEEE
Confidence            445689999999                      99999999999999987 6777888876543  34443  789999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH-
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS-  238 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~-  238 (617)
                      ||+|++++..++..+++++|++|+|||++++.+|..+..|+..+.... ...+|++||+||+|+...  ...++..+.. 
T Consensus        71 Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~  148 (181)
T 2h17_A           71 DIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLK  148 (181)
T ss_dssp             EESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTT
T ss_pred             ECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhC
Confidence            999999999999999999999999999999999999999988876642 245899999999999653  2233343332 


Q ss_pred             ----HhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         239 ----KSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       239 ----~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                          ...+++++++||++|.||+++|++|.+.
T Consensus       149 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          149 LTSIKDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             GGGCCSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             cccccCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence                2345689999999999999999998753

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.91  E-value=2.6e-23  Score=198.66  Aligned_cols=158  Identities=19%  Similarity=0.254  Sum_probs=129.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..+||+++|+                      +|||||||+++|+++. ...+.+|++...  ..+.++  .+.+.+|||
T Consensus        17 ~~~~i~v~G~----------------------~~~GKssl~~~l~~~~-~~~~~~t~~~~~--~~~~~~--~~~~~~~Dt   69 (186)
T 1ksh_A           17 RELRLLMLGL----------------------DNAGKTTILKKFNGED-VDTISPTLGFNI--KTLEHR--GFKLNIWDV   69 (186)
T ss_dssp             CCEEEEEECS----------------------TTSSHHHHHHHHTTCC-CSSCCCCSSEEE--EEEEET--TEEEEEEEE
T ss_pred             CeeEEEEECC----------------------CCCCHHHHHHHHhcCC-CCcccccCccce--EEEEEC--CEEEEEEEC
Confidence            4578999999                      9999999999999888 677888988553  344444  478999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH---
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS---  238 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~---  238 (617)
                      +|++++..++..+++++|++|+|||++++.+|..+..|+..+.... ..++|++||+||+|+.....  .++..+..   
T Consensus        70 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~  147 (186)
T 1ksh_A           70 GGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALS--CNAIQEALELD  147 (186)
T ss_dssp             CCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGG
T ss_pred             CCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCC--HHHHHHHhChh
Confidence            9999999999999999999999999999999999999998876642 24589999999999976432  33333322   


Q ss_pred             --HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         239 --KSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       239 --~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                        ...+++++++||++|.|++++|++|.+.+.+
T Consensus       148 ~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  180 (186)
T 1ksh_A          148 SIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS  180 (186)
T ss_dssp             GCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hccCCceEEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence              1345689999999999999999999988754

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.90  E-value=6.6e-24  Score=205.02  Aligned_cols=159  Identities=20%  Similarity=0.267  Sum_probs=121.8

Q ss_pred             ccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          80 LVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        80 ~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      .....+||+++|+                      +|||||||+++|+++.+. .+.||++..  ...+..  ..+.+.+
T Consensus        25 ~~~~~~ki~v~G~----------------------~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~--~~~~~~i   77 (192)
T 2b6h_A           25 FGKKQMRILMVGL----------------------DAAGKTTILYKLKLGEIV-TTIPTIGFN--VETVEY--KNICFTV   77 (192)
T ss_dssp             TTTSCEEEEEEES----------------------TTSSHHHHHHHHCSSCCE-EEEEETTEE--EEEEEE--TTEEEEE
T ss_pred             ccCCccEEEEECC----------------------CCCCHHHHHHHHHhCCcc-ccCCcCcee--EEEEEE--CCEEEEE
Confidence            3456789999999                      999999999999988865 456777743  334444  3478999


Q ss_pred             EecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHH-
Q psy3029         160 WDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHY-  237 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~-  237 (617)
                      |||+|++++..++..+++++|++|+|||++++.+|..+..|+..+.... ..++|++||+||+|+....  ..++.... 
T Consensus        78 ~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~  155 (192)
T 2b6h_A           78 WDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKL  155 (192)
T ss_dssp             EECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHT
T ss_pred             EECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHh
Confidence            9999999999999999999999999999999999999999998876532 2458999999999996542  22222221 


Q ss_pred             ----HHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         238 ----SKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       238 ----~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                          +...++++++|||++|.||+++|++|.+.+
T Consensus       156 ~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i  189 (192)
T 2b6h_A          156 GLQHLRSRTWYVQATCATQGTGLYDGLDWLSHEL  189 (192)
T ss_dssp             TGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHT
T ss_pred             CcccccCCceEEEECcCCCcCCHHHHHHHHHHHH
Confidence                222345799999999999999999998865

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.90  E-value=8.8e-24  Score=202.69  Aligned_cols=159  Identities=22%  Similarity=0.253  Sum_probs=127.8

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+. .+.||++....  .+.++  .+.+.+||
T Consensus        20 ~~~~~i~v~G~----------------------~~~GKssli~~l~~~~~~-~~~~t~~~~~~--~~~~~--~~~~~~~D   72 (189)
T 2x77_A           20 DRKIRVLMLGL----------------------DNAGKTSILYRLHLGDVV-TTVPTVGVNLE--TLQYK--NISFEVWD   72 (189)
T ss_dssp             TSCEEEEEEEE----------------------TTSSHHHHHHHTCCSCCE-EECSSTTCCEE--EEEET--TEEEEEEE
T ss_pred             CCceEEEEECC----------------------CCCCHHHHHHHHHcCCCC-CcCCCCceEEE--EEEEC--CEEEEEEE
Confidence            35679999999                      999999999999988764 46788885543  34443  47899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHH----
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFH----  236 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~----  236 (617)
                      |+|++++..++..+++++|++|+|||++++.++..+..|+..+.... ..++|++||+||+|+.....  .++...    
T Consensus        73 t~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~  150 (189)
T 2x77_A           73 LGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAAS--EAEIAEQLGV  150 (189)
T ss_dssp             ECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCC--HHHHHHHTTG
T ss_pred             CCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCC--HHHHHHHhCh
Confidence            99999999999999999999999999999999999999988876543 24589999999999975422  222222    


Q ss_pred             -HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         237 -YSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       237 -~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                       .+...+++++++||++|.||+++|++|.+.+..
T Consensus       151 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  184 (189)
T 2x77_A          151 SSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLRE  184 (189)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             hhccCCceEEEEccCCCccCHHHHHHHHHHHHHh
Confidence             223345689999999999999999999988754

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.90  E-value=1.4e-22  Score=195.53  Aligned_cols=162  Identities=38%  Similarity=0.666  Sum_probs=147.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .++|+|+|+                      +|||||||+++|++..+...+.+|++.++....+.+++..+.+.+||++
T Consensus        29 ~~kv~lvG~----------------------~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~   86 (191)
T 1oix_A           29 LFKVVLIGD----------------------SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTA   86 (191)
T ss_dssp             EEEEEEEEC----------------------TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEEC
T ss_pred             ceEEEEECc----------------------CCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECC
Confidence            478999999                      9999999999999998888899999999988899999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..++..+++.++++++|||+++..+|+.+..|+..+........|+++|+||+|+...+.+..+++..++...++
T Consensus        87 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~  166 (191)
T 1oix_A           87 GLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGL  166 (191)
T ss_dssp             SCCSSSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTC
T ss_pred             CCcchhhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999998899887765545679999999999977667778888899999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .++++||+++.|++++|+.|.+.+
T Consensus       167 ~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          167 SFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHh
Confidence            999999999999999999998765

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.90  E-value=2e-23  Score=199.61  Aligned_cols=158  Identities=23%  Similarity=0.319  Sum_probs=126.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|++..+ ..+.+|+|...  ..+.++  .+.+.+||
T Consensus        14 ~~~~ki~ivG~----------------------~~vGKSsL~~~l~~~~~-~~~~~t~g~~~--~~~~~~--~~~l~i~D   66 (181)
T 1fzq_A           14 DQEVRILLLGL----------------------DNAGKTTLLKQLASEDI-SHITPTQGFNI--KSVQSQ--GFKLNVWD   66 (181)
T ss_dssp             SSCEEEEEEES----------------------TTSSHHHHHHHHCCSCC-EEEEEETTEEE--EEEEET--TEEEEEEE
T ss_pred             CCceEEEEECC----------------------CCCCHHHHHHHHhcCCC-CcccCcCCeEE--EEEEEC--CEEEEEEE
Confidence            34579999999                      99999999999998864 46778888543  344444  47899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH--
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS--  238 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~--  238 (617)
                      |+|++++..++..+++++|++++|||++++.+|..+..|+..+.... ...+|++||+||+|+.....  .++..+..  
T Consensus        67 t~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~  144 (181)
T 1fzq_A           67 IGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNL  144 (181)
T ss_dssp             CSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTG
T ss_pred             CCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCc
Confidence            99999999999999999999999999999999999999988875532 24579999999999975432  23332221  


Q ss_pred             ---HhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         239 ---KSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       239 ---~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                         ...++++++|||++|.||+++|++|.+.+.
T Consensus       145 ~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~  177 (181)
T 1fzq_A          145 HTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVN  177 (181)
T ss_dssp             GGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC-
T ss_pred             hhccCCceEEEEccCCCCCCHHHHHHHHHHHHH
Confidence               223458999999999999999999987664

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.90  E-value=8.6e-24  Score=204.63  Aligned_cols=161  Identities=21%  Similarity=0.258  Sum_probs=124.8

Q ss_pred             ccccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEE--EC-CeEEE
Q psy3029          80 LVSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKIN--VG-ENKVK  156 (617)
Q Consensus        80 ~~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~--~~-~~~~~  156 (617)
                      .....+||+++|+                      +|||||||++++.+.. ...  ++++.++....+.  +. +..+.
T Consensus        16 ~~~~~~ki~~vG~----------------------~~vGKTsLi~~l~~~~-~~~--~~~~~~~~~~~~~~~~~~~~~~~   70 (196)
T 3llu_A           16 FQGSKPRILLMGL----------------------RRSGKSSIQKVVFHKM-SPN--ETLFLESTNKIYKDDISNSSFVN   70 (196)
T ss_dssp             ----CCEEEEEES----------------------TTSSHHHHHHHHHSCC-CGG--GGGGCCCCCSCEEEEECCTTSCC
T ss_pred             ccCcceEEEEECC----------------------CCCCHHHHHHHHHhcC-CCc--ceeeeccccceeeeeccCCCeeE
Confidence            3556789999999                      9999999999887743 333  4555544433333  32 56689


Q ss_pred             EEEEecCCcccccccc---hhhhccCCEEEEEEeCCCh--hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC------
Q psy3029         157 LQVWDTAGQERFRSMA---PMYYRNANAALLVFDITQY--HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES------  225 (617)
Q Consensus       157 l~i~Dt~G~e~~~~~~---~~~~~~ad~iIlV~Dis~~--~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~------  225 (617)
                      +.+|||+|+++|..+.   ..+++++|++|+|||++++  +++..+..|+..+.... .++|++||+||+|+..      
T Consensus        71 l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~-~~~piilv~nK~Dl~~~~~~~~  149 (196)
T 3llu_A           71 FQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN-PDMNFEVFIHKVDGLSDDHKIE  149 (196)
T ss_dssp             EEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHC-TTCEEEEEEECGGGSCHHHHHH
T ss_pred             EEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcC-CCCcEEEEEeccccCchhhhhH
Confidence            9999999999988777   8999999999999999997  66777778888775444 3589999999999865      


Q ss_pred             -ccccCHHHHHHHHH----hcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         226 -SREVNREEAFHYSK----SIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       226 -~~~v~~~e~~~~~~----~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                       .+.+..++...+++    .++++|+++||++ .||+++|+.|++.+
T Consensus       150 ~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          150 TQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             HHhHHHHHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence             24455566677777    6788999999999 99999999998764

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.90  E-value=8e-24  Score=201.31  Aligned_cols=160  Identities=21%  Similarity=0.271  Sum_probs=126.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|+                      +|||||||+++|+++.+ ..+.+|+|....  .+.+++  +.+.+||
T Consensus        16 ~~~~~i~v~G~----------------------~~~GKssli~~l~~~~~-~~~~~t~~~~~~--~~~~~~--~~~~i~D   68 (183)
T 1moz_A           16 NKELRILILGL----------------------DGAGKTTILYRLQIGEV-VTTKPTIGFNVE--TLSYKN--LKLNVWD   68 (183)
T ss_dssp             SSCEEEEEEEE----------------------TTSSHHHHHHHTCCSEE-EEECSSTTCCEE--EEEETT--EEEEEEE
T ss_pred             CCccEEEEECC----------------------CCCCHHHHHHHHhcCCc-CccCCcCccceE--EEEECC--EEEEEEE
Confidence            35679999999                      99999999999998876 677888886543  344443  7899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH-
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK-  239 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~-  239 (617)
                      |+|++++..++..+++++|++|+|||++++.++..+..|+..+.... ...+|++||+||+|+...  ...++..+... 
T Consensus        69 t~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~  146 (183)
T 1moz_A           69 LGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNL  146 (183)
T ss_dssp             EC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTT
T ss_pred             CCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCc
Confidence            99999999999999999999999999999999999999998887653 345899999999999653  23344433332 


Q ss_pred             ----hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         240 ----SIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       240 ----~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                          ..+++++++||++|.||++++++|.+.+.+.
T Consensus       147 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          147 VELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             TTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             ccccCCceEEEEccCCCCcCHHHHHHHHHHHHHhc
Confidence                2345799999999999999999999887653

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.90  E-value=1e-22  Score=212.63  Aligned_cols=164  Identities=28%  Similarity=0.560  Sum_probs=144.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|+                      +|||||||+++|+++.+...+.+|++..+ ...+.+++..+.+.+||
T Consensus       153 ~~~~~i~i~G~----------------------~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D  209 (332)
T 2wkq_A          153 KELIKCVVVGD----------------------GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWD  209 (332)
T ss_dssp             TTCEEEEEEES----------------------TTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEE
T ss_pred             cceeEEEEECC----------------------CCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEe
Confidence            34478888888                      99999999999999988888888887664 55667888899999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCc------------cc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESS------------RE  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~  228 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+. .|+..+..... .+|++||+||+|+...            +.
T Consensus       210 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~  288 (332)
T 2wkq_A          210 TAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTP  288 (332)
T ss_dssp             ECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT-TSCEEEEEECHHHHTCHHHHHHHHHTTCCC
T ss_pred             CCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCC-CCcEEEEEEchhcccccchhhhcccccccc
Confidence            9999999999999999999999999999999999987 79888877655 5799999999998643            46


Q ss_pred             cCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         229 VNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       229 v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +..+++..+++.+++ ++++|||++|.||+++|+.|.+.+..
T Consensus       289 v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          289 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhc
Confidence            778888899999998 99999999999999999999987753

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.83  E-value=2.5e-25  Score=216.57  Aligned_cols=162  Identities=28%  Similarity=0.559  Sum_probs=138.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...+||+++|+                      +|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.+||
T Consensus        28 ~~~~ki~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D   84 (204)
T 3th5_A           28 GQAIKCVVVGD----------------------GAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWD   84 (204)
Confidence            45678888888                      99999999999999888778888877654 44556677788999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCcc------------c
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSR------------E  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~------------~  228 (617)
                      |+|++++..++..+++++|++|+|||++++.+|..+. .|+..+....+ ++|++||+||+|+....            .
T Consensus        85 t~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~-~~piilv~NK~Dl~~~~~~~~~~~~~~~~~  163 (204)
T 3th5_A           85 TAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTKLDLRDDKDTIEKLKEKKLTP  163 (204)
Confidence            9999999999999999999999999999999999986 78888876544 57999999999997543            4


Q ss_pred             cCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         229 VNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       229 v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +..+++..+++.+++ +++++||++|.||+++|++|.+.+
T Consensus       164 v~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          164 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            556677788888888 999999999999999999988754

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.89  E-value=9.6e-24  Score=213.75  Aligned_cols=171  Identities=18%  Similarity=0.214  Sum_probs=125.8

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHc---CCCCCccCCCc-ceeEEEEEEE--------
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIG---KMFSHHISPTI-GASFFTAKIN--------  149 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~---~~~~~~~~~t~-g~~~~~~~i~--------  149 (617)
                      ...+||+++|+..             -+..-|..|||||||+++|++   ..+...+.+|. +.++..+.+.        
T Consensus        17 ~~~~ki~lvG~~~-------------~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~   83 (255)
T 3c5h_A           17 QGTYNISVVGLSG-------------TEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWG   83 (255)
T ss_dssp             CSCEEEEEEESCC-------------CTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEE
T ss_pred             CceeEEEEECCCc-------------cccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccc
Confidence            4558999999900             000011119999999999998   55666666664 5554322221        


Q ss_pred             ------ECCeEEEEEEEe-----------------------cCCcccccccchhhhc---------------------cC
Q psy3029         150 ------VGENKVKLQVWD-----------------------TAGQERFRSMAPMYYR---------------------NA  179 (617)
Q Consensus       150 ------~~~~~~~l~i~D-----------------------t~G~e~~~~~~~~~~~---------------------~a  179 (617)
                            +++..+.++|||                       ++|+++|..++..++.                     ++
T Consensus        84 ~~~~~~~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  163 (255)
T 3c5h_A           84 EVSRSLEDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLV  163 (255)
T ss_dssp             EEC---------CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEEC
T ss_pred             cccccccCCcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccC
Confidence                  356778999999                       7788888888888887                     79


Q ss_pred             CEEEEEEeCCCh--hhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHHHHh-cCCeEEEEcCCCCCC
Q psy3029         180 NAALLVFDITQY--HSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHYSKS-IGGTYYETSALQDQG  255 (617)
Q Consensus       180 d~iIlV~Dis~~--~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-~g~~~~evSAktg~g  255 (617)
                      |++|+|||++++  .+|+.+..|+..+... ...++|++||+||+|+..++.+  +++..++.. .+++++++||++|.|
T Consensus       164 d~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~g  241 (255)
T 3c5h_A          164 DGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVN  241 (255)
T ss_dssp             CEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBS
T ss_pred             CEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCC
Confidence            999999999998  8999999999988765 2345899999999999765544  566777776 478999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy3029         256 IEDVFLNVSKGL  267 (617)
Q Consensus       256 I~eLf~~I~~~l  267 (617)
                      |+++|++|.+.+
T Consensus       242 v~elf~~l~~~l  253 (255)
T 3c5h_A          242 VDLAFSTLVQLI  253 (255)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998866

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.88  E-value=4.7e-24  Score=233.89  Aligned_cols=213  Identities=16%  Similarity=0.197  Sum_probs=139.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC--------cccccccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG--------QERFRSMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G--------~e~~~~~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++.++ ..+.+++|+++......+......+.+|||+|        ++++..+...+++++|++|+|+
T Consensus        32 ~nvGKSTL~n~l~~~~~-~~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~Vv  110 (456)
T 4dcu_A           32 PNVGKSTIFNRIAGERI-SIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMV  110 (456)
T ss_dssp             SSSSHHHHHHHHEEEEE-C-----------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEE
T ss_pred             CCCcHHHHHHHHhCCCC-cccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEE
Confidence            99999999999998774 35667888888877777776677899999999        6677778888999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~  265 (617)
                      |..+..  ...+.|+..+.+.  .++|++||+||+|+....    +...+++ .+++ .++++||++|.|+.++++.+.+
T Consensus       111 D~~~~~--~~~d~~l~~~l~~--~~~pvilV~NK~D~~~~~----~~~~e~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~  181 (456)
T 4dcu_A          111 NGREGV--TAADEEVAKILYR--TKKPVVLAVNKLDNTEMR----ANIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAE  181 (456)
T ss_dssp             ESSSCS--CHHHHHHHHHHTT--CCSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTHHHHHHHHHT
T ss_pred             eCCCCC--ChHHHHHHHHHHH--cCCCEEEEEECccchhhh----hhHHHHH-HcCCCceEEeecccccchHHHHHHHHh
Confidence            987643  3334455544432  457999999999986432    1122222 2343 5679999999999999999876


Q ss_pred             HHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCcceeeeeeeccccccc
Q psy3029         266 GLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPNCFEANWFWLGVGKTS  345 (617)
Q Consensus       266 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKss  345 (617)
                      .+....                                   .........+++++|.+                ++||||
T Consensus       182 ~l~~~~-----------------------------------~~~~~~~~~ki~ivG~~----------------~vGKSs  210 (456)
T 4dcu_A          182 HFKNIP-----------------------------------ETKYNEEVIQFCLIGRP----------------NVGKSS  210 (456)
T ss_dssp             TGGGSC-----------------------------------SSCCCTTCEEEEEECST----------------TSSHHH
T ss_pred             hccccc-----------------------------------ccccccccceeEEecCC----------------CCCHHH
Confidence            442100                                   00001124567777777                999999


Q ss_pred             ceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         346 MVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       346 i~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      ++++++... +.....++++.++....+.+++..+.|--++|+.
T Consensus       211 lin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~l~DT~G~~  254 (456)
T 4dcu_A          211 LVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMR  254 (456)
T ss_dssp             HHHHHHTSTTEEECC------CTTSEEEEETTEEEEETTGGGTT
T ss_pred             HHHHHhCCCccccCCCCCeEEEEEEEEEEECCceEEEEECCCCC
Confidence            999999654 4445567778888888999999988777677764

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.88  E-value=8.8e-23  Score=191.95  Aligned_cols=144  Identities=19%  Similarity=0.161  Sum_probs=108.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc------ccchhhhc--cCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR------SMAPMYYR--NANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~------~~~~~~~~--~ad~iIlV~  186 (617)
                      +|||||||+++|++..+.....++.+.+.....+.+++  ..+.+|||+|++++.      .+...|++  ++|++++|+
T Consensus        12 ~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~   89 (165)
T 2wji_A           12 PNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIV   89 (165)
T ss_dssp             TTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEe
Confidence            99999999999998776545555555555555555554  579999999998775      33456665  899999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      |+++.+   ....|+..+.+   ..+|+++|+||+|+...+.+.. ++..+++.++++++++||++|.||+++|++|.+.
T Consensus        90 D~~~~~---~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~~l~~~l~~~  162 (165)
T 2wji_A           90 DATALE---RNLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELKKAISIA  162 (165)
T ss_dssp             ETTCHH---HHHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHH
T ss_pred             cCCchh---HhHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            998754   34567777765   2479999999999865444432 3567888889999999999999999999999875


Q ss_pred             H
Q psy3029         267 L  267 (617)
Q Consensus       267 l  267 (617)
                      +
T Consensus       163 ~  163 (165)
T 2wji_A          163 V  163 (165)
T ss_dssp             T
T ss_pred             h
Confidence            4

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.87  E-value=3.6e-22  Score=195.40  Aligned_cols=159  Identities=18%  Similarity=0.241  Sum_probs=114.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCe-EEEEEEEe
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN-KVKLQVWD  161 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~-~~~l~i~D  161 (617)
                      ..+||+++|+                      +|||||||+++|+++.+...+.+ .+.++..  +.+++. .+.+.+||
T Consensus         6 ~~~ki~vvG~----------------------~~~GKTsli~~l~~~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~i~D   60 (214)
T 2fh5_B            6 SQRAVLFVGL----------------------CDSGKTLLFVRLLTGQYRDTQTS-ITDSSAI--YKVNNNRGNSLTLID   60 (214)
T ss_dssp             --CEEEEECS----------------------TTSSHHHHHHHHHHSCCCCBCCC-CSCEEEE--EECSSTTCCEEEEEE
T ss_pred             CCCEEEEECC----------------------CCCCHHHHHHHHhCCCcccccCC-cceeeEE--EEecCCCccEEEEEE
Confidence            4578899998                      99999999999999888776654 4444443  555543 68899999


Q ss_pred             cCCcccccc-cchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHH-Hh--cCCCCCeEEEEEECCCCCCccccCH--HHH
Q psy3029         162 TAGQERFRS-MAPMYYRNANAALLVFDITQYH-SFAAIKTWVKEL-KR--NVDEPLVLCVVGNKTDLESSREVNR--EEA  234 (617)
Q Consensus       162 t~G~e~~~~-~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i-~~--~~~~~iPvIlVgNK~DL~~~~~v~~--~e~  234 (617)
                      |+|++++.. ++..|++.+|++|+|||+++.. ++..+.+|+..+ ..  .....+|++||+||+|+........  +..
T Consensus        61 t~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l  140 (214)
T 2fh5_B           61 LPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQL  140 (214)
T ss_dssp             CCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHH
T ss_pred             CCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHH
Confidence            999999987 7888999999999999999854 466655544443 32  1234589999999999975433110  111


Q ss_pred             HH--------------------------------HHH-hc--CCeEEEEcCCCC------CCHHHHHHHHHHH
Q psy3029         235 FH--------------------------------YSK-SI--GGTYYETSALQD------QGIEDVFLNVSKG  266 (617)
Q Consensus       235 ~~--------------------------------~~~-~~--g~~~~evSAktg------~gI~eLf~~I~~~  266 (617)
                      ..                                |+. .+  +++|++|||++|      .||+++|++|.+.
T Consensus       141 ~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          141 EKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             HHHHHHHHHHCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             HHHHHHHhccchhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence            11                                111 11  568999999999      9999999999764

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.86  E-value=6e-22  Score=208.03  Aligned_cols=159  Identities=19%  Similarity=0.258  Sum_probs=121.4

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....+||+|+|+                      +|||||||+++|+++.+... .||++..+..  +..  ..+.+.||
T Consensus       162 ~~~~~kI~ivG~----------------------~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~~--~~~--~~~~l~i~  214 (329)
T 3o47_A          162 GKKEMRILMVGL----------------------DAAGKTTILYKLKLGEIVTT-IPTIGFNVET--VEY--KNISFTVW  214 (329)
T ss_dssp             -CCSEEEEEEES----------------------TTSSHHHHHHHTCSSCCEEE-EEETTEEEEE--EEE--TTEEEEEE
T ss_pred             ccCcceEEEECC----------------------CCccHHHHHHHHhCCCCCCc-ccccceEEEE--Eec--CcEEEEEE
Confidence            456789999999                      99999999999999887544 4677766443  333  45789999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH-
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS-  238 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~-  238 (617)
                      ||+|+++|..++..+++.+|++|+|||++++.+|..+..|+..+.... ...+|++||+||+|+.....  .++..... 
T Consensus       215 Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~  292 (329)
T 3o47_A          215 DVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLG  292 (329)
T ss_dssp             ECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHT
T ss_pred             ECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC--HHHHHHHhc
Confidence            999999999999999999999999999999999999988887765543 24689999999999975432  22222222 


Q ss_pred             ----HhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         239 ----KSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       239 ----~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                          ...+++++++||++|.||+++|+.|.+.+.
T Consensus       293 ~~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~  326 (329)
T 3o47_A          293 LHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLR  326 (329)
T ss_dssp             CTTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHT
T ss_pred             hhhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHH
Confidence                123457999999999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.86  E-value=2.6e-21  Score=182.87  Aligned_cols=158  Identities=15%  Similarity=0.161  Sum_probs=119.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|+                      +|||||||+++|++..+...+.++.+.++....+.+++.  .+.+||
T Consensus         6 ~~~~~i~v~G~----------------------~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~D   61 (178)
T 2lkc_A            6 ERPPVVTIMGH----------------------VDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLD   61 (178)
T ss_dssp             CCCCEEEEESC----------------------TTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESC
T ss_pred             CCCCEEEEECC----------------------CCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEE
Confidence            34568889998                      999999999999999887777777776666666666664  577999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh-
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS-  240 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-  240 (617)
                      |+|++++..++..++..+|++|+|||++++.....+ +++..+.   ...+|++||+||+|+....   .++....... 
T Consensus        62 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~-~~l~~~~---~~~~p~ilv~nK~Dl~~~~---~~~~~~~~~~~  134 (178)
T 2lkc_A           62 TPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTV-EAINHAK---AANVPIIVAINKMDKPEAN---PDRVMQELMEY  134 (178)
T ss_dssp             CCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHH-HHHHHHG---GGSCCEEEEEETTTSSCSC---HHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHH-HHHHHHH---hCCCCEEEEEECccCCcCC---HHHHHHHHHhc
Confidence            999999999999999999999999999884322222 1222222   2357999999999996532   2233332222 


Q ss_pred             ------cC--CeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         241 ------IG--GTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       241 ------~g--~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                            ++  ++++++||++|.||+++|++|.+.+...
T Consensus       135 ~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  172 (178)
T 2lkc_A          135 NLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEME  172 (178)
T ss_dssp             TCCBTTTTSSEEEEECCSSSSHHHHHHHHHHHHHHHHT
T ss_pred             CcChhHcCCcccEEEEecCCCCCHHHHHHHHHHhhhhh
Confidence                  22  5899999999999999999999877543

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.86  E-value=5.9e-21  Score=189.30  Aligned_cols=165  Identities=15%  Similarity=0.100  Sum_probs=116.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|+                      +|||||||+++|++..+.....+....+.....+...  .+.+.|||
T Consensus        27 ~~~~kI~vvG~----------------------~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~D   82 (228)
T 2qu8_A           27 PHKKTIILSGA----------------------PNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHK--LNKYQIID   82 (228)
T ss_dssp             TTSEEEEEECS----------------------TTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEET--TEEEEEEE
T ss_pred             CCCCEEEEECC----------------------CCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecC--CCeEEEEE
Confidence            45689999999                      9999999999999887642222222222222222223  36799999


Q ss_pred             cCCc------ccc---cccchhhhccCCEEEEEEeCCChhhHHH--HHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC
Q psy3029         162 TAGQ------ERF---RSMAPMYYRNANAALLVFDITQYHSFAA--IKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN  230 (617)
Q Consensus       162 t~G~------e~~---~~~~~~~~~~ad~iIlV~Dis~~~S~~~--l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~  230 (617)
                      |+|+      ++.   ...+..++..+|++|+|||++++.+|..  ...|+..+.... ..+|++||+||+|+...+.+.
T Consensus        83 tpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~nK~Dl~~~~~~~  161 (228)
T 2qu8_A           83 TPGLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFNKIDKCNMDSLS  161 (228)
T ss_dssp             CTTTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGCC--CCC
T ss_pred             CCCCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhh-cCCcEEEEEeCcccCCchhhH
Confidence            9998      331   1123445778999999999999887652  335666665543 257999999999998766665


Q ss_pred             HH---HHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         231 RE---EAFHYSKSIG--GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       231 ~~---e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      .+   ....++...+  +++++|||++|.||+++|++|.+.+....
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          162 IDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             HHHHHHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCceEEEEecccCCCHHHHHHHHHHHHHHHH
Confidence            43   4556777777  79999999999999999999999887654

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.86  E-value=2.9e-21  Score=185.63  Aligned_cols=155  Identities=15%  Similarity=0.197  Sum_probs=110.3

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|.                      +|||||||+++|++..+...+.++++.++......+++   .+.+||
T Consensus        21 ~~~~~i~v~G~----------------------~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~D   75 (195)
T 1svi_A           21 GGLPEIALAGR----------------------SNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVD   75 (195)
T ss_dssp             SCCCEEEEEEB----------------------TTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEE
T ss_pred             CCCCEEEEECC----------------------CCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEE
Confidence            45679999999                      99999999999999887777778887776555555544   589999


Q ss_pred             cCC----------cccccccchhhhccC---CEEEEEEeCCChhhHHHHH--HHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         162 TAG----------QERFRSMAPMYYRNA---NAALLVFDITQYHSFAAIK--TWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       162 t~G----------~e~~~~~~~~~~~~a---d~iIlV~Dis~~~S~~~l~--~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      |+|          ++.+..++..++..+   |++++|+|++++.++....  +|+..      ..+|+++|+||+|+...
T Consensus        76 t~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~------~~~p~i~v~nK~Dl~~~  149 (195)
T 1svi_A           76 VPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY------YGIPVIVIATKADKIPK  149 (195)
T ss_dssp             CCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH------TTCCEEEEEECGGGSCG
T ss_pred             CCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHH------cCCCEEEEEECcccCCh
Confidence            999          677777788888877   9999999999987776543  34332      34799999999999765


Q ss_pred             cccCH--HHHHH-HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         227 REVNR--EEAFH-YSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       227 ~~v~~--~e~~~-~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++..  +++.+ +....+++++++||++|.||+++|++|.+.+
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          150 GKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             GGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcccCCCceEEEEccCCCCHHHHHHHHHHHh
Confidence            54332  22322 3333467999999999999999999998765

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.85  E-value=3.1e-21  Score=200.64  Aligned_cols=157  Identities=20%  Similarity=0.298  Sum_probs=127.2

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC--C-CccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF--S-HHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~--~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ++||+++|+                      +|||||||+++|+++..  . ..+.+|++..+..  +.+.+ .+.+.+|
T Consensus         3 ~~KI~lvG~----------------------~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~-~~~l~i~   57 (307)
T 3r7w_A            3 GSKLLLMGR----------------------SGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLG-NMTLNLW   57 (307)
T ss_dssp             EEEEEEECC----------------------TTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETT-TEEEEEE
T ss_pred             ceEEEEECC----------------------CCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCC-ceEEEEE
Confidence            578999999                      99999999999998732  2 2466787776554  33444 5889999


Q ss_pred             ecCCcccc-----cccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHH---HhcCCCCCeEEEEEECCCCCC--ccc--
Q psy3029         161 DTAGQERF-----RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKEL---KRNVDEPLVLCVVGNKTDLES--SRE--  228 (617)
Q Consensus       161 Dt~G~e~~-----~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i---~~~~~~~iPvIlVgNK~DL~~--~~~--  228 (617)
                      ||+|++++     ..++..+++++|++|+|||++++.+|+.+..|...+   .... .++|++||+||+|+..  .+.  
T Consensus        58 Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~-~~~piilv~NK~Dl~~~~~r~~~  136 (307)
T 3r7w_A           58 DCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS-PDAKIFVLLHKMDLVQLDKREEL  136 (307)
T ss_dssp             EECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHC-TTCEEEEEEECGGGSCHHHHHHH
T ss_pred             ECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhC-CCCeEEEEEecccccchhhhhHH
Confidence            99999988     778899999999999999999999999987765544   3333 3589999999999976  443  


Q ss_pred             --cCHHHHHHHHHhcC---CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         229 --VNREEAFHYSKSIG---GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       229 --v~~~e~~~~~~~~g---~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                        +..+++.++++.+|   ++++++||++ .++.++|..++..+
T Consensus       137 ~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          137 FQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             HHHHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHHHH
Confidence              55577888999987   7999999999 89999998887654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.85  E-value=1.5e-21  Score=186.46  Aligned_cols=146  Identities=19%  Similarity=0.150  Sum_probs=114.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc------ccchhhhc--cCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR------SMAPMYYR--NANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~------~~~~~~~~--~ad~iIlV~  186 (617)
                      +|||||||+++|++..+.....++.+.+.....+..++  +.+.+|||+|++++.      .+...++.  .+|++++|+
T Consensus        16 ~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~   93 (188)
T 2wjg_A           16 PNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIV   93 (188)
T ss_dssp             TTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEe
Confidence            99999999999998765555556666666666665554  679999999998875      34556664  599999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      |.++   ++.+..|+..+..   ..+|++||+||+|+...+.+. ++...+++.++++++++||+++.||+++|++|.+.
T Consensus        94 d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  166 (188)
T 2wjg_A           94 DATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIEELKKAISIA  166 (188)
T ss_dssp             EGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHH
T ss_pred             cchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHHHHHHHHHHH
Confidence            9875   5666678877765   347999999999986544443 34567888889999999999999999999999887


Q ss_pred             HHH
Q psy3029         267 LIC  269 (617)
Q Consensus       267 l~~  269 (617)
                      +..
T Consensus       167 ~~~  169 (188)
T 2wjg_A          167 VKD  169 (188)
T ss_dssp             HTT
T ss_pred             HHh
Confidence            743

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.85  E-value=6.2e-22  Score=205.51  Aligned_cols=148  Identities=17%  Similarity=0.202  Sum_probs=115.9

Q ss_pred             CCCCHHHHHHHHHcCCCCC---ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc---cchhhhccCCEEEEEEeC
Q psy3029         115 LGVGKTSMVVRYIGKMFSH---HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS---MAPMYYRNANAALLVFDI  188 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~---~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~---~~~~~~~~ad~iIlV~Di  188 (617)
                      .|||||||++++.++.+..   .+.+|+|.++..    ++ ..++++||||+|+++|..   +++.|+++++++|+|||+
T Consensus         8 sgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Di   82 (331)
T 3r7w_B            8 RRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDS   82 (331)
T ss_dssp             TTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCC
T ss_pred             CCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEEC
Confidence            9999999999988664432   367899988754    22 348899999999999964   468899999999999999


Q ss_pred             CCh--hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc-------cccCHHHHHHHHHh----cCCeEEEEcCCCCCC
Q psy3029         189 TQY--HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS-------REVNREEAFHYSKS----IGGTYYETSALQDQG  255 (617)
Q Consensus       189 s~~--~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~-------~~v~~~e~~~~~~~----~g~~~~evSAktg~g  255 (617)
                      +++  ..+..+.+|+..+....+ ++|++|||||+||..+       +++..+++.++++.    +++.|+++||++ .+
T Consensus        83 td~~~~~~~~l~~~l~~~~~~~~-~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~n  160 (331)
T 3r7w_B           83 QDEYINAITNLAMIIEYAYKVNP-SINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HS  160 (331)
T ss_dssp             SSCTTHHHHHHHHHHHHHHHHCT-TCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SH
T ss_pred             CchHHHHHHHHHHHHHHHhhcCC-CCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEeccCC-Cc
Confidence            997  233344445655555443 5899999999999754       45667777788875    678999999998 69


Q ss_pred             HHHHHHHHHHHHHH
Q psy3029         256 IEDVFLNVSKGLIC  269 (617)
Q Consensus       256 I~eLf~~I~~~l~~  269 (617)
                      |.+.|..|++.+..
T Consensus       161 V~eAFs~iv~~li~  174 (331)
T 3r7w_B          161 IYEAFSRIVQKLIP  174 (331)
T ss_dssp             HHHHHHHHHTTSST
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999876654

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.85  E-value=3e-21  Score=183.13  Aligned_cols=153  Identities=19%  Similarity=0.185  Sum_probs=113.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .+||+++|+                      +|||||||+++|++..+. ....++.+.++....+.+++.  .+.+|||
T Consensus         4 ~~ki~ivG~----------------------~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt   59 (172)
T 2gj8_A            4 GMKVVIAGR----------------------PNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDT   59 (172)
T ss_dssp             CEEEEEEES----------------------TTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEEC
T ss_pred             CCEEEEECC----------------------CCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEEC
Confidence            358888888                      999999999999987642 122334445556666777664  4889999


Q ss_pred             CCccccccc--------chhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         163 AGQERFRSM--------APMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       163 ~G~e~~~~~--------~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      +|++++...        ...+++++|++|+|||++++.++.. ..|+..+.+.....+|++||+||+|+..+..      
T Consensus        60 ~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~------  132 (172)
T 2gj8_A           60 AGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRNKADITGETL------  132 (172)
T ss_dssp             CCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSCTTCCEEEEEECHHHHCCCC------
T ss_pred             CCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcccCCCEEEEEECccCCcchh------
Confidence            998754321        1246789999999999999888763 4688777766555689999999999853211      


Q ss_pred             HHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       235 ~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                       .++...+.+++++||++|.||+++|++|.+.+.
T Consensus       133 -~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          133 -GMSEVNGHALIRLSARTGEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             -EEEEETTEEEEECCTTTCTTHHHHHHHHHHHC-
T ss_pred             -hhhhccCCceEEEeCCCCCCHHHHHHHHHHHhh
Confidence             123335678999999999999999999987653

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.84  E-value=3.8e-21  Score=183.61  Aligned_cols=147  Identities=18%  Similarity=0.190  Sum_probs=112.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC-----------cccccccchhhhcc-CCEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG-----------QERFRSMAPMYYRN-ANAA  182 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G-----------~e~~~~~~~~~~~~-ad~i  182 (617)
                      +|||||||+++|++..+...+.++....  ...+.+.    .+.+|||+|           ++++..++..+++. ++++
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~~~t~~--~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (190)
T 2cxx_A           10 SNVGKSTLIYRLTGKKVRRGKRPGVTRK--IIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNI   83 (190)
T ss_dssp             TTSSHHHHHHHHHSCCCSSSSSTTCTTS--CEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGC
T ss_pred             CCCCHHHHHHHHhCcCCccCCCCCccce--eEEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccC
Confidence            9999999999999998776666654443  3333333    689999999           66777778888887 8878


Q ss_pred             EEEEeCCChhhHHHH-HHHHHH--------H-HhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe-------E
Q psy3029         183 LLVFDITQYHSFAAI-KTWVKE--------L-KRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT-------Y  245 (617)
Q Consensus       183 IlV~Dis~~~S~~~l-~~~l~~--------i-~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~-------~  245 (617)
                      ++||++.+..++..+ ..|...        + .......+|+++|+||+|+...+   .++...++..++++       +
T Consensus        84 ~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~  160 (190)
T 2cxx_A           84 DVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEIDKVF  160 (190)
T ss_dssp             CEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGHHHHE
T ss_pred             CEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhhhhccCCcE
Confidence            888888788888776 567542        2 22222457999999999997654   45677788888864       7


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         246 YETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       246 ~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +++||++|.||+++|++|.+.+...
T Consensus       161 ~~~Sa~~~~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          161 IPISAKFGDNIERLKNRIFEVIRER  185 (190)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             EEEecCCCCCHHHHHHHHHHhcchh
Confidence            9999999999999999999887653

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.83  E-value=3.7e-21  Score=215.05  Aligned_cols=163  Identities=21%  Similarity=0.332  Sum_probs=125.7

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEE------EEE--CC
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAK------INV--GE  152 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~------i~~--~~  152 (617)
                      ....+||+++|.                      +|||||||+++|++..+...+.+|+|.++..+.      +.+  .+
T Consensus        38 ~~~~~kV~lvG~----------------------~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~   95 (535)
T 3dpu_A           38 HLQEIKVHLIGD----------------------GMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDEL   95 (535)
T ss_dssp             CCCEEEEEEESS----------------------SCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTT
T ss_pred             cccceEEEEECC----------------------CCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCC
Confidence            345689999999                      999999999999999988889999999877652      112  23


Q ss_pred             eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         153 NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      ..+.+.+|||+|++.+..+...+++++|++|+|||+++.   +.+..|+..+....+ ++|+|||+||+|+...+.+..+
T Consensus        96 ~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~~-~~pvilV~NK~Dl~~~~~v~~~  171 (535)
T 3dpu_A           96 KECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYGG-KSPVIVVMNKIDENPSYNIEQK  171 (535)
T ss_dssp             TTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGG---GGHHHHHHHHHHHSS-SCCEEEEECCTTTCTTCCCCHH
T ss_pred             ceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCc---hhHHHHHHHHHHhCC-CCCEEEEEECCCcccccccCHH
Confidence            467899999999999999999999999999999999765   556778888887764 4799999999999887788888


Q ss_pred             HHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       233 e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++..++...+++++++||++|.||+++++.|.+.+..
T Consensus       172 ~~~~~~~~~~~~~~~vSA~~g~gi~eL~~~l~~~~~~  208 (535)
T 3dpu_A          172 KINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLH  208 (535)
T ss_dssp             HHHHHCGGGTTCEEECCC-----CTTHHHHHHHHHTC
T ss_pred             HHHHHHHhcCCceEEEecCcccCHHHHHHHHHHHHhc
Confidence            8888999999999999999999999999999987754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.83  E-value=1.3e-20  Score=174.72  Aligned_cols=142  Identities=18%  Similarity=0.132  Sum_probs=98.4

Q ss_pred             CCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc-------cccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF-------RSMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~-------~~~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+++|++..+. ....++...+.....+..++.  .+.+|||+|++.+       ...+..+++.+|++|+|+
T Consensus        10 ~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~   87 (161)
T 2dyk_A           10 PNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAV   87 (161)
T ss_dssp             TTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEE
Confidence            999999999999987643 222233334445555555554  6889999999873       344566788999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~  265 (617)
                      |++++.+...  .|+..+...  ..+|+++|+||+|+....    +++.+++ .+++ +++++||++|.|++++|++|.+
T Consensus        88 d~~~~~~~~~--~~~~~~~~~--~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv~~l~~~l~~  158 (161)
T 2dyk_A           88 DGRAELTQAD--YEVAEYLRR--KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGLEELLEAIWE  158 (161)
T ss_dssp             ESSSCCCHHH--HHHHHHHHH--HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSHHHHHHHHHH
T ss_pred             ECCCcccHhH--HHHHHHHHh--cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCChHHHHHHHHH
Confidence            9998654322  222222221  247999999999996542    2334455 6777 8999999999999999999987


Q ss_pred             HH
Q psy3029         266 GL  267 (617)
Q Consensus       266 ~l  267 (617)
                      .+
T Consensus       159 ~l  160 (161)
T 2dyk_A          159 RL  160 (161)
T ss_dssp             HC
T ss_pred             hC
Confidence            54

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.83  E-value=1.5e-20  Score=195.65  Aligned_cols=150  Identities=19%  Similarity=0.142  Sum_probs=115.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCe-EEEEEEEecCCccccc----------ccchhhhccCCEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN-KVKLQVWDTAGQERFR----------SMAPMYYRNANAAL  183 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~-~~~l~i~Dt~G~e~~~----------~~~~~~~~~ad~iI  183 (617)
                      +|||||||+|+|++.++. ...+.++.++.......... ...+.||||||+.++.          .....++..+|++|
T Consensus        19 ~nvGKSTLin~l~g~~~~-i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il   97 (308)
T 3iev_A           19 PNVGKSTLLNNLLGTKVS-IISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVIL   97 (308)
T ss_dssp             TTSSHHHHHHHHHTSCCS-CCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEE
T ss_pred             CCCcHHHHHHHHhCCCcc-ccCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEE
Confidence            999999999999998864 23334444433322222223 5779999999986544          55677888999999


Q ss_pred             EEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEcCCCCCCHHHHHH
Q psy3029         184 LVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       184 lV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evSAktg~gI~eLf~  261 (617)
                      +|+|++++.++.....|+..+..   ..+|+++|+||+|+........+....+...++  .+++++||++|.|++++++
T Consensus        98 ~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~  174 (308)
T 3iev_A           98 FMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDELVK  174 (308)
T ss_dssp             EEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHH
T ss_pred             EEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHH
Confidence            99999998888888778887766   347999999999997444555666667777775  6899999999999999999


Q ss_pred             HHHHHHH
Q psy3029         262 NVSKGLI  268 (617)
Q Consensus       262 ~I~~~l~  268 (617)
                      .|.+.+.
T Consensus       175 ~l~~~l~  181 (308)
T 3iev_A          175 TILKYLP  181 (308)
T ss_dssp             HHHHHSC
T ss_pred             HHHHhCc
Confidence            9988763

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.82  E-value=1.2e-19  Score=173.60  Aligned_cols=155  Identities=21%  Similarity=0.223  Sum_probs=117.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|+                      +|||||||+++|++.. ...+.++.+.++.......+.   .+.+||
T Consensus        21 ~~~~~i~v~G~----------------------~~~GKSsli~~l~~~~-~~~~~~~~~~t~~~~~~~~~~---~~~i~D   74 (195)
T 3pqc_A           21 PLKGEVAFVGR----------------------SNVGKSSLLNALFNRK-IAFVSKTPGKTRSINFYLVNS---KYYFVD   74 (195)
T ss_dssp             CTTCEEEEEEB----------------------TTSSHHHHHHHHHTSC-CSCCCSSCCCCCCEEEEEETT---TEEEEE
T ss_pred             CCCeEEEEECC----------------------CCCCHHHHHHHHHcCc-cccccCCCCCccCeEEEEECC---cEEEEE
Confidence            34579999999                      9999999999999987 456667777665554444433   478999


Q ss_pred             cCC----------cccccccchhhhccC---CEEEEEEeCCChhhH--HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         162 TAG----------QERFRSMAPMYYRNA---NAALLVFDITQYHSF--AAIKTWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       162 t~G----------~e~~~~~~~~~~~~a---d~iIlV~Dis~~~S~--~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      |+|          .+.+..++..+++.+   |++++|+|+++..+.  ..+.+|+...      .+|+++|+||+|+...
T Consensus        75 t~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~------~~p~i~v~nK~Dl~~~  148 (195)
T 3pqc_A           75 LPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL------NIPFTIVLTKMDKVKM  148 (195)
T ss_dssp             CCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT------TCCEEEEEECGGGSCG
T ss_pred             CCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc------CCCEEEEEEChhcCCh
Confidence            999          666777778888776   999999999876443  3344555442      4799999999999654


Q ss_pred             c--ccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         227 R--EVNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       227 ~--~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      .  ....+++..++...+ ++++++||++|.||+++|++|.+.+.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  193 (195)
T 3pqc_A          149 SERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLK  193 (195)
T ss_dssp             GGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhh
Confidence            3  233345556666644 69999999999999999999988763

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.81  E-value=1.1e-19  Score=184.35  Aligned_cols=155  Identities=17%  Similarity=0.142  Sum_probs=116.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|.                      +|||||||+|+|++..+.....+  |.++..+...+......+.+|||
T Consensus         4 ~~~kI~lvG~----------------------~nvGKTsL~n~l~g~~~~~~~~p--g~tv~~~~~~~~~~~~~~~l~Dt   59 (258)
T 3a1s_A            4 HMVKVALAGC----------------------PNVGKTSLFNALTGTKQYVANWP--GVTVEKKEGVFTYKGYTINLIDL   59 (258)
T ss_dssp             EEEEEEEECC----------------------TTSSHHHHHHHHHTTCEEEEECT--TSCCEEEEEEEEETTEEEEEEEC
T ss_pred             CceEEEEECC----------------------CCCCHHHHHHHHHCCCCcccCCC--CceEEEEEEEEEECCeEEEEEEC
Confidence            3468888888                      99999999999998776433344  44444444444333478999999


Q ss_pred             CCccccccc------chhhh--ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         163 AGQERFRSM------APMYY--RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       163 ~G~e~~~~~------~~~~~--~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      ||+..+...      .+.|+  ..+|++|+|+|+++.++.   ..|+..+.+   ..+|+++|+||+|+...+.+.. +.
T Consensus        60 pG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~~---~~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~~-~~  132 (258)
T 3a1s_A           60 PGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPEQS---LYLLLEILE---MEKKVILAMTAIDEAKKTGMKI-DR  132 (258)
T ss_dssp             CCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCHHH---HHHHHHHHT---TTCCEEEEEECHHHHHHTTCCB-CH
T ss_pred             CCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchhhH---HHHHHHHHh---cCCCEEEEEECcCCCCccchHH-HH
Confidence            999877653      35666  589999999999986543   346566554   3479999999999865444432 35


Q ss_pred             HHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       235 ~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..+++.++++++++||++|.|++++|+.|.+.+.
T Consensus       133 ~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          133 YELQKHLGIPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            6788889999999999999999999999988653

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.80  E-value=5.5e-20  Score=187.85  Aligned_cols=143  Identities=20%  Similarity=0.152  Sum_probs=109.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc------ccchhhhc--cCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR------SMAPMYYR--NANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~------~~~~~~~~--~ad~iIlV~  186 (617)
                      +|||||||+|+|++..+...  ..+|.++..+...+.. .+.+.+|||||++.+.      .+.+.|+.  .+|++|+|+
T Consensus        12 ~nvGKSTL~n~L~g~~~~v~--~~pg~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~   88 (272)
T 3b1v_A           12 PNSGKTSLFNLITGHNQRVG--NWPGVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVV   88 (272)
T ss_dssp             TTSSHHHHHHHHHCCCCCCC--SSSCCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEE
T ss_pred             CCCCHHHHHHHHHCCCCccc--CCCCCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEe
Confidence            99999999999998764322  3345555555555665 6789999999998775      34566775  699999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      |+++.+++   ..|+..+.+   ..+|++||+||+|+...+.+. .+...+++.++++++++||++|.||+++|++|.+.
T Consensus        89 D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  161 (272)
T 3b1v_A           89 DATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVDQVVKKAAHT  161 (272)
T ss_dssp             EGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHHHHHHHHHHS
T ss_pred             cCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHHHHHHHHHHH
Confidence            99886543   456666554   347999999999986544433 24567888889999999999999999999999764


Q ss_pred             H
Q psy3029         267 L  267 (617)
Q Consensus       267 l  267 (617)
                      +
T Consensus       162 ~  162 (272)
T 3b1v_A          162 T  162 (272)
T ss_dssp             C
T ss_pred             H
Confidence            3

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.80  E-value=1e-19  Score=178.88  Aligned_cols=162  Identities=14%  Similarity=0.085  Sum_probs=115.0

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVW  160 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~  160 (617)
                      ...++|+++|.                      +|||||||+|+|++..+.....++.|.+.......+. .....+.||
T Consensus        27 ~~~~~i~v~G~----------------------~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~   84 (223)
T 4dhe_A           27 TVQPEIAFAGR----------------------SNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLV   84 (223)
T ss_dssp             CCSCEEEEEES----------------------CHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEE
T ss_pred             CCCCEEEEEcC----------------------CCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEE
Confidence            45679999999                      9999999999999987444555566655555455554 445679999


Q ss_pred             ecCCc----------ccccccchhhhcc---CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc
Q psy3029         161 DTAGQ----------ERFRSMAPMYYRN---ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR  227 (617)
Q Consensus       161 Dt~G~----------e~~~~~~~~~~~~---ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~  227 (617)
                      ||+|.          +.+..++..|+..   +|++|+|+|++++.+.. ...|+..+..   ..+|++||+||+|+....
T Consensus        85 DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~-~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~  160 (223)
T 4dhe_A           85 DLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTEL-DRRMIEWFAP---TGKPIHSLLTKCDKLTRQ  160 (223)
T ss_dssp             ECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHGG---GCCCEEEEEECGGGSCHH
T ss_pred             cCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHH-HHHHHHHHHh---cCCCEEEEEeccccCChh
Confidence            99994          4445666677776   78899999998764422 2345555544   347999999999997643


Q ss_pred             ccC--HHHHHHHHHh-------cCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         228 EVN--REEAFHYSKS-------IGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       228 ~v~--~~e~~~~~~~-------~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ...  .++..+....       .+++++++||++|.||+++|++|.+.+..
T Consensus       161 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  211 (223)
T 4dhe_A          161 ESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRP  211 (223)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCc
Confidence            321  1222222222       45689999999999999999999987744

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.79  E-value=9.3e-20  Score=184.60  Aligned_cols=143  Identities=14%  Similarity=0.118  Sum_probs=108.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc----------cchhhh--ccCCEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS----------MAPMYY--RNANAA  182 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~----------~~~~~~--~~ad~i  182 (617)
                      +|||||||+|+|++..+.....|+.+++.....+...+.  .+.+|||||...+..          +.+.|+  .++|++
T Consensus        10 ~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~v   87 (256)
T 3iby_A           10 PNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCI   87 (256)
T ss_dssp             TTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEE
T ss_pred             CCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEE
Confidence            999999999999998755455566666666666666554  789999999977653          456677  899999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~  262 (617)
                      |+|+|+++.+++..+..|+.   .   ..+|+++|+||+|+...+.+.. ....+++.++++++++||++|.|++++|++
T Consensus        88 i~VvDas~~~~~~~l~~~l~---~---~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~  160 (256)
T 3iby_A           88 INVIDACHLERHLYLTSQLF---E---LGKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNIGIPALQQS  160 (256)
T ss_dssp             EEEEEGGGHHHHHHHHHHHT---T---SCSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTBSHHHHHHH
T ss_pred             EEEeeCCCchhHHHHHHHHH---H---cCCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCCCHHHHHHH
Confidence            99999998665554443332   2   3579999999999864433322 234577788999999999999999999999


Q ss_pred             HHHH
Q psy3029         263 VSKG  266 (617)
Q Consensus       263 I~~~  266 (617)
                      |.+.
T Consensus       161 i~~~  164 (256)
T 3iby_A          161 LLHC  164 (256)
T ss_dssp             HHTC
T ss_pred             HHhh
Confidence            8764

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.78  E-value=2.5e-19  Score=183.25  Aligned_cols=144  Identities=15%  Similarity=0.132  Sum_probs=104.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc----------cchhhh--ccCCEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS----------MAPMYY--RNANAA  182 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~----------~~~~~~--~~ad~i  182 (617)
                      +|||||||+|+|++..+.....++...+.....+...+  ..+.+|||||+..+..          +.+.|+  ..+|++
T Consensus        12 ~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~i   89 (274)
T 3i8s_A           12 PNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLL   89 (274)
T ss_dssp             TTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEE
T ss_pred             CCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEE
Confidence            99999999999999875444445554554444454444  4678999999877662          223333  699999


Q ss_pred             EEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHH
Q psy3029         183 LLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       183 IlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~  262 (617)
                      |+|+|+++.+....+..|+.   +.   ++|+++|+||+|+...+.+.. ....+++.++++++++||++|.|++++++.
T Consensus        90 i~VvD~~~~~~~~~~~~~l~---~~---~~p~ivv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~i~~SA~~g~gi~el~~~  162 (274)
T 3i8s_A           90 INVVDASNLERNLYLTLQLL---EL---GIPCIVALNMLDIAEKQNIRI-EIDALSARLGCPVIPLVSTRGRGIEALKLA  162 (274)
T ss_dssp             EEEEEGGGHHHHHHHHHHHH---HH---TCCEEEEEECHHHHHHTTEEE-CHHHHHHHHTSCEEECCCGGGHHHHHHHHH
T ss_pred             EEEecCCChHHHHHHHHHHH---hc---CCCEEEEEECccchhhhhHHH-HHHHHHHhcCCCEEEEEcCCCCCHHHHHHH
Confidence            99999988665544444433   32   479999999999864433221 245677888999999999999999999999


Q ss_pred             HHHHH
Q psy3029         263 VSKGL  267 (617)
Q Consensus       263 I~~~l  267 (617)
                      |.+.+
T Consensus       163 i~~~~  167 (274)
T 3i8s_A          163 IDRYK  167 (274)
T ss_dssp             HHTCC
T ss_pred             HHHHH
Confidence            87644

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.78  E-value=9.9e-20  Score=178.55  Aligned_cols=142  Identities=13%  Similarity=0.183  Sum_probs=107.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCC---ccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSH---HISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~---~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      ..++|+++|+                      +|||||||+++|++..+..   .+.++.+.++         ..+.+.+
T Consensus        11 ~~~~i~~~G~----------------------~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l   59 (218)
T 1nrj_B           11 YQPSIIIAGP----------------------QNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTL   59 (218)
T ss_dssp             CCCEEEEECS----------------------TTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEE
T ss_pred             CCCEEEEECC----------------------CCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEE
Confidence            4568999999                      9999999999999887643   2444444332         4467899


Q ss_pred             EecCCcccccccchhhhcc----CCEEEEEEeCC-ChhhHHHHHHHHHHHHhc----CCCCCeEEEEEECCCCCCccccC
Q psy3029         160 WDTAGQERFRSMAPMYYRN----ANAALLVFDIT-QYHSFAAIKTWVKELKRN----VDEPLVLCVVGNKTDLESSREVN  230 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~----ad~iIlV~Dis-~~~S~~~l~~~l~~i~~~----~~~~iPvIlVgNK~DL~~~~~v~  230 (617)
                      |||+|++++..++..+++.    +|++|+|||++ ++.+|..+..|+..+...    ....+|++||+||+|+...+.+.
T Consensus        60 ~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~  139 (218)
T 1nrj_B           60 VDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPS  139 (218)
T ss_dssp             EECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHH
T ss_pred             EECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHH
Confidence            9999999999888888887    89999999999 888999999998887654    34568999999999998765443


Q ss_pred             ------HHHHHHHHHhcCCeEEEEcCCCCCC
Q psy3029         231 ------REEAFHYSKSIGGTYYETSALQDQG  255 (617)
Q Consensus       231 ------~~e~~~~~~~~g~~~~evSAktg~g  255 (617)
                            .+++..++...++.++++||++|.+
T Consensus       140 ~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          140 KIKDALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHC--------
T ss_pred             HHHHHHHHHHHHHHHHHhccccccccccccc
Confidence                  3456677777778999999998875

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.77  E-value=5.3e-19  Score=180.39  Aligned_cols=147  Identities=19%  Similarity=0.118  Sum_probs=111.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc------cchhhh--ccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS------MAPMYY--RNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~------~~~~~~--~~ad~iIlV~  186 (617)
                      +|||||||+|+|++..+.....++.+.+.....+...+.  .+.+|||||+..+..      +.+.|+  .++|++|+|+
T Consensus        12 ~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~   89 (271)
T 3k53_A           12 PNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK--EFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIV   89 (271)
T ss_dssp             SSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTE--EEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCc--eEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEe
Confidence            999999999999998765555666666666666665554  589999999987765      456666  6899999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      |+++..   ....|+..+....  .+|+++|+||+|+...+.+... ...+.+.++++++++||++|.|++++++.|...
T Consensus        90 D~~~~~---~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~~~~~~~-~~~l~~~lg~~~~~~Sa~~g~gi~~l~~~i~~~  163 (271)
T 3k53_A           90 DSTCLM---RNLFLTLELFEME--VKNIILVLNKFDLLKKKGAKID-IKKMRKELGVPVIPTNAKKGEGVEELKRMIALM  163 (271)
T ss_dssp             EGGGHH---HHHHHHHHHHHTT--CCSEEEEEECHHHHHHHTCCCC-HHHHHHHHSSCEEECBGGGTBTHHHHHHHHHHH
T ss_pred             cCCcch---hhHHHHHHHHhcC--CCCEEEEEEChhcCcccccHHH-HHHHHHHcCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            998853   3334444544432  2799999999998644333322 557788889999999999999999999999887


Q ss_pred             HHH
Q psy3029         267 LIC  269 (617)
Q Consensus       267 l~~  269 (617)
                      +..
T Consensus       164 ~~~  166 (271)
T 3k53_A          164 AEG  166 (271)
T ss_dssp             HHT
T ss_pred             Hhc
Confidence            643

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.77  E-value=3.9e-19  Score=184.20  Aligned_cols=145  Identities=20%  Similarity=0.218  Sum_probs=99.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc--------ccccchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER--------FRSMAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~--------~~~~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++.++.. ..+.++.+.......+......+.||||||+.+        +......+++.+|++|+||
T Consensus        16 ~nvGKSTLln~l~g~~~~i-vs~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~Vv   94 (301)
T 1wf3_A           16 PNVGKSTLLNNLLGVKVAP-ISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVV   94 (301)
T ss_dssp             TTSSHHHHHHHHHTSCCSC-CCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCceee-ecCCCCceeEEEEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEE
Confidence            9999999999999987642 222222222211111222356899999999876        3445667889999999999


Q ss_pred             eCCChhhHHHHHHHH-HHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh-cC-CeEEEEcCCCCCCHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWV-KELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS-IG-GTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       187 Dis~~~S~~~l~~~l-~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~-~g-~~~~evSAktg~gI~eLf~~I  263 (617)
                      |++++.+..  +.|+ ..+.... .++|+++|+||+|+......    ....+.. .+ .+++++||++|.|++++++.|
T Consensus        95 D~~~~~~~~--~~~i~~~l~~~~-~~~p~ilV~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~l  167 (301)
T 1wf3_A           95 DLRHPPTPE--DELVARALKPLV-GKVPILLVGNKLDAAKYPEE----AMKAYHELLPEAEPRMLSALDERQVAELKADL  167 (301)
T ss_dssp             ETTSCCCHH--HHHHHHHHGGGT-TTSCEEEEEECGGGCSSHHH----HHHHHHHTSTTSEEEECCTTCHHHHHHHHHHH
T ss_pred             ECCCCCChH--HHHHHHHHHhhc-CCCCEEEEEECcccCCchHH----HHHHHHHhcCcCcEEEEeCCCCCCHHHHHHHH
Confidence            998875543  4555 4454432 35799999999999654320    1222222 23 479999999999999999998


Q ss_pred             HHHH
Q psy3029         264 SKGL  267 (617)
Q Consensus       264 ~~~l  267 (617)
                      .+.+
T Consensus       168 ~~~l  171 (301)
T 1wf3_A          168 LALM  171 (301)
T ss_dssp             HTTC
T ss_pred             HHhc
Confidence            7654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.76  E-value=1.7e-18  Score=188.57  Aligned_cols=160  Identities=16%  Similarity=0.100  Sum_probs=112.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ..++|+++|+                      +|||||||+|+|++..+. ....++.+.+.....+..++.  .+.|||
T Consensus       174 ~~~ki~lvG~----------------------~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~D  229 (436)
T 2hjg_A          174 EVIQFCLIGR----------------------PNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVD  229 (436)
T ss_dssp             TCEEEEEECS----------------------TTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETT
T ss_pred             cCcEEEEEcC----------------------CCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEE
Confidence            4578888888                      999999999999987652 222233333333344555554  589999


Q ss_pred             cCCc----------ccccccch-hhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC
Q psy3029         162 TAGQ----------ERFRSMAP-MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN  230 (617)
Q Consensus       162 t~G~----------e~~~~~~~-~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~  230 (617)
                      |+|+          ++|..+.. .+++.+|++|+|+|++++.+++++ +|+..+..   ..+|++||+||+|+.+.+...
T Consensus       230 T~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~  305 (436)
T 2hjg_A          230 TAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDEST  305 (436)
T ss_dssp             HHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTH
T ss_pred             CCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHH
Confidence            9998          44443333 478899999999999998888775 57776654   347999999999997655544


Q ss_pred             HHHHHH-----HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         231 REEAFH-----YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       231 ~~e~~~-----~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      .++..+     +....+++++++||++|.||+++|+.+.+.+...
T Consensus       306 ~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          306 MKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENH  350 (436)
T ss_dssp             HHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCCEEEEecccCCCHHHHHHHHHHHHHHh
Confidence            333322     2222367999999999999999999998877543

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.75  E-value=2.1e-19  Score=186.27  Aligned_cols=132  Identities=15%  Similarity=0.118  Sum_probs=109.4

Q ss_pred             HHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh-hHHHHH
Q psy3029         121 SMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH-SFAAIK  198 (617)
Q Consensus       121 SLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~  198 (617)
                      +|+.+++.+.|. ..+.||+|..+. ..+..++   ++.+||+  +++|..+++.|++++|++|+|||++++. ++..++
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688899999988 889999995543 3322222   6899999  9999999999999999999999999987 789999


Q ss_pred             HHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHH
Q psy3029         199 TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       199 ~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I  263 (617)
                      +|+..+..   .++|++||+||+||.+++.+  +++.+++..++  ++++++||++|.||+++|..+
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l  167 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYL  167 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHH
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHh
Confidence            99998765   35799999999999765443  44566776666  899999999999999999765

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.75  E-value=1.8e-18  Score=189.83  Aligned_cols=157  Identities=14%  Similarity=0.137  Sum_probs=98.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ..++|+|+|.                      +|||||||+|+|++.... ....++...++....+.+++  +.+.+||
T Consensus       232 ~~~kV~ivG~----------------------~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liD  287 (476)
T 3gee_A          232 EGVSTVIAGK----------------------PNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTD  287 (476)
T ss_dssp             HCEEEEEECC----------------------TTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC
T ss_pred             CCCEEEEECC----------------------CCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEE
Confidence            4578999999                      999999999999987531 22223333344444555555  5799999


Q ss_pred             cCCcccccccc--------hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH
Q psy3029         162 TAGQERFRSMA--------PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE  233 (617)
Q Consensus       162 t~G~e~~~~~~--------~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e  233 (617)
                      |+|+.++...+        ..++.++|++|+|||++++.++..+..+...+....  ++|+++|+||+|+.......   
T Consensus       288 T~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~~---  362 (476)
T 3gee_A          288 TAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADAL---  362 (476)
T ss_dssp             --------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHHH---
T ss_pred             CCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccchh---
Confidence            99987765433        346789999999999999888754433333333322  47999999999997654432   


Q ss_pred             HHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       234 ~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ...+......+++++||++|.||++++++|.+.+.
T Consensus       363 ~~~l~~~~~~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          363 IRAIADGTGTEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHHHHTSCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             HHHHHhcCCCceEEEEECCCCCHHHHHHHHHHHHh
Confidence            22344332368999999999999999999998775

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.74  E-value=5.9e-18  Score=185.40  Aligned_cols=162  Identities=17%  Similarity=0.111  Sum_probs=115.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC-CCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~-~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ...++|+++|+                      +|||||||+|+|++... .....++.+.+.....+..++.  .+.||
T Consensus       193 ~~~~ki~ivG~----------------------~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~  248 (456)
T 4dcu_A          193 EEVIQFCLIGR----------------------PNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIV  248 (456)
T ss_dssp             TTCEEEEEECS----------------------TTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEET
T ss_pred             cccceeEEecC----------------------CCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEE
Confidence            34578888888                      99999999999997652 1222233333333344555554  78999


Q ss_pred             ecCC----------cccccccch-hhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc
Q psy3029         161 DTAG----------QERFRSMAP-MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV  229 (617)
Q Consensus       161 Dt~G----------~e~~~~~~~-~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v  229 (617)
                      ||+|          +++|..+.. .+++.+|++|+|+|+++..+.. ...|+..+..   ..+|++||+||+|+...+..
T Consensus       249 DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~-~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~  324 (456)
T 4dcu_A          249 DTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQ-DKRIAGYAHE---AGKAVVIVVNKWDAVDKDES  324 (456)
T ss_dssp             TGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHH-HHHHHHHHHH---TTCEEEEEEECGGGSCCCSS
T ss_pred             ECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHH-HHHHHHHHHH---cCCCEEEEEEChhcCCCchH
Confidence            9999          566665544 4788999999999998854422 2345555544   34799999999999876666


Q ss_pred             CHHHHHHHHHhc-----CCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         230 NREEAFHYSKSI-----GGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       230 ~~~e~~~~~~~~-----g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ..+++.+.++..     +++++++||++|.||+++|+.|.+.+....
T Consensus       325 ~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~  371 (456)
T 4dcu_A          325 TMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHS  371 (456)
T ss_dssp             HHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHHHHHHHhc
Confidence            666666666554     579999999999999999999998775543

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.73  E-value=4e-17  Score=173.20  Aligned_cols=161  Identities=19%  Similarity=0.163  Sum_probs=117.4

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      ..++|+++|.                      +|||||||+++|++..+.....+....+.....+...  ...+.+|||
T Consensus       166 ~~~~v~lvG~----------------------~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt  221 (357)
T 2e87_A          166 EIPTVVIAGH----------------------PNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--YFRYQIIDT  221 (357)
T ss_dssp             SSCEEEEECS----------------------TTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--TEEEEEEEC
T ss_pred             CCCEEEEECC----------------------CCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--CceEEEEeC
Confidence            3468889998                      9999999999999876422211211122222222222  357899999


Q ss_pred             CCcccccc---------cchhhhccCCEEEEEEeCCChh--hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH
Q psy3029         163 AGQERFRS---------MAPMYYRNANAALLVFDITQYH--SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR  231 (617)
Q Consensus       163 ~G~e~~~~---------~~~~~~~~ad~iIlV~Dis~~~--S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~  231 (617)
                      +|......         ....+...+|++|+|+|++++.  ++....+|+..+..... .+|+++|+||+|+.....+  
T Consensus       222 ~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~~--  298 (357)
T 2e87_A          222 PGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEENI--  298 (357)
T ss_dssp             TTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHHH--
T ss_pred             CCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHHH--
Confidence            99854321         1123344699999999999877  67888889988877554 5799999999999764432  


Q ss_pred             HHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       232 ~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++...++...++++++|||++|+||++++++|.+.+...
T Consensus       299 ~~~~~~~~~~~~~~~~iSA~~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          299 KRLEKFVKEKGLNPIKISALKGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             HHHHHHHHHTTCCCEECBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCeEEEeCCCCcCHHHHHHHHHHHHHHH
Confidence            445667777889999999999999999999999887654

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.71  E-value=1.3e-17  Score=175.48  Aligned_cols=147  Identities=15%  Similarity=0.189  Sum_probs=109.7

Q ss_pred             CCCCHHHHHHHHHcCCCC-Ccc-CCCcceeEEEEEEEECCeEEEEEEEecCCcc----cccccchhhhc---cCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFS-HHI-SPTIGASFFTAKINVGENKVKLQVWDTAGQE----RFRSMAPMYYR---NANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~-~~~-~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e----~~~~~~~~~~~---~ad~iIlV  185 (617)
                      +|||||||+++|++.++. ..+ ..|....+.  .+.+++ ...+.||||+|+.    ++..+...|++   .+|++|+|
T Consensus       167 ~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g--~v~~~~-~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~V  243 (342)
T 1lnz_A          167 PSVGKSTLLSVVSSAKPKIADYHFTTLVPNLG--MVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHV  243 (342)
T ss_dssp             TTSSHHHHHHHSEEECCEESSTTSSCCCCCEE--EEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEE
T ss_pred             CCCCHHHHHHHHHcCCCccccCCccccCceEE--EEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEE
Confidence            999999999999987642 122 233333322  233333 2478999999964    34445566655   59999999


Q ss_pred             EeCCC---hhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEcCCCCCCHHH
Q psy3029         186 FDITQ---YHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETSALQDQGIED  258 (617)
Q Consensus       186 ~Dis~---~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evSAktg~gI~e  258 (617)
                      +|+++   +.+++.+..|+.++..+..  ..+|++||+||+|+...+    +...++++.+.  ++++++||+++.||++
T Consensus       244 vD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~tg~gi~e  319 (342)
T 1lnz_A          244 IDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTREGLRE  319 (342)
T ss_dssp             EESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTTHH
T ss_pred             EECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCCCcCHHH
Confidence            99998   7789999999999988653  358999999999986532    34456666666  6899999999999999


Q ss_pred             HHHHHHHHHH
Q psy3029         259 VFLNVSKGLI  268 (617)
Q Consensus       259 Lf~~I~~~l~  268 (617)
                      |+++|.+.+.
T Consensus       320 L~~~l~~~l~  329 (342)
T 1lnz_A          320 LLFEVANQLE  329 (342)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999988774

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.71  E-value=5.4e-18  Score=183.05  Aligned_cols=156  Identities=20%  Similarity=0.172  Sum_probs=113.2

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ...++|+++|.                      .|||||||+++|++..+. ....+....+...+.+...+. ..+.+|
T Consensus        32 ~~~~kI~IvG~----------------------~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~li   88 (423)
T 3qq5_A           32 GFRRYIVVAGR----------------------RNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLV   88 (423)
T ss_dssp             CCCEEEEEECS----------------------CSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEE
T ss_pred             CCCEEEEEECC----------------------CCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEE
Confidence            35679999999                      999999999999987752 222233333444455555543 378999


Q ss_pred             ecCCccccccc-------chhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH
Q psy3029         161 DTAGQERFRSM-------APMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE  233 (617)
Q Consensus       161 Dt~G~e~~~~~-------~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e  233 (617)
                      ||+|++++..+       ...++..+|++|+|||+...   .....|+..+.+.   ++|+++|+||+|+...+..  +.
T Consensus        89 DTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~  160 (423)
T 3qq5_A           89 DTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--EL  160 (423)
T ss_dssp             ECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HH
T ss_pred             ECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HH
Confidence            99999877654       34578899999999998332   2335677776664   4799999999999766543  55


Q ss_pred             HHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       234 ~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ...+++.++++++++||++|.|++++|+.|.+.+.
T Consensus       161 ~~~l~~~~g~~v~~vSAktg~gI~eL~~~L~~~l~  195 (423)
T 3qq5_A          161 KGLYESRYEAKVLLVSALQKKGFDDIGKTISEILP  195 (423)
T ss_dssp             HHHSSCCTTCCCCCCSSCCTTSTTTHHHHHHHHSC
T ss_pred             HHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHhhh
Confidence            66777788899999999999999999999988763

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.70  E-value=1.2e-17  Score=173.13  Aligned_cols=154  Identities=16%  Similarity=0.079  Sum_probs=103.4

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc---------cccccchhhhcc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE---------RFRSMAPMYYRN  178 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e---------~~~~~~~~~~~~  178 (617)
                      +++|+|.+|||||||+|+|++.++. ...+.++.++......+......+.+|||||+.         .+......+++.
T Consensus        10 ~VaIvG~~nvGKSTLln~L~g~~~~-i~s~~~~tTr~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~   88 (301)
T 1ega_A           10 FIAIVGRPNVGKSTLLNKLLGQKIS-ITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGD   88 (301)
T ss_dssp             EEEEECSSSSSHHHHHHHHHTCSEE-ECCCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCcc-ccCCCCCcceeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhc
Confidence            3334444999999999999988652 122222222221111122234678999999987         344555677889


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHH
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIE  257 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~  257 (617)
                      +|++++|+|+++   +.....|+.....  ....|+++|+||+|+...+....+....++..++. .++++||+++.|++
T Consensus        89 ~D~vl~Vvd~~~---~~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~  163 (301)
T 1ega_A           89 VELVIFVVEGTR---WTPDDEMVLNKLR--EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVD  163 (301)
T ss_dssp             EEEEEEEEETTC---CCHHHHHHHHHHH--SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHH
T ss_pred             CCEEEEEEeCCC---CCHHHHHHHHHHH--hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCCHH
Confidence            999999999976   3333445544333  23479999999999875222223445556666676 79999999999999


Q ss_pred             HHHHHHHHHH
Q psy3029         258 DVFLNVSKGL  267 (617)
Q Consensus       258 eLf~~I~~~l  267 (617)
                      ++++.|...+
T Consensus       164 ~l~~~i~~~l  173 (301)
T 1ega_A          164 TIAAIVRKHL  173 (301)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHHhC
Confidence            9999987654

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.69  E-value=1.7e-17  Score=182.10  Aligned_cols=153  Identities=18%  Similarity=0.206  Sum_probs=112.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .++|+|+|.                      +|||||||+|+|++..+. ....+....++....+.+++  ..+.||||
T Consensus       243 ~~kV~ivG~----------------------pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DT  298 (482)
T 1xzp_A          243 GLRMVIVGK----------------------PNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDT  298 (482)
T ss_dssp             CEEEEEECC----------------------HHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEES
T ss_pred             CCEEEEECc----------------------CCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEEC
Confidence            379999999                      999999999999987531 22233334444455566655  46899999


Q ss_pred             CCcc-cccc--------cchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH
Q psy3029         163 AGQE-RFRS--------MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE  233 (617)
Q Consensus       163 ~G~e-~~~~--------~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e  233 (617)
                      +|.. ++..        ....+++.+|++|+|||++++.+++... ++..+     ..+|+++|+||+|+...  +..++
T Consensus       299 aG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~  370 (482)
T 1xzp_A          299 AGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEE  370 (482)
T ss_dssp             SCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHH
T ss_pred             CCccccchhhHHHHHHHHHHHHhhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHH
Confidence            9987 5542        2346788999999999999988776543 33333     24699999999999653  34444


Q ss_pred             HHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       234 ~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +..++. .+++++++||++|.||++++++|.+.+..
T Consensus       371 ~~~~~~-~~~~~i~iSAktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          371 IKNKLG-TDRHMVKISALKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             HHHHHT-CSTTEEEEEGGGTCCHHHHHHHHHHHTHH
T ss_pred             HHHHhc-CCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            544432 44689999999999999999999987653

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.67  E-value=9.1e-16  Score=165.38  Aligned_cols=158  Identities=17%  Similarity=0.177  Sum_probs=112.2

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEE-------------
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKI-------------  148 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i-------------  148 (617)
                      ...++|+++|.                      +|+|||||+++|++.....    ..+........             
T Consensus         6 ~~~~~I~vvG~----------------------~~~GKSTLi~~L~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~   59 (403)
T 3sjy_A            6 QPEVNIGVVGH----------------------VDHGKTTLVQAITGIWTSK----KLGYAETNIGVCESCKKPEAYVTE   59 (403)
T ss_dssp             CCCCEEEEECS----------------------TTSSHHHHHHHHHSCCCCS----SSEEEEEEEEECTTSCTTTTEESS
T ss_pred             CCCcEEEEECC----------------------CCCCHHHHHHHHhCccccc----ccCccccceeeccccccccceecc
Confidence            34568888888                      9999999999999754221    11110000000             


Q ss_pred             ------EE---CCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEE
Q psy3029         149 ------NV---GENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGN  219 (617)
Q Consensus       149 ------~~---~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgN  219 (617)
                            ..   ......+.||||||+++|......++..+|++|+|+|++++.++....+|+..+.....  .|+++|+|
T Consensus        60 ~~~~~~~~~~~~~~~~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~--~~iivviN  137 (403)
T 3sjy_A           60 PSCKSCGSDDEPKFLRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGV--KNLIIVQN  137 (403)
T ss_dssp             SCCGGGTCCSCCEEEEEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTC--CCEEEEEE
T ss_pred             cccccccccccccccceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCC--CCEEEEEE
Confidence                  00   11237899999999999999999999999999999999988767777777776655432  48999999


Q ss_pred             CCCCCCccccC--HHHHHHHHHhc---CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         220 KTDLESSREVN--REEAFHYSKSI---GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       220 K~DL~~~~~v~--~~e~~~~~~~~---g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      |+|+.+.....  .++..++....   +++++++||++|.||++|++.|.+.+
T Consensus       138 K~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l  190 (403)
T 3sjy_A          138 KVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  190 (403)
T ss_dssp             CGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             CccccchHHHHHHHHHHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhC
Confidence            99997543211  12233333322   46899999999999999999988755

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.67  E-value=5.8e-17  Score=177.12  Aligned_cols=153  Identities=21%  Similarity=0.189  Sum_probs=102.6

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ..++|+|+|.                      +|||||||+|+|++..+. ....++.+.++....+.+++  ..+.+||
T Consensus       223 ~~~kV~ivG~----------------------~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liD  278 (462)
T 3geh_A          223 TGLKVAIVGR----------------------PNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLD  278 (462)
T ss_dssp             HCEEEEEEEC----------------------TTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC
T ss_pred             CCCEEEEEcC----------------------CCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEE
Confidence            4579999999                      999999999999986532 22234444444444555555  4679999


Q ss_pred             cCCcccccccc--------hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH
Q psy3029         162 TAGQERFRSMA--------PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE  233 (617)
Q Consensus       162 t~G~e~~~~~~--------~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e  233 (617)
                      |+|..++...+        ..++..+|++|+|+|++++.+... ..|+..+..     .|+++|+||+|+.....+.  .
T Consensus       279 T~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~~-----~piivV~NK~Dl~~~~~~~--~  350 (462)
T 3geh_A          279 TAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGD-QEIYEQVKH-----RPLILVMNKIDLVEKQLIT--S  350 (462)
T ss_dssp             --------------------CCCCSCSEEEEEEETTTCSCHHH-HHHHHHHTT-----SCEEEEEECTTSSCGGGST--T
T ss_pred             CCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHH-HHHHHhccC-----CcEEEEEECCCCCcchhhH--H
Confidence            99986554332        336789999999999998776554 455555532     5999999999997654432  1


Q ss_pred             HHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         234 AFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       234 ~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ...+.  .+.+++++||++|.|++++++.|.+.+..
T Consensus       351 ~~~~~--~~~~~i~iSAktg~Gi~eL~~~i~~~~~~  384 (462)
T 3geh_A          351 LEYPE--NITQIVHTAAAQKQGIDSLETAILEIVQT  384 (462)
T ss_dssp             CCCCT--TCCCEEEEBTTTTBSHHHHHHHHHHHHTT
T ss_pred             HHHhc--cCCcEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            11111  35689999999999999999999887743

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.67  E-value=7.7e-16  Score=166.21  Aligned_cols=157  Identities=17%  Similarity=0.209  Sum_probs=102.5

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC---CCCCccCC--CcceeEEEEEEEE-------
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK---MFSHHISP--TIGASFFTAKINV-------  150 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~---~~~~~~~~--t~g~~~~~~~i~~-------  150 (617)
                      ..++|+++|.                      .++|||||+++|++.   .+.....+  |+...+....+..       
T Consensus         7 ~~~~I~iiG~----------------------~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y   64 (408)
T 1s0u_A            7 AEVNIGMVGH----------------------VDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTY   64 (408)
T ss_dssp             CCEEEEEESC----------------------TTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCE
T ss_pred             CceEEEEEcC----------------------CCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccc
Confidence            4468888888                      999999999999854   23333334  5555554443322       


Q ss_pred             ------C--C----eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh----hhHHHHHHHHHHHHhcCCCCCeE
Q psy3029         151 ------G--E----NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY----HSFAAIKTWVKELKRNVDEPLVL  214 (617)
Q Consensus       151 ------~--~----~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~----~S~~~l~~~l~~i~~~~~~~iPv  214 (617)
                            +  +    ....+.||||||+++|.......+..+|++|+|+|++++    .+++.+.    .+... . ..|+
T Consensus        65 ~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~l-~-~~~i  138 (408)
T 1s0u_A           65 TTKPRCPNCLAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEIL-G-IDKI  138 (408)
T ss_dssp             ESSSBCTTSCCBCEEEEEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHHT-T-CCCE
T ss_pred             cccccccccCcccccccEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHHc-C-CCeE
Confidence                  1  1    137899999999999877766777789999999999864    3444433    22222 1 1379


Q ss_pred             EEEEECCCCCCccc--cCHHHHHHHHHh---cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         215 CVVGNKTDLESSRE--VNREEAFHYSKS---IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       215 IlVgNK~DL~~~~~--v~~~e~~~~~~~---~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++|+||+|+.....  ...+++.+++..   .+++++++||++|.||++|++.|.+.+
T Consensus       139 ivv~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i  196 (408)
T 1s0u_A          139 IIVQNKIDLVDEKQAEENYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFI  196 (408)
T ss_dssp             EEEEECTTSSCTTTTTTHHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHS
T ss_pred             EEEEEccCCCCHHHHHHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            99999999976433  234556666654   356899999999999999999987654

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.67  E-value=2.8e-16  Score=171.30  Aligned_cols=159  Identities=22%  Similarity=0.168  Sum_probs=105.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCccee--EEEEEEEECCeEEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGAS--FFTAKINVGENKVKLQVW  160 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~--~~~~~i~~~~~~~~l~i~  160 (617)
                      ..++|+|+|+                      +|||||||+|+|++.... ...+..|.+  .....+.+++.  .+.+|
T Consensus       179 ~~~kvaivG~----------------------~gvGKSTLln~l~g~~~~-~v~~~~gtT~d~~~~~i~~~g~--~~~l~  233 (439)
T 1mky_A          179 DAIKVAIVGR----------------------PNVGKSTLFNAILNKERA-LVSPIPGTTRDPVDDEVFIDGR--KYVFV  233 (439)
T ss_dssp             SCEEEEEECS----------------------TTSSHHHHHHHHHTSTTE-EECCCC------CCEEEEETTE--EEEES
T ss_pred             cCceEEEECC----------------------CCCCHHHHHHHHhCCccc-ccCCCCCCcCCceEEEEEECCE--EEEEE
Confidence            3478888888                      999999999999987641 222333333  23344556665  57899


Q ss_pred             ecCCccccccc------------chhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc
Q psy3029         161 DTAGQERFRSM------------APMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE  228 (617)
Q Consensus       161 Dt~G~e~~~~~------------~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~  228 (617)
                      ||+|..++...            ...+++.+|++++|+|+++..+..+. .+...+..   ..+|+++|+||+|+...+.
T Consensus       234 Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~  309 (439)
T 1mky_A          234 DTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHRE  309 (439)
T ss_dssp             SCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGG
T ss_pred             ECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchh
Confidence            99998443221            13467789999999999887666542 22333332   3479999999999976554


Q ss_pred             cCHHHHH-----HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         229 VNREEAF-----HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       229 v~~~e~~-----~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ...++..     .++...+++++++||++|.||+++|+.|.+.+...
T Consensus       310 ~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          310 KRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             GCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCCCCcEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            3333332     22223356999999999999999999998766543

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.67  E-value=5.8e-16  Score=164.43  Aligned_cols=153  Identities=20%  Similarity=0.060  Sum_probs=101.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc---------ccccchhhhccCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER---------FRSMAPMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~---------~~~~~~~~~~~ad~iIlV  185 (617)
                      +|||||||+|+|++..+.....+....+.....+.+++  ..+.+|||+|..+         |... ...+..+|++++|
T Consensus       188 ~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~t-l~~~~~aD~il~V  264 (364)
T 2qtf_A          188 TNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVT-LSEAKYSDALILV  264 (364)
T ss_dssp             TTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHH-HHGGGGSSEEEEE
T ss_pred             CCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHH-HHHHHhCCEEEEE
Confidence            99999999999998765322222222233455666666  4678999999722         2222 2357789999999


Q ss_pred             EeCCChh--hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC-HHHHHHHHHhc---CCeEEEEcCCCCCCHHHH
Q psy3029         186 FDITQYH--SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN-REEAFHYSKSI---GGTYYETSALQDQGIEDV  259 (617)
Q Consensus       186 ~Dis~~~--S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~-~~e~~~~~~~~---g~~~~evSAktg~gI~eL  259 (617)
                      +|++++.  ....+..|...+.......+|+++|+||+|+.+..... .+.+..++..+   +.+++++||+++.|++++
T Consensus       265 vD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi~~L  344 (364)
T 2qtf_A          265 IDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLELL  344 (364)
T ss_dssp             EETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTTTBSHHHH
T ss_pred             EECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCCCcCHHHH
Confidence            9999876  56666666666655444457999999999986533100 11232344544   237899999999999999


Q ss_pred             HHHHHHHHHHh
Q psy3029         260 FLNVSKGLICL  270 (617)
Q Consensus       260 f~~I~~~l~~~  270 (617)
                      ++.|.+.+...
T Consensus       345 ~~~I~~~l~~~  355 (364)
T 2qtf_A          345 RDKIYQLATQL  355 (364)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhccc
Confidence            99998877553

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.66  E-value=1.1e-16  Score=159.70  Aligned_cols=161  Identities=14%  Similarity=0.150  Sum_probs=103.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCC--CcceeEEEEEEEECCeEEEEEE
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISP--TIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~--t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      ...++|+|+|.                      +|||||||+|+|++..+.....+  +...+.....+.+.+  ..+.|
T Consensus        27 ~~~~~i~lvG~----------------------~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~l   82 (239)
T 3lxx_A           27 NSQLRIVLVGK----------------------TGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVV   82 (239)
T ss_dssp             -CEEEEEEECC----------------------TTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEE
T ss_pred             CCceEEEEECC----------------------CCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEE
Confidence            44579999999                      99999999999999887554444  333344444445554  46899


Q ss_pred             EecCCcc-----------cccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCc
Q psy3029         160 WDTAGQE-----------RFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESS  226 (617)
Q Consensus       160 ~Dt~G~e-----------~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~  226 (617)
                      |||||..           .+...+..++..+|++|+|+|+++....  ...|+..+.....  ...|++||+||+|+...
T Consensus        83 iDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~  160 (239)
T 3lxx_A           83 VDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDLGD  160 (239)
T ss_dssp             EECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC--
T ss_pred             EECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccCCc
Confidence            9999953           3334444556688999999998764331  1223333322111  12489999999998655


Q ss_pred             cccC------HHHHHHHHHhcCCeEEEEcCCCC-----CCHHHHHHHHHHHHH
Q psy3029         227 REVN------REEAFHYSKSIGGTYYETSALQD-----QGIEDVFLNVSKGLI  268 (617)
Q Consensus       227 ~~v~------~~e~~~~~~~~g~~~~evSAktg-----~gI~eLf~~I~~~l~  268 (617)
                      ..+.      .+.+..+++.++..++.+++..+     .++.+|++.+...+.
T Consensus       161 ~~~~~~i~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~  213 (239)
T 3lxx_A          161 TNLHDYLREAPEDIQDLMDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVR  213 (239)
T ss_dssp             ----------CHHHHHHHHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHhchHHHHHHHHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHH
Confidence            4333      23566778888888888887754     688888888777654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.66  E-value=9.8e-17  Score=163.83  Aligned_cols=158  Identities=14%  Similarity=0.197  Sum_probs=94.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC-CCcc-------CCCcceeEEEEEEEECCeE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF-SHHI-------SPTIGASFFTAKINVGENK  154 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~-~~~~-------~~t~g~~~~~~~i~~~~~~  154 (617)
                      ..++|+++|.                      +|||||||+|+|++... ...+       .+|++.+.....+..++..
T Consensus         7 ~~~~I~vvG~----------------------~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~   64 (274)
T 3t5d_A            7 FEFTLMVVGE----------------------SGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQ   64 (274)
T ss_dssp             CEEEEEEEEC----------------------TTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CC
T ss_pred             cEEEEEEECC----------------------CCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeE
Confidence            3578999998                      99999999999876543 3333       5777777666666555666


Q ss_pred             EEEEEEecCCcc-------cccccc-------hhhhcc-------------CCEEEEEEeCCChhhHHHH-HHHHHHHHh
Q psy3029         155 VKLQVWDTAGQE-------RFRSMA-------PMYYRN-------------ANAALLVFDITQYHSFAAI-KTWVKELKR  206 (617)
Q Consensus       155 ~~l~i~Dt~G~e-------~~~~~~-------~~~~~~-------------ad~iIlV~Dis~~~S~~~l-~~~l~~i~~  206 (617)
                      +.+.||||||..       .+..+.       ..|+..             +|+++++++.+... +... ..++..+..
T Consensus        65 ~~l~liDTpG~~d~~~~~~~~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~-~~~~d~~~l~~l~~  143 (274)
T 3t5d_A           65 LLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHG-LKPLDIEFMKRLHE  143 (274)
T ss_dssp             EEEEEEECCCCSCCSCCTTTTHHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSS-CCHHHHHHHHHHTT
T ss_pred             EEEEEEECCCccccccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCC-CCHHHHHHHHHHhc
Confidence            799999999973       222222       334433             78999999765522 2222 234454443


Q ss_pred             cCCCCCeEEEEEECCCCCCccccC--HHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         207 NVDEPLVLCVVGNKTDLESSREVN--REEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       207 ~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                          .+|+|+|+||+|+....+..  .+.+.+.+...+++++++||+++.|+++++++|.+.+
T Consensus       144 ----~~pvi~V~nK~D~~~~~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          144 ----KVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             ----TSCEEEEESSGGGSCHHHHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             ----cCCEEEEEeccCCCCHHHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence                57999999999986543321  1234455566788999999999999999998887643

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.65  E-value=6.5e-16  Score=156.08  Aligned_cols=161  Identities=16%  Similarity=0.210  Sum_probs=104.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCC-CCCccCCC-cceeEEEEEEEECCeEEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM-FSHHISPT-IGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~-~~~~~~~t-~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ..++|+|+|.                      +|||||||+++|++.. +...+.++ ...+.....+...+  ..+.||
T Consensus        21 ~~~~I~lvG~----------------------~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~ii   76 (260)
T 2xtp_A           21 SELRIILVGK----------------------TGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVII   76 (260)
T ss_dssp             CCEEEEEEEC----------------------TTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEE
T ss_pred             CceEEEEECC----------------------CCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEE
Confidence            4579999999                      9999999999999876 44334443 33344444444444  568999


Q ss_pred             ecCCcccccccc-----------hhhhccCCEEEEEEeCCChhhH-HHHHHHHHHHHhcCCCCCeEEEEEE-CCCCCCcc
Q psy3029         161 DTAGQERFRSMA-----------PMYYRNANAALLVFDITQYHSF-AAIKTWVKELKRNVDEPLVLCVVGN-KTDLESSR  227 (617)
Q Consensus       161 Dt~G~e~~~~~~-----------~~~~~~ad~iIlV~Dis~~~S~-~~l~~~l~~i~~~~~~~iPvIlVgN-K~DL~~~~  227 (617)
                      ||||+..+....           ..+++.+|++|+|+|+++.... ..+.+|+..+..... ..|+++|+| |+|+... 
T Consensus        77 DTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~-~~~~i~vv~nK~Dl~~~-  154 (260)
T 2xtp_A           77 DTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDA-MGHTIVLFTHKEDLNGG-  154 (260)
T ss_dssp             ECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGG-GGGEEEEEECGGGGTTC-
T ss_pred             ECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchh-hccEEEEEEcccccCCc-
Confidence            999987654322           2367889999999999862222 223334443321111 235556665 9999743 


Q ss_pred             ccCH-------HHHHHHHHhcCCe---E--EEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         228 EVNR-------EEAFHYSKSIGGT---Y--YETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       228 ~v~~-------~e~~~~~~~~g~~---~--~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .+..       +++..++..++..   +  +++||+++.|++++|+.|.+.+..
T Consensus       155 ~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          155 SLMDYMHDSDNKALSKLVAACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLME  208 (260)
T ss_dssp             CHHHHHHHCCCHHHHHHHHHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHhcchHHHHHHHHHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHh
Confidence            2211       2234455555542   2  789999999999999999988765

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.65  E-value=4.7e-16  Score=169.38  Aligned_cols=155  Identities=16%  Similarity=0.169  Sum_probs=103.7

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC--CCc-------------------------
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF--SHH-------------------------  134 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~--~~~-------------------------  134 (617)
                      ...++|+++|.                      +|+|||||+++|+...-  ...                         
T Consensus        15 k~~~~i~iiG~----------------------~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~   72 (439)
T 3j2k_7           15 KEHVNVVFIGH----------------------VDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDT   72 (439)
T ss_pred             CceeEEEEEeC----------------------CCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhcc
Confidence            34578999999                      99999999999964310  000                         


Q ss_pred             --cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh---HH---HHHHHHHHHHh
Q psy3029         135 --ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS---FA---AIKTWVKELKR  206 (617)
Q Consensus       135 --~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S---~~---~l~~~l~~i~~  206 (617)
                        .....|.++......+......+.||||||+++|...+..+++.+|++|||+|+++...   |.   ...+.+..+..
T Consensus        73 ~~~er~~GiTid~~~~~~~~~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~  152 (439)
T 3j2k_7           73 NQEERDKGKTVEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT  152 (439)
T ss_pred             chhHhhcCceEEEeEEEEecCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH
Confidence              00112344444444444455689999999999999888889999999999999988632   21   11222222222


Q ss_pred             cCCCCCe-EEEEEECCCCCCcc------ccCHHHHHHHHHhcC------CeEEEEcCCCCCCHHHHHH
Q psy3029         207 NVDEPLV-LCVVGNKTDLESSR------EVNREEAFHYSKSIG------GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       207 ~~~~~iP-vIlVgNK~DL~~~~------~v~~~e~~~~~~~~g------~~~~evSAktg~gI~eLf~  261 (617)
                         ..+| +|||+||+|+....      +...++...+++.++      ++++++||++|.|++++++
T Consensus       153 ---~~v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          153 ---AGVKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             ---cCCCeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence               2355 99999999985321      111234445555555      3699999999999999766

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.65  E-value=3.7e-16  Score=149.70  Aligned_cols=115  Identities=14%  Similarity=0.236  Sum_probs=88.1

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCC---ccCCCcceeEEEEEEEECCeEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSH---HISPTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~---~~~~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      ..++|+++|.                      +|||||||+++|++..+..   .+.++.+.++         ..+.+.+
T Consensus        47 ~~~~i~vvG~----------------------~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l   95 (193)
T 2ged_A           47 YQPSIIIAGP----------------------QNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTL   95 (193)
T ss_dssp             CCCEEEEECC----------------------TTSSHHHHHHHHHHSSCC------------CC---------CCTTCSE
T ss_pred             CCCEEEEECC----------------------CCCCHHHHHHHHhcCCCCcccccCCCceeeee---------cCCeEEE
Confidence            3469999999                      9999999999999887543   2223332221         4467899


Q ss_pred             EecCCcccccccchhhhcc----CCEEEEEEeCC-ChhhHHHHHHHHHHHHhc----CCCCCeEEEEEECCCCCCccc
Q psy3029         160 WDTAGQERFRSMAPMYYRN----ANAALLVFDIT-QYHSFAAIKTWVKELKRN----VDEPLVLCVVGNKTDLESSRE  228 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~~~~~----ad~iIlV~Dis-~~~S~~~l~~~l~~i~~~----~~~~iPvIlVgNK~DL~~~~~  228 (617)
                      |||+|++.+...+..++..    +|++|+|||++ ++.++..+..|+..+...    ....+|++||+||+|+...+.
T Consensus        96 ~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A           96 VDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             EEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             EECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCC
Confidence            9999999998888888876    89999999999 888999998888877553    234689999999999976543

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.64  E-value=4.6e-16  Score=171.54  Aligned_cols=154  Identities=17%  Similarity=0.205  Sum_probs=100.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC--CC--------------------------
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF--SH--------------------------  133 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~--~~--------------------------  133 (617)
                      ...++|+++|.                      +|+|||||+++|+....  ..                          
T Consensus        31 k~~~ki~iiG~----------------------~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~   88 (483)
T 3p26_A           31 LPHLSFVVLGH----------------------VDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQ   88 (483)
T ss_dssp             CCEEEEEEESC----------------------GGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------
T ss_pred             CCceEEEEECC----------------------CCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhcc
Confidence            45689999999                      99999999999975411  00                          


Q ss_pred             -ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHH------HHHHHHHHHh
Q psy3029         134 -HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAA------IKTWVKELKR  206 (617)
Q Consensus       134 -~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~------l~~~l~~i~~  206 (617)
                       ......|.++......+....+.+.||||||+++|......+++.+|++|+|+|++++.++..      ..+.+..+..
T Consensus        89 ~~~e~~~GiTi~~~~~~~~~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~  168 (483)
T 3p26_A           89 TNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS  168 (483)
T ss_dssp             ------CCSSCCCCEEEEECSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHH
T ss_pred             chhHhhcCcceEeeeEEEecCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHH
Confidence             001122444444444455556789999999999999999999999999999999998754322      1122222222


Q ss_pred             cCCCCCeEEEEEECCCCCCccccCHHH----HHHHHHhcC-----CeEEEEcCCCCCCHHHH
Q psy3029         207 NVDEPLVLCVVGNKTDLESSREVNREE----AFHYSKSIG-----GTYYETSALQDQGIEDV  259 (617)
Q Consensus       207 ~~~~~iPvIlVgNK~DL~~~~~v~~~e----~~~~~~~~g-----~~~~evSAktg~gI~eL  259 (617)
                       .. ..|+|||+||+|+...++...++    +..++..++     ++++++||++|.||+++
T Consensus       169 -~~-~~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          169 -LG-IHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             -TT-CCCEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             -cC-CCcEEEEEECcCcccchHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence             22 13699999999997533322232    333444333     58999999999999864

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.64  E-value=9.8e-16  Score=172.07  Aligned_cols=147  Identities=20%  Similarity=0.239  Sum_probs=102.2

Q ss_pred             CCCCHHHHHHHHHcCC--CC-----Ccc------CCCcceeEEEEEEEE-----CCeEEEEEEEecCCcccccccchhhh
Q psy3029         115 LGVGKTSMVVRYIGKM--FS-----HHI------SPTIGASFFTAKINV-----GENKVKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~--~~-----~~~------~~t~g~~~~~~~i~~-----~~~~~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      .++|||||+++|+...  +.     ..+      ..+.|.++....+.+     ++..+.++||||||+.+|...+..++
T Consensus        13 ~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~dF~~ev~~~l   92 (599)
T 3cb4_D           13 IDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVDFSYEVSRSL   92 (599)
T ss_dssp             C----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCGGGHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCchHHHHHHHHHH
Confidence            9999999999998521  11     111      123455544333333     45578999999999999999999999


Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC---eEEEEcCCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG---TYYETSALQD  253 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~---~~~evSAktg  253 (617)
                      +.+|++|+|+|+++..+++....|...+.    .++|+++|+||+|+...+  ..+...++...+++   +++++||++|
T Consensus        93 ~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~vSAktg  166 (599)
T 3cb4_D           93 AACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDATDAVRCSAKTG  166 (599)
T ss_dssp             HHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCTTCEEECTTTC
T ss_pred             HHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcceEEEeecccC
Confidence            99999999999999877777777765543    347999999999997543  12334456666676   4999999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGL  267 (617)
Q Consensus       254 ~gI~eLf~~I~~~l  267 (617)
                      .||+++++.|.+.+
T Consensus       167 ~GI~~Ll~~I~~~l  180 (599)
T 3cb4_D          167 VGVQDVLERLVRDI  180 (599)
T ss_dssp             TTHHHHHHHHHHHS
T ss_pred             CCchhHHHHHhhcC
Confidence            99999999998765

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.63  E-value=1.2e-16  Score=169.68  Aligned_cols=151  Identities=17%  Similarity=0.264  Sum_probs=86.3

Q ss_pred             CCCCHHHHHHHHHcCC-CCCcc--------CCCcceeEEEEEEEECCeEEEEEEEecCCc-------ccccccch-----
Q psy3029         115 LGVGKTSMVVRYIGKM-FSHHI--------SPTIGASFFTAKINVGENKVKLQVWDTAGQ-------ERFRSMAP-----  173 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~-~~~~~--------~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~-------e~~~~~~~-----  173 (617)
                      +|||||||+++|++.. +...+        .+|++.++....+...+..+.+.+|||+|+       +.+..+..     
T Consensus        46 ~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~  125 (361)
T 2qag_A           46 SGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQ  125 (361)
T ss_dssp             TTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------CCTHHHHHHH
T ss_pred             CCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHHHHHHHHHHH
Confidence            9999999999987543 22222        245555544444444566778999999999       77777766     


Q ss_pred             --hhhccCCEE-----------EEEEeCCC-hhhHHHHH-HHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--HHHHH
Q psy3029         174 --MYYRNANAA-----------LLVFDITQ-YHSFAAIK-TWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--EEAFH  236 (617)
Q Consensus       174 --~~~~~ad~i-----------IlV~Dis~-~~S~~~l~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--~e~~~  236 (617)
                        .|++.++++           ++||++++ ..++..++ .|+..+    ...+|+|+|+||+|+...+++..  +++..
T Consensus       126 ~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~ev~~~k~~i~~  201 (361)
T 2qag_A          126 FERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLKERERLKKRILD  201 (361)
T ss_dssp             HHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence              666654433           35555544 44565555 454443    24589999999999977655544  56677


Q ss_pred             HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         237 YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       237 ~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++..++++++++||+++.+ ++.|..+...+...
T Consensus       202 ~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~  234 (361)
T 2qag_A          202 EIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKAS  234 (361)
T ss_dssp             HTTCC-CCSCCCC----------CHHHHHHHHHT
T ss_pred             HHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhc
Confidence            7888899999999999999 88888888877553

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.63  E-value=1e-15  Score=168.57  Aligned_cols=155  Identities=15%  Similarity=0.135  Sum_probs=107.3

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCC-------CCCccCCCcceeEEEEEEEECCeEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM-------FSHHISPTIGASFFTAKINVGENKV  155 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~-------~~~~~~~t~g~~~~~~~i~~~~~~~  155 (617)
                      ..++|+++|.                      +++|||||+++|++..       +.....+.+..+.....+..++  .
T Consensus        18 ~~~~I~iiG~----------------------~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~   73 (482)
T 1wb1_A           18 KNINLGIFGH----------------------IDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--Y   73 (482)
T ss_dssp             EEEEEEEEEC----------------------TTSSHHHHHHHHHTTC--------------------CCCEEEETT--E
T ss_pred             CCCEEEEECC----------------------CCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--E
Confidence            3578888888                      9999999999999765       1222222222222222233333  6


Q ss_pred             EEEEEecCCcccccccchhhhccCCEEEEEEeCCC---hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc--cC
Q psy3029         156 KLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ---YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE--VN  230 (617)
Q Consensus       156 ~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~---~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--v~  230 (617)
                      .+.||||||+++|...+..++..+|++|+|+|+++   +.+++.+    ..+..   ..+|+++|+||+|+.++..  ..
T Consensus        74 ~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l----~~~~~---~~ip~IvviNK~Dl~~~~~~~~~  146 (482)
T 1wb1_A           74 RITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHM----LILDH---FNIPIIVVITKSDNAGTEEIKRT  146 (482)
T ss_dssp             EEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHH----HHHHH---TTCCBCEEEECTTSSCHHHHHHH
T ss_pred             EEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHH----HHHHH---cCCCEEEEEECCCcccchhHHHH
Confidence            79999999999998888889999999999999988   3344333    22322   2368899999999975322  12


Q ss_pred             HHHHHHHHHhc----CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         231 REEAFHYSKSI----GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       231 ~~e~~~~~~~~----g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      .+++.+++...    +++++++||++|.||++|++.|.+.+.
T Consensus       147 ~~~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          147 EMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             HHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            33445555554    568999999999999999999988775

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.63  E-value=2.4e-15  Score=162.50  Aligned_cols=147  Identities=17%  Similarity=0.170  Sum_probs=101.2

Q ss_pred             CCCCHHHHHHHHHcC---CCCCccCC--CcceeEEEEEEEEC---------------C----eEEEEEEEecCCcccccc
Q psy3029         115 LGVGKTSMVVRYIGK---MFSHHISP--TIGASFFTAKINVG---------------E----NKVKLQVWDTAGQERFRS  170 (617)
Q Consensus       115 ~nVGKSSLinrl~~~---~~~~~~~~--t~g~~~~~~~i~~~---------------~----~~~~l~i~Dt~G~e~~~~  170 (617)
                      .++|||||+++|++.   .+.....+  |+...+....+...               +    ....+.||||||+++|..
T Consensus        19 ~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~   98 (410)
T 1kk1_A           19 VDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMT   98 (410)
T ss_dssp             TTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHHHHHH
T ss_pred             CCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEEECCChHHHHH
Confidence            999999999999853   23333334  55555444333221               1    137899999999999887


Q ss_pred             cchhhhccCCEEEEEEeCCCh----hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc--cCHHHHHHHHHh---c
Q psy3029         171 MAPMYYRNANAALLVFDITQY----HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE--VNREEAFHYSKS---I  241 (617)
Q Consensus       171 ~~~~~~~~ad~iIlV~Dis~~----~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~--v~~~e~~~~~~~---~  241 (617)
                      .....+..+|++|+|+|+++.    .+++.+..    +....  ..|+++|+||+|+.....  ...+++.+++..   .
T Consensus        99 ~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~  172 (410)
T 1kk1_A           99 TMLAGASLMDGAILVIAANEPCPRPQTREHLMA----LQIIG--QKNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAE  172 (410)
T ss_dssp             HHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHH----HHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTT
T ss_pred             HHHhhhhhCCEEEEEEECCCCCCChhHHHHHHH----HHHcC--CCcEEEEEECccCCCHHHHHHHHHHHHHHHHhcCcC
Confidence            777777889999999999864    34444332    22221  147999999999975432  123445555544   3


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++++++||++|.||++|++.|...+
T Consensus       173 ~~~~i~vSA~~g~gi~~L~~~l~~~~  198 (410)
T 1kk1_A          173 NAPIIPISALHGANIDVLVKAIEDFI  198 (410)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            56999999999999999999987654

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.63  E-value=1.4e-15  Score=170.51  Aligned_cols=147  Identities=22%  Similarity=0.253  Sum_probs=104.0

Q ss_pred             CCCCHHHHHHHHHcC--CCC-----CccCC------CcceeEE----EEEEEE-CCeEEEEEEEecCCcccccccchhhh
Q psy3029         115 LGVGKTSMVVRYIGK--MFS-----HHISP------TIGASFF----TAKINV-GENKVKLQVWDTAGQERFRSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--~~~-----~~~~~------t~g~~~~----~~~i~~-~~~~~~l~i~Dt~G~e~~~~~~~~~~  176 (617)
                      .++|||||+++|+..  .+.     ..+..      ..|.++.    ...+.. ++..+.++||||||+.+|...+..++
T Consensus        15 ~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~dF~~ev~r~l   94 (600)
T 2ywe_A           15 VDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHVDFSYEVSRAL   94 (600)
T ss_dssp             --CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSGGGHHHHHHHH
T ss_pred             CCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcHhHHHHHHHHH
Confidence            999999999999752  111     11111      1233322    111211 45578999999999999998888999


Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC---eEEEEcCCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG---TYYETSALQD  253 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~---~~~evSAktg  253 (617)
                      +.+|++|+|+|+++..+++....|.....    .++|+++|+||+|+....  ..+...++...+++   +++++||++|
T Consensus        95 ~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~~~vi~vSAktg  168 (600)
T 2ywe_A           95 AACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDPEEAILASAKEG  168 (600)
T ss_dssp             HTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCGGGCEECBTTTT
T ss_pred             HhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCCCcccEEEEEeecC
Confidence            99999999999999888887777765543    347999999999996543  12334456666676   4899999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy3029         254 QGIEDVFLNVSKGL  267 (617)
Q Consensus       254 ~gI~eLf~~I~~~l  267 (617)
                      .||+++++.|.+.+
T Consensus       169 ~GI~~Lle~I~~~l  182 (600)
T 2ywe_A          169 IGIEEILEAIVNRI  182 (600)
T ss_dssp             BSHHHHHHHHHHHS
T ss_pred             CCchHHHHHHHHhc
Confidence            99999999998765

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.61  E-value=3.1e-17  Score=181.63  Aligned_cols=148  Identities=15%  Similarity=0.132  Sum_probs=103.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|+|||||+++|++..+.....++++.++....+... ....+.||||||++.|..++..++..+|++|||+|+++....
T Consensus        13 ~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~   91 (537)
T 3izy_P           13 VDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMK   91 (537)
T ss_dssp             TTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCH
T ss_pred             CCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccH
Confidence            9999999999999776544444554444333333222 223689999999999999999999999999999999986655


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc-CHHHHHHH---HHhc--CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV-NREEAFHY---SKSI--GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v-~~~e~~~~---~~~~--g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +....| ..+.   ..++|++||+||+|+...... ..++...+   +..+  .++++++||++|.|+++|++.|...+
T Consensus        92 qt~e~l-~~~~---~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~l~  166 (537)
T 3izy_P           92 QTVESI-QHAK---DAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEATIALA  166 (537)
T ss_dssp             HHHHHH-HHHH---TTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHHHHH
T ss_pred             HHHHHH-HHHH---HcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHHHHhh
Confidence            443322 2322   245799999999998643211 11122221   1222  24899999999999999999998765

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.60  E-value=2.4e-15  Score=146.14  Aligned_cols=155  Identities=15%  Similarity=0.168  Sum_probs=100.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ....+|+++|+                      +|||||||+++|++..+...+.++.|.++....+.+++   .+.+||
T Consensus        24 ~~~~~v~lvG~----------------------~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~D   78 (210)
T 1pui_A           24 DTGIEVAFAGR----------------------SNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVD   78 (210)
T ss_dssp             SCSEEEEEEEC----------------------TTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEE
T ss_pred             CCCcEEEEECC----------------------CCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEE
Confidence            34568999999                      99999999999998876666677888765544444333   478999


Q ss_pred             cCCccc----------ccccchhhh---ccCCEEEEEEeCCChhhHHH--HHHHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         162 TAGQER----------FRSMAPMYY---RNANAALLVFDITQYHSFAA--IKTWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       162 t~G~e~----------~~~~~~~~~---~~ad~iIlV~Dis~~~S~~~--l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      |+|...          +......++   ..++++++|+|++++.++..  +.+|+..      ..+|+++|+||+|+.+.
T Consensus        79 t~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~------~~~~~~~v~nK~D~~s~  152 (210)
T 1pui_A           79 LPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD------SNIAVLVLLTKADKLAS  152 (210)
T ss_dssp             CCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH------TTCCEEEEEECGGGSCH
T ss_pred             CcCCcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHHH------cCCCeEEEEecccCCCc
Confidence            999742          233333444   47899999999988765532  3344432      24789999999998653


Q ss_pred             cc--cCHHHHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         227 RE--VNREEAFHYSKSIG--GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       227 ~~--v~~~e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .+  ...+.+..++...+  +.++++||+++.|++++++.|.+.+
T Consensus       153 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~  197 (210)
T 1pui_A          153 GARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  197 (210)
T ss_dssp             HHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhcCCCCceEEEeecCCCCHHHHHHHHHHHH
Confidence            22  11234555555554  4788999999999999999988765

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.60  E-value=1.9e-15  Score=158.07  Aligned_cols=129  Identities=17%  Similarity=0.180  Sum_probs=99.7

Q ss_pred             CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCC----------ChhhHHHHHHHHHHHHh
Q psy3029         137 PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDIT----------QYHSFAAIKTWVKELKR  206 (617)
Q Consensus       137 ~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis----------~~~S~~~l~~~l~~i~~  206 (617)
                      +|+|+....    +..+.+.+++|||+|+++++.++..|+++++++|||||++          +..++.+...|+..+..
T Consensus       147 ~TiGi~~~~----~~~~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~  222 (340)
T 4fid_A          147 KTTGIHEYD----FVVKDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMT  222 (340)
T ss_dssp             CCCSCEEEE----EESSSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHH
T ss_pred             ceeeeEEEE----EEeeeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhh
Confidence            456654332    2224588999999999999999999999999999999998          67788888888888765


Q ss_pred             cC-CCCCeEEEEEECCCCCCcc---------------ccCHHHHHHHHHh-c--------------------------CC
Q psy3029         207 NV-DEPLVLCVVGNKTDLESSR---------------EVNREEAFHYSKS-I--------------------------GG  243 (617)
Q Consensus       207 ~~-~~~iPvIlVgNK~DL~~~~---------------~v~~~e~~~~~~~-~--------------------------g~  243 (617)
                      .. ..++|++||+||+|+..++               ....+++.+++.. +                          .+
T Consensus       223 ~~~~~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~i  302 (340)
T 4fid_A          223 NEFLKGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKV  302 (340)
T ss_dssp             CGGGTTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEE
T ss_pred             hhccCCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcce
Confidence            43 2568999999999985321               1234555554432 2                          35


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .++++||++..||+.+|..+.+.+..
T Consensus       303 y~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          303 YTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             EEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence            78899999999999999999998876

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.59  E-value=6e-16  Score=166.88  Aligned_cols=147  Identities=16%  Similarity=0.124  Sum_probs=103.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC--------CCCCc--c-----CCCcceeEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK--------MFSHH--I-----SPTIGASFFTAK  147 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~--------~~~~~--~-----~~t~g~~~~~~~  147 (617)
                      ..++|+++|.                      +++|||||+++|++.        .+...  .     ..+.|.++....
T Consensus        10 ~~~~I~iiG~----------------------~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~   67 (405)
T 2c78_A           10 PHVNVGTIGH----------------------VDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAH   67 (405)
T ss_dssp             CEEEEEEECS----------------------TTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEE
T ss_pred             CeEEEEEEcC----------------------CCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeee
Confidence            3468888888                      999999999999862        22110  0     012344443344


Q ss_pred             EEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCc
Q psy3029         148 INVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESS  226 (617)
Q Consensus       148 i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~  226 (617)
                      ..+......+.||||||+++|......++..+|++|+|+|+++.... ...+|+..+...   .+| +++|+||+|+..+
T Consensus        68 ~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~~---~ip~iivviNK~Dl~~~  143 (405)
T 2c78_A           68 VEYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQV---GVPYIVVFMNKVDMVDD  143 (405)
T ss_dssp             EEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHHT---TCCCEEEEEECGGGCCC
T ss_pred             eEeccCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCEEEEEEECccccCc
Confidence            44444556789999999999988888899999999999999886543 334566655542   367 8899999999742


Q ss_pred             ccc---CHHHHHHHHHhcC-----CeEEEEcCCCCCC
Q psy3029         227 REV---NREEAFHYSKSIG-----GTYYETSALQDQG  255 (617)
Q Consensus       227 ~~v---~~~e~~~~~~~~g-----~~~~evSAktg~g  255 (617)
                      ...   ..+++.+++..++     ++++++||++|.|
T Consensus       144 ~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          144 PELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALE  180 (405)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccccCCCEEEccHHHhhh
Confidence            211   1234556666665     5899999999987

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.59  E-value=1.9e-15  Score=160.82  Aligned_cols=140  Identities=9%  Similarity=-0.001  Sum_probs=101.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +++|||||+++|+      ....|++..+    ..+......+.||||||+++|......+++.+|++|+|+| +. ..+
T Consensus        30 ~d~GKSTL~~~L~------~~giTi~~~~----~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~-g~~   97 (370)
T 2elf_A           30 EKSGRTSLAANLG------KKGTSSDITM----YNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQ-GLD   97 (370)
T ss_dssp             TTSSHHHHHHTTS------EEEEESSSEE----EEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TT-CCC
T ss_pred             CCCCHHHHHHHHH------hCCEEEEeeE----EEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CC-CCc
Confidence            9999999999998      1223333332    2233344579999999999998777788899999999999 54 334


Q ss_pred             HHHHHHHHHHHhcCCCCCeE-EEEEE-CCCCCCccccCH--HHHHHHHHhcC---CeEEE--EcCCC---CCCHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVL-CVVGN-KTDLESSREVNR--EEAFHYSKSIG---GTYYE--TSALQ---DQGIEDVFLN  262 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPv-IlVgN-K~DL~~~~~v~~--~e~~~~~~~~g---~~~~e--vSAkt---g~gI~eLf~~  262 (617)
                      ....+|+..+...   .+|. ++|+| |+|+ +.+.+..  +++.++++..+   +++++  +||++   +.|+++|++.
T Consensus        98 ~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~  173 (370)
T 2elf_A           98 AHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKAR  173 (370)
T ss_dssp             HHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHH
Confidence            4455666655543   2566 88999 9999 5432222  45556665543   58999  99999   9999999999


Q ss_pred             HHHHHHHh
Q psy3029         263 VSKGLICL  270 (617)
Q Consensus       263 I~~~l~~~  270 (617)
                      |.+.+...
T Consensus       174 l~~~~~~~  181 (370)
T 2elf_A          174 INEVAEKI  181 (370)
T ss_dssp             HHHHHHHH
T ss_pred             HHhhcccc
Confidence            98877543

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.59  E-value=3.1e-15  Score=162.73  Aligned_cols=154  Identities=17%  Similarity=0.152  Sum_probs=104.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCC---CCc---------cCCCc------------
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF---SHH---------ISPTI------------  139 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~---~~~---------~~~t~------------  139 (617)
                      .++|+++|.                      +++|||||+++|++...   ...         ...+.            
T Consensus        24 ~~~i~iiG~----------------------~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~   81 (434)
T 1zun_B           24 MLRFLTCGN----------------------VDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDG   81 (434)
T ss_dssp             EEEEEEECC----------------------TTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHH
T ss_pred             ceEEEEEEC----------------------CCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhcc
Confidence            478999999                      99999999999986431   000         11121            


Q ss_pred             -------ceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCC
Q psy3029         140 -------GASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPL  212 (617)
Q Consensus       140 -------g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~i  212 (617)
                             |.++......+......+.||||||+++|...+..++..+|++|+|+|+++.... ...+|+..+....  ..
T Consensus        82 ~~~E~~rGiTi~~~~~~~~~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~-qt~~~l~~~~~~~--~~  158 (434)
T 1zun_B           82 LQAEREQGITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLLG--IK  158 (434)
T ss_dssp             HHC-----CCCCCEEEEEECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHTT--CC
T ss_pred             ChhHHHCCcEEEeeeeEeecCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHcC--CC
Confidence                   2222212222333456799999999999988888889999999999999886532 2334554444321  13


Q ss_pred             eEEEEEECCCCCCccc--c--CHHHHHHHHHhcC-----CeEEEEcCCCCCCHHHHHHH
Q psy3029         213 VLCVVGNKTDLESSRE--V--NREEAFHYSKSIG-----GTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       213 PvIlVgNK~DL~~~~~--v--~~~e~~~~~~~~g-----~~~~evSAktg~gI~eLf~~  262 (617)
                      |+|+|+||+|+.....  +  ..++...+++.++     ++++++||++|.|++++++.
T Consensus       159 ~iIvviNK~Dl~~~~~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~~  217 (434)
T 1zun_B          159 HIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSER  217 (434)
T ss_dssp             EEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCTT
T ss_pred             eEEEEEEcCcCCcccHHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCccccccc
Confidence            6999999999975211  1  2345566777777     68999999999999986543

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.59  E-value=1.9e-16  Score=172.33  Aligned_cols=156  Identities=17%  Similarity=0.196  Sum_probs=103.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC--CCCCcc-------------------------
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK--MFSHHI-------------------------  135 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~--~~~~~~-------------------------  135 (617)
                      ..++|+++|.                      +++|||||+++|+..  .+....                         
T Consensus         5 ~~~~I~iiG~----------------------~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~   62 (435)
T 1jny_A            5 PHLNLIVIGH----------------------VDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRL   62 (435)
T ss_dssp             CEEEEEEEES----------------------TTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHH
T ss_pred             CEEEEEEEeC----------------------CCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccC
Confidence            3468888888                      999999999999864  222110                         


Q ss_pred             --CCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC----C
Q psy3029         136 --SPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV----D  209 (617)
Q Consensus       136 --~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~----~  209 (617)
                        ....|.++......+......+.||||||+++|...+..++..+|++|+|+|+++ .+|+.+..|..+..++.    .
T Consensus        63 ~~E~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~  141 (435)
T 1jny_A           63 KEERERGVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKT  141 (435)
T ss_dssp             HHC-----------CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHH
T ss_pred             hHHHhcCceeEeeEEEEecCCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHH
Confidence              0012222222222344455689999999999999888889999999999999998 66775544333322211    0


Q ss_pred             CCC-eEEEEEECCCCCCcc------ccCHHHHHHHHHhcC-----CeEEEEcCCCCCCHHHHHH
Q psy3029         210 EPL-VLCVVGNKTDLESSR------EVNREEAFHYSKSIG-----GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       210 ~~i-PvIlVgNK~DL~~~~------~v~~~e~~~~~~~~g-----~~~~evSAktg~gI~eLf~  261 (617)
                      ..+ |++||+||+|+....      +...+++..++..++     ++++++||++|.|+.++++
T Consensus       142 ~~~~~iivviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          142 MGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             TTCTTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             cCCCeEEEEEEcccCCCccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            123 689999999997521      112345666777666     6799999999999976653

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.58  E-value=6.5e-16  Score=158.93  Aligned_cols=110  Identities=16%  Similarity=0.077  Sum_probs=75.4

Q ss_pred             EEEEEEecCCcc-------------cccccchhhhccCCEEE-EEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         155 VKLQVWDTAGQE-------------RFRSMAPMYYRNANAAL-LVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       155 ~~l~i~Dt~G~e-------------~~~~~~~~~~~~ad~iI-lV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      ..+.||||||..             .+..+...|++.++.+| +|+|+++..+......|+..+.   ....|+++|+||
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~---~~~~~~i~V~NK  201 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITK  201 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHC---TTCSSEEEEEEC
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhC---CCCCeEEEEEEc
Confidence            579999999964             34456677888888776 6999987655444334555443   245799999999


Q ss_pred             CCCCCccccCHHHHHHHHHh--cC-CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         221 TDLESSREVNREEAFHYSKS--IG-GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       221 ~DL~~~~~v~~~e~~~~~~~--~g-~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +|+........+........  .+ .+++++||++|.|++++++.|.+..
T Consensus       202 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          202 LDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             GGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             cccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHH
Confidence            99975543222222211111  12 3688999999999999999998744

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.58  E-value=1.6e-15  Score=163.09  Aligned_cols=149  Identities=14%  Similarity=0.081  Sum_probs=101.9

Q ss_pred             CCCCHHHHHHHHHcC-------CCCCc-------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGK-------MFSHH-------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~-------~~~~~-------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      +++|||||+++|++.       .+...       .....|.++....+.+......+.||||||+++|...+..+++.+|
T Consensus        12 ~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD   91 (397)
T 1d2e_A           12 VDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLD   91 (397)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCS
T ss_pred             CCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHHHHHhhHhhCC
Confidence            999999999999863       11100       0012344444333444444567999999999999888888899999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCccc---cCHHHHHHHHHhcC-----CeEEEEcCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSRE---VNREEAFHYSKSIG-----GTYYETSAL  251 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~---v~~~e~~~~~~~~g-----~~~~evSAk  251 (617)
                      ++|+|+|+++....+... ++..+..   ..+| +++|+||+|+.....   ...+++.++++.++     ++++++||+
T Consensus        92 ~~ilVvda~~g~~~qt~e-~l~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~  167 (397)
T 1d2e_A           92 GCILVVAANDGPMPQTRE-HLLLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSAL  167 (397)
T ss_dssp             EEEEEEETTTCSCHHHHH-HHHHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHH
T ss_pred             EEEEEEECCCCCCHHHHH-HHHHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEEEeehh
Confidence            999999999865433333 3333333   2367 789999999974221   12245566777666     589999999


Q ss_pred             CCCC----------HHHHHHHHHHHH
Q psy3029         252 QDQG----------IEDVFLNVSKGL  267 (617)
Q Consensus       252 tg~g----------I~eLf~~I~~~l  267 (617)
                      +|.|          +++|++.|.+.+
T Consensus       168 ~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          168 CALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             HHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             hcccccCCCccCCcHHHHHHHHHHhC
Confidence            9775          788888776644

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.58  E-value=2e-15  Score=167.67  Aligned_cols=117  Identities=18%  Similarity=0.169  Sum_probs=81.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCC------------------CCCc--cCCCccee
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM------------------FSHH--ISPTIGAS  142 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~------------------~~~~--~~~t~g~~  142 (617)
                      ...+|+|+|.                      +|||||||+++|+...                  +...  .....|.+
T Consensus        12 ~~r~IaIiG~----------------------~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiT   69 (528)
T 3tr5_A           12 MRRTFAIISH----------------------PDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGIS   69 (528)
T ss_dssp             TEEEEEEEEC----------------------TTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCS
T ss_pred             cCCEEEEECC----------------------CCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCee
Confidence            3458999999                      9999999999996110                  0000  00011222


Q ss_pred             EEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         143 FFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       143 ~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      +......+....+.+.||||||+++|......+++.+|++|+|+|+++..+.....-| ..+..   .++|+++|+||+|
T Consensus        70 i~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~-~~~~~---~~iPiivviNK~D  145 (528)
T 3tr5_A           70 VTTSVMQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLM-EVCRL---RHTPIMTFINKMD  145 (528)
T ss_dssp             SSSSEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHH-HHHHT---TTCCEEEEEECTT
T ss_pred             EEEeEEEEEeCCEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEeCCC
Confidence            2222223333457899999999999999999999999999999999987776665544 33333   3479999999999


Q ss_pred             CCC
Q psy3029         223 LES  225 (617)
Q Consensus       223 L~~  225 (617)
                      +..
T Consensus       146 l~~  148 (528)
T 3tr5_A          146 RDT  148 (528)
T ss_dssp             SCC
T ss_pred             Ccc
Confidence            864

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.57  E-value=6.2e-15  Score=165.66  Aligned_cols=148  Identities=22%  Similarity=0.241  Sum_probs=99.3

Q ss_pred             CCCCHHHHHHHHHcCCCCC----ccCCCcceeEEEEEE------------EECCeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGKMFSH----HISPTIGASFFTAKI------------NVGENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~----~~~~t~g~~~~~~~i------------~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      +++|||||+++|++..+..    ...+++|..+..+..            .+......+.||||||++.|..++..+++.
T Consensus        14 ~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~~~~~r~~~~   93 (594)
T 1g7s_A           14 VDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKRGGAL   93 (594)
T ss_dssp             TTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSBCSSSBS
T ss_pred             CCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHHHHHHHHHhh
Confidence            9999999999998754322    122345543322110            000111258999999999999999999999


Q ss_pred             CCEEEEEEeCCC---hhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC-------------H---H-------
Q psy3029         179 ANAALLVFDITQ---YHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN-------------R---E-------  232 (617)
Q Consensus       179 ad~iIlV~Dis~---~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~-------------~---~-------  232 (617)
                      +|++|+|||+++   +.+++.+..    +..   .++|+++|+||+|+.......             .   +       
T Consensus        94 aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~v~~~~~e~i~  166 (594)
T 1g7s_A           94 ADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKVY  166 (594)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHHHHHHHHHHHH
Confidence            999999999999   566655432    222   347999999999986421100             0   0       


Q ss_pred             HHHHHHHhcC---------------CeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         233 EAFHYSKSIG---------------GTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       233 e~~~~~~~~g---------------~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +......+.+               ++++++||++|.||++|+++|...+..
T Consensus       167 ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~  218 (594)
T 1g7s_A          167 ELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (594)
T ss_dssp             HHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccc
Confidence            1111111222               279999999999999999999887653

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.57  E-value=6.4e-15  Score=155.53  Aligned_cols=132  Identities=17%  Similarity=0.133  Sum_probs=106.5

Q ss_pred             cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCC----------hhhHHHHHHHHHHH
Q psy3029         135 ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ----------YHSFAAIKTWVKEL  204 (617)
Q Consensus       135 ~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~----------~~S~~~l~~~l~~i  204 (617)
                      ..+|+|+...  .+.++  .+.+++|||+|++++..++..|+++++++|||||+++          ..++.+...|+..+
T Consensus       177 ~~~T~Gi~~~--~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i  252 (353)
T 1cip_A          177 RVKTTGIVET--HFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSI  252 (353)
T ss_dssp             CCCCCSEEEE--EEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHH
T ss_pred             cCceeceEEE--EEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHH
Confidence            3567776543  33333  5789999999999999999999999999999999999          45688888888888


Q ss_pred             HhcC-CCCCeEEEEEECCCCCCcc---------------ccCHHHHHHHHH-----------hcCCeEEEEcCCCCCCHH
Q psy3029         205 KRNV-DEPLVLCVVGNKTDLESSR---------------EVNREEAFHYSK-----------SIGGTYYETSALQDQGIE  257 (617)
Q Consensus       205 ~~~~-~~~iPvIlVgNK~DL~~~~---------------~v~~~e~~~~~~-----------~~g~~~~evSAktg~gI~  257 (617)
                      .... ..++|+|||+||+||..++               .+..+++..++.           ..++.+++|||+++.||+
T Consensus       253 ~~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~  332 (353)
T 1cip_A          253 CNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQ  332 (353)
T ss_dssp             HTCGGGTTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHH
T ss_pred             HcCccccCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHH
Confidence            6642 2458999999999985332               356777878876           356789999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy3029         258 DVFLNVSKGLICL  270 (617)
Q Consensus       258 eLf~~I~~~l~~~  270 (617)
                      ++|+++.+.+...
T Consensus       333 ~vF~~v~~~i~~~  345 (353)
T 1cip_A          333 FVFDAVTDVIIKN  345 (353)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988654

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.56  E-value=8.8e-16  Score=173.44  Aligned_cols=151  Identities=17%  Similarity=0.177  Sum_probs=95.9

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCCCCCccC-----------------------------CCcceeEEEEEEEECCeEEEEE
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKMFSHHIS-----------------------------PTIGASFFTAKINVGENKVKLQ  158 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~~~~~~~-----------------------------~t~g~~~~~~~i~~~~~~~~l~  158 (617)
                      +++|+|.+|||||||+++|++........                             ...|+++......+......+.
T Consensus       169 kV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~~~~~  248 (611)
T 3izq_1          169 SFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFT  248 (611)
T ss_dssp             EEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSSCEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCCceEE
Confidence            33333339999999999998653211000                             0123333333333334456899


Q ss_pred             EEecCCcccccccchhhhccCCEEEEEEeCCChh---hHH---HHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--
Q psy3029         159 VWDTAGQERFRSMAPMYYRNANAALLVFDITQYH---SFA---AIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--  230 (617)
Q Consensus       159 i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~~---~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--  230 (617)
                      ||||||+++|...+..+++.+|++|+|+|+++..   +|.   ...+.+..+.. .. ..|+|||+||+|+....+..  
T Consensus       249 iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~-lg-i~~iIVVvNKiDl~~~~~~~~~  326 (611)
T 3izq_1          249 IVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LG-IHNLIIAMNKMDNVDWSQQRFE  326 (611)
T ss_dssp             EEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHT-TT-CCEEEEEEECTTTTTTCHHHHH
T ss_pred             EEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHH-cC-CCeEEEEEecccccchhHHHHH
Confidence            9999999999988888999999999999998742   111   11112222222 12 23699999999997632222  


Q ss_pred             --HHHHHHHHHhcC-----CeEEEEcCCCCCCHHHHH
Q psy3029         231 --REEAFHYSKSIG-----GTYYETSALQDQGIEDVF  260 (617)
Q Consensus       231 --~~e~~~~~~~~g-----~~~~evSAktg~gI~eLf  260 (617)
                        .+++..++..++     +++++|||++|.||.++.
T Consensus       327 ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el~  363 (611)
T 3izq_1          327 EIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE  363 (611)
T ss_dssp             HHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSCT
T ss_pred             HHHHHHHHHHHhhcccccCccEEeeecccCCCccccC
Confidence              223344444444     589999999999998763

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.54  E-value=2.6e-15  Score=164.74  Aligned_cols=107  Identities=18%  Similarity=0.179  Sum_probs=65.7

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh---hHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcc--
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH---SFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSR--  227 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~--  227 (617)
                      ...+.||||||+++|...+..++..+|++|||+|+++..   +|+...+|...+.......+| +|||+||+|+....  
T Consensus       120 ~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~~  199 (467)
T 1r5b_A          120 HRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWS  199 (467)
T ss_dssp             SEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSSC
T ss_pred             CeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCcccc
Confidence            467999999999999988888899999999999999862   343222233222221123466 99999999995311  


Q ss_pred             ----ccCHHHHHHHHHhc-C------CeEEEEcCCCCCCHHHHH
Q psy3029         228 ----EVNREEAFHYSKSI-G------GTYYETSALQDQGIEDVF  260 (617)
Q Consensus       228 ----~v~~~e~~~~~~~~-g------~~~~evSAktg~gI~eLf  260 (617)
                          +...++...+++.+ +      ++++++||++|.|+.+++
T Consensus       200 ~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          200 EERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence                11123455666665 3      569999999999998876

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.52  E-value=9.4e-15  Score=151.34  Aligned_cols=96  Identities=17%  Similarity=0.125  Sum_probs=81.8

Q ss_pred             cccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC-HHHHHHHHHhcC
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN-REEAFHYSKSIG  242 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~-~~e~~~~~~~~g  242 (617)
                      ++++..+.+.+++++|++|+|+|++++. ++..+++|+..+..   .++|++||+||+||.++.++. .++..++++.++
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g  142 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAG  142 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCC
Confidence            6888999999999999999999999986 89999999998765   347999999999997654322 355667777889


Q ss_pred             CeEEEEcCCCCCCHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I  263 (617)
                      ++++++||++|.|+++|++.+
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l  163 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYL  163 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHhhc
Confidence            999999999999999998764

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.52  E-value=8.8e-15  Score=171.56  Aligned_cols=149  Identities=14%  Similarity=0.066  Sum_probs=99.3

Q ss_pred             CCCCHHHHHHHHHcC-------CCCC-------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGK-------MFSH-------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~-------~~~~-------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      +++|||||+++|++.       .+..       ....+.|+++....+.+......+.||||||+++|......+++.+|
T Consensus       305 vDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~~~mi~gas~AD  384 (1289)
T 3avx_A          305 VDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMD  384 (1289)
T ss_dssp             TTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHHHHHHHTSCCCS
T ss_pred             CCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHHHHHHHHHhhCC
Confidence            999999999999863       1100       11234555544333444445578999999999999888888899999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcccc---CHHHHHHHHHhcC-----CeEEEEcCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREV---NREEAFHYSKSIG-----GTYYETSAL  251 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v---~~~e~~~~~~~~g-----~~~~evSAk  251 (617)
                      ++|+|+|+++....+ ..+|+..+...   .+| +|||+||+|+....+.   ..+++..++..++     ++++++||+
T Consensus       385 ~aILVVDAtdGv~~Q-TrEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~IpvSAk  460 (1289)
T 3avx_A          385 GAILVVAATDGPMPQ-TREHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSAL  460 (1289)
T ss_dssp             EEEEEEETTTCSCTT-HHHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEECCST
T ss_pred             EEEEEEcCCccCcHH-HHHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEEEEec
Confidence            999999998864332 23444444432   367 7899999999753221   2245566777665     589999999


Q ss_pred             CC--------CCHHHHHHHHHHHH
Q psy3029         252 QD--------QGIEDVFLNVSKGL  267 (617)
Q Consensus       252 tg--------~gI~eLf~~I~~~l  267 (617)
                      +|        .||++|++.|...+
T Consensus       461 tG~ng~~~w~eGI~eLleaL~~~I  484 (1289)
T 3avx_A          461 KALEGDAEWEAKILELAGFLDSYI  484 (1289)
T ss_dssp             TTTTCCHHHHHHHHHHHHHHHHTS
T ss_pred             cCCCCCccccccchhhHhHHhhhc
Confidence            99        45777777776543

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.52  E-value=2.4e-14  Score=149.13  Aligned_cols=144  Identities=16%  Similarity=0.163  Sum_probs=112.0

Q ss_pred             HHHHHcCCCCCc-------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCC------
Q psy3029         123 VVRYIGKMFSHH-------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDIT------  189 (617)
Q Consensus       123 inrl~~~~~~~~-------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis------  189 (617)
                      +.|+....+.+.       ..+|+|+....  +.+  +.+.+++|||+|+++++.++..|+++++++|||||++      
T Consensus       132 l~Ri~~~~Y~PT~~Dilr~r~~TiGi~~~~--~~~--~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l  207 (327)
T 3ohm_A          132 LDRVADPSYLPTQQDVLRVRVPTTGIIEYP--FDL--QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVL  207 (327)
T ss_dssp             HHHHHSTTCCCCHHHHTTCCCCCCSEEEEE--EEE--TTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBC
T ss_pred             HHHHhccCCCccccchhcccCceeeEEEEE--EEe--eceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccc
Confidence            456666666554       56888865333  333  3588999999999999999999999999999999765      


Q ss_pred             ----ChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCcc----------------ccCHHHHHHHH----------
Q psy3029         190 ----QYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSR----------------EVNREEAFHYS----------  238 (617)
Q Consensus       190 ----~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~----------------~v~~~e~~~~~----------  238 (617)
                          +..++.+...|+..+.... ..++|++|++||+|+..++                .++.+++.+++          
T Consensus       208 ~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~  287 (327)
T 3ohm_A          208 VESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPD  287 (327)
T ss_dssp             SSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTT
T ss_pred             cccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhccc
Confidence                5566777777887776532 2458999999999996543                45677787773          


Q ss_pred             HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         239 KSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       239 ~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ...++.++++||+++.||+++|..+.+.+...
T Consensus       288 ~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          288 SDKIIYSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             TTSCEEEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ccCCcEEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence            34566789999999999999999999988764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.51  E-value=4.1e-14  Score=143.39  Aligned_cols=124  Identities=20%  Similarity=0.248  Sum_probs=85.5

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCccee--EEEEEEEECCeEEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGAS--FFTAKINVGENKVKLQVW  160 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~--~~~~~i~~~~~~~~l~i~  160 (617)
                      ..++|+++|.                      +|||||||+|+|++..+.. ..+..+.+  .....+..++  ..+.||
T Consensus        35 ~~~~I~lvG~----------------------~g~GKSSLin~l~~~~~~~-~~~~~~~t~~~~~~~~~~~~--~~l~li   89 (262)
T 3def_A           35 NSMTVLVLGK----------------------GGVGKSSTVNSLIGEQVVR-VSPFQAEGLRPVMVSRTMGG--FTINII   89 (262)
T ss_dssp             CEEEEEEEEC----------------------TTSSHHHHHHHHHTSCCSC-CCSSCC-CCCCEEEEEEETT--EEEEEE
T ss_pred             CCcEEEEECC----------------------CCCCHHHHHHHHhCCCCcc-cCCCCCcceeeEEEEEEECC--eeEEEE
Confidence            3479999999                      9999999999999877421 22222222  2333333443  589999


Q ss_pred             ecCCcccccccchhhhc---------cCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCC--CeEEEEEECCCCCCccc
Q psy3029         161 DTAGQERFRSMAPMYYR---------NANAALLVFDITQYHSFAAI-KTWVKELKRNVDEP--LVLCVVGNKTDLESSRE  228 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~---------~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~--iPvIlVgNK~DL~~~~~  228 (617)
                      ||||++++....+.+++         .+|++|+|+|++... +... ..|+..+.......  .|+++|+||+|+...+.
T Consensus        90 DTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~  168 (262)
T 3def_A           90 DTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDE  168 (262)
T ss_dssp             ECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTT
T ss_pred             ECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCC
Confidence            99999888776666554         789999999987654 4433 36777776654332  38999999999965444


Q ss_pred             cCHH
Q psy3029         229 VNRE  232 (617)
Q Consensus       229 v~~~  232 (617)
                      ...+
T Consensus       169 ~~~e  172 (262)
T 3def_A          169 LSYE  172 (262)
T ss_dssp             CCHH
T ss_pred             ccHH
Confidence            4443

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.51  E-value=3.3e-14  Score=150.57  Aligned_cols=153  Identities=14%  Similarity=0.102  Sum_probs=110.7

Q ss_pred             CCCCHHHH--HHHHHcCCCCCc-------cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEE
Q psy3029         115 LGVGKTSM--VVRYIGKMFSHH-------ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSL--inrl~~~~~~~~-------~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV  185 (617)
                      +.+.|--|  +.|+....+.+.       ..+|+|+...  .+.++  .+.+.+|||+|++++..++..|+++++++|||
T Consensus       156 ~ds~~yfl~~~~ri~~~~Y~PT~~Dil~~r~~T~Gi~~~--~~~~~--~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv  231 (362)
T 1zcb_A          156 GESVKYFLDNLDKLGVPDYIPSQQDILLARRPTKGIHEY--DFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILFL  231 (362)
T ss_dssp             CTTHHHHHTTHHHHTSTTCCCCHHHHHHCCCCCSSEEEE--EEEET--TEEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             cccHHHHHHHHHHHhcCCCCCChhhhhhccCCccceEEE--EeeeC--CeEEEEEeccchhhhhhhHHHHhCCCCEEEEE
Confidence            45556555  677776655432       4467787643  33343  47899999999999999999999999999999


Q ss_pred             EeCCC----------hhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCcc----------------ccCHHHHHHHH
Q psy3029         186 FDITQ----------YHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSR----------------EVNREEAFHYS  238 (617)
Q Consensus       186 ~Dis~----------~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~----------------~v~~~e~~~~~  238 (617)
                      ||+++          ..++.+...|+..+.... ..++|+|||+||+||..++                .+..+++..++
T Consensus       232 ~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~  311 (362)
T 1zcb_A          232 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFL  311 (362)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHH
T ss_pred             EECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHH
Confidence            99999          678999888988887642 2458999999999985432                25667777765


Q ss_pred             H-----------hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         239 K-----------SIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       239 ~-----------~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      .           ..++.+++|||+++.||+++|+++.+.+....
T Consensus       312 ~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~  355 (362)
T 1zcb_A          312 VECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDN  355 (362)
T ss_dssp             HHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHHH
Confidence            1           34578999999999999999999998886543

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.51  E-value=4.7e-14  Score=150.75  Aligned_cols=131  Identities=18%  Similarity=0.154  Sum_probs=103.0

Q ss_pred             CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCC----------hhhHHHHHHHHHHHHh
Q psy3029         137 PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQ----------YHSFAAIKTWVKELKR  206 (617)
Q Consensus       137 ~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~----------~~S~~~l~~~l~~i~~  206 (617)
                      +|+|++.  ..+.++  .+.++||||+|++++..++..|+++++++|||||+++          ..+|..+..|+..+..
T Consensus       203 ~TiGi~~--~~~~~~--~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~  278 (402)
T 1azs_C          203 LTSGIFE--TKFQVD--KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWN  278 (402)
T ss_dssp             CCCSEEE--EEEEET--TEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHT
T ss_pred             ceeeeEE--EEeecC--CccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHh
Confidence            4667654  334444  3889999999999999999999999999999999999          8899999999999876


Q ss_pred             cC-CCCCeEEEEEECCCCCCccc---c---------------------------CHHHHHHHH-----Hh--------cC
Q psy3029         207 NV-DEPLVLCVVGNKTDLESSRE---V---------------------------NREEAFHYS-----KS--------IG  242 (617)
Q Consensus       207 ~~-~~~iPvIlVgNK~DL~~~~~---v---------------------------~~~e~~~~~-----~~--------~g  242 (617)
                      .. ..++|+|||+||+||..++.   +                           ..+++..|+     ..        .+
T Consensus       279 ~~~~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~  358 (402)
T 1azs_C          279 NRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHY  358 (402)
T ss_dssp             CTTCSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSC
T ss_pred             cccCCCCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcc
Confidence            53 35689999999999854332   1                           134555553     21        24


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +.++++||+++.||+++|..+.+.+....
T Consensus       359 ~~~~~TSA~d~~nV~~vF~~v~~~I~~~~  387 (402)
T 1azs_C          359 CYPHFTCAVDTENIRRVFNDCRDIIQRMH  387 (402)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             cEEEEEEeecCcCHHHHHHHHHHHHHHHH
Confidence            56789999999999999999988876543

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.50  E-value=1.1e-15  Score=167.33  Aligned_cols=107  Identities=17%  Similarity=0.118  Sum_probs=75.4

Q ss_pred             CCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh---hHH---HHHHHHHHHHhcCCCCC-eEEEEEECCCC
Q psy3029         151 GENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH---SFA---AIKTWVKELKRNVDEPL-VLCVVGNKTDL  223 (617)
Q Consensus       151 ~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~~---~l~~~l~~i~~~~~~~i-PvIlVgNK~DL  223 (617)
                      ......+.||||||+++|......++..+|++|+|+|+++..   +|+   ...+++..+..   ..+ ++|||+||+|+
T Consensus        81 ~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~Dl  157 (458)
T 1f60_A           81 ETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDS  157 (458)
T ss_dssp             ECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGG
T ss_pred             ecCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEcccc
Confidence            334568999999999999888888999999999999998763   231   22223333332   224 49999999999


Q ss_pred             CCccc----cCHHHHHHHHHhcC-----CeEEEEcCCCCCCHHHHH
Q psy3029         224 ESSRE----VNREEAFHYSKSIG-----GTYYETSALQDQGIEDVF  260 (617)
Q Consensus       224 ~~~~~----v~~~e~~~~~~~~g-----~~~~evSAktg~gI~eLf  260 (617)
                      ....+    ...+++..++..++     ++++++||++|.|+.++.
T Consensus       158 ~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~~  203 (458)
T 1f60_A          158 VKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEAT  203 (458)
T ss_dssp             GTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBCC
T ss_pred             ccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCccccc
Confidence            63111    12234556666665     589999999999997553

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.50  E-value=1.7e-15  Score=166.39  Aligned_cols=142  Identities=19%  Similarity=0.206  Sum_probs=94.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCCh---
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQY---  191 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~---  191 (617)
                      +++|||||+++|.+..+.....+++..+.....+..+  ...+.||||||++.|..++..++..+|++|||+|+++.   
T Consensus        13 vd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~--~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~   90 (501)
T 1zo1_I           13 VDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETE--NGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMP   90 (501)
T ss_dssp             TTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTT--SSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCT
T ss_pred             CCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEEC--CEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccH
Confidence            9999999999998755433322222222111122222  34689999999999999999999999999999999884   


Q ss_pred             hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc--ccCHH--HHHHHHHhcC--CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         192 HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR--EVNRE--EAFHYSKSIG--GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       192 ~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~--~v~~~--e~~~~~~~~g--~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      .+++.+    ..+..   .++|+++|+||+|+....  .+..+  +...++..++  ++++++||++|.||++|++.|..
T Consensus        91 qT~e~l----~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I           91 QTIEAI----QHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             TTHHHH----HHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTT
T ss_pred             HHHHHH----HHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhh
Confidence            343332    22222   347999999999996421  11110  0001122333  68999999999999999998753

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.49  E-value=8.7e-15  Score=151.52  Aligned_cols=159  Identities=14%  Similarity=0.233  Sum_probs=86.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC-CCCCcc--------CCCcceeEEEEEEEECCeE
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK-MFSHHI--------SPTIGASFFTAKINVGENK  154 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~-~~~~~~--------~~t~g~~~~~~~i~~~~~~  154 (617)
                      .++|+|+|+                      +|||||||+++|.+. .+....        .++.+.......+...+..
T Consensus        18 ~~~I~lvG~----------------------nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~   75 (301)
T 2qnr_A           18 EFTLMVVGE----------------------SGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVK   75 (301)
T ss_dssp             CEEEEEEEE----------------------TTSSHHHHHHHHHC------------------------CEEEEC---CC
T ss_pred             CEEEEEECC----------------------CCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcc
Confidence            468899998                      999999999998875 333222        1222222111122223345


Q ss_pred             EEEEEEecCCc-------ccccccch-------hhhccC-------------CEEEEEEeCCChhhHHHHHHHHHHHHhc
Q psy3029         155 VKLQVWDTAGQ-------ERFRSMAP-------MYYRNA-------------NAALLVFDITQYHSFAAIKTWVKELKRN  207 (617)
Q Consensus       155 ~~l~i~Dt~G~-------e~~~~~~~-------~~~~~a-------------d~iIlV~Dis~~~S~~~l~~~l~~i~~~  207 (617)
                      ..+.+|||+|+       +++..+..       .++.+.             ++++++.+.+. .+|+.+..  ..+...
T Consensus        76 ~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~~--~~l~~l  152 (301)
T 2qnr_A           76 LRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLDV--AFMKAI  152 (301)
T ss_dssp             EEEEEEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHHH--HHHHHH
T ss_pred             cCcchhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHHH--HHHHHH
Confidence            78999999998       56665554       555433             33444444322 23444431  222222


Q ss_pred             CCCCCeEEEEEECCCCCCcccc--CHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         208 VDEPLVLCVVGNKTDLESSREV--NREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       208 ~~~~iPvIlVgNK~DL~~~~~v--~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      . ..+|+++|+||+|+...+++  ..+++.++++.++++++++||+++ |++++|..+.+.+..
T Consensus       153 ~-~~~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~  214 (301)
T 2qnr_A          153 H-NKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKA  214 (301)
T ss_dssp             T-TTSCEEEEECCGGGSCHHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHT
T ss_pred             H-hcCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhc
Confidence            2 34699999999999765443  245677888999999999999999 999999999887753

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.49  E-value=9.9e-14  Score=149.33  Aligned_cols=157  Identities=15%  Similarity=0.081  Sum_probs=107.7

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCCCC-CccC-CCcceeEEEEEEEECCeEEEEEEEecCCccc----ccccchhh---hc
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKMFS-HHIS-PTIGASFFTAKINVGENKVKLQVWDTAGQER----FRSMAPMY---YR  177 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~-~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~----~~~~~~~~---~~  177 (617)
                      ..++|+|++|||||||+++|++.... ..+. .|....  .-.+.+++ ...+.+||++|..+    +..+...+   +.
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~--~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~e  234 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPN--LGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIA  234 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCE--EEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCccccCcccceecce--eeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHH
Confidence            35677788999999999999876431 1111 122211  22233332 25688999999743    22233333   44


Q ss_pred             cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC--CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCC
Q psy3029         178 NANAALLVFDITQYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQG  255 (617)
Q Consensus       178 ~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~--~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~g  255 (617)
                      .++.+|+|+|++ ...+..+..|..++..+..  ...|.+||+||+|+...  ...+++.+.+...+++++.+||+++.|
T Consensus       235 ra~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~g  311 (416)
T 1udx_A          235 RTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAG  311 (416)
T ss_dssp             SSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTT
T ss_pred             HHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccC
Confidence            799999999998 5567777777777655432  13588999999998653  223444555666688999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy3029         256 IEDVFLNVSKGLIC  269 (617)
Q Consensus       256 I~eLf~~I~~~l~~  269 (617)
                      +++|++.|.+.+..
T Consensus       312 i~eL~~~i~~~l~~  325 (416)
T 1udx_A          312 LPALKEALHALVRS  325 (416)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988854

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.49  E-value=3.6e-15  Score=167.99  Aligned_cols=151  Identities=20%  Similarity=0.210  Sum_probs=80.5

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCC--CCCc-------------------------
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM--FSHH-------------------------  134 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~--~~~~-------------------------  134 (617)
                      ...++|+++|.                      +|+|||||+++|+...  +...                         
T Consensus       175 k~~~~I~iiG~----------------------~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~  232 (592)
T 3mca_A          175 KPVVHLVVTGH----------------------VDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDT  232 (592)
T ss_dssp             CCEEEEEEECC----------------------SSSTHHHHHHHHHHHHHCC----------------------------
T ss_pred             CCccEEEEEcC----------------------CCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhcc
Confidence            34478888888                      9999999999996321  0000                         


Q ss_pred             --cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh---hH--H-HHHHHHHHHHh
Q psy3029         135 --ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH---SF--A-AIKTWVKELKR  206 (617)
Q Consensus       135 --~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~--~-~l~~~l~~i~~  206 (617)
                        .....|+++......+......+.||||||+++|...+..++..+|++|||+|++++.   ++  . ...+.+..+..
T Consensus       233 ~~~E~~~GiTid~~~~~~~~~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~  312 (592)
T 3mca_A          233 TEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA  312 (592)
T ss_dssp             --------------------------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH
T ss_pred             chhhhcCCeeEEeeEEEEEeCCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH
Confidence              0012234444433444445578999999999999988888999999999999998642   11  0 01112222222


Q ss_pred             cCCCCCe-EEEEEECCCCCCcccc----CHHHHHHHH-HhcCC-----eEEEEcCCCCCCHH
Q psy3029         207 NVDEPLV-LCVVGNKTDLESSREV----NREEAFHYS-KSIGG-----TYYETSALQDQGIE  257 (617)
Q Consensus       207 ~~~~~iP-vIlVgNK~DL~~~~~v----~~~e~~~~~-~~~g~-----~~~evSAktg~gI~  257 (617)
                         ..+| +|||+||+|+......    ..+++..++ +.+++     +++++||++|.||.
T Consensus       313 ---lgip~iIvviNKiDl~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          313 ---LGISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             ---SSCCCEEEEEECGGGGTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             ---cCCCeEEEEEeccccccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence               2244 8999999998642111    123344444 44555     79999999999998

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.48  E-value=6.2e-14  Score=147.98  Aligned_cols=119  Identities=19%  Similarity=0.195  Sum_probs=94.0

Q ss_pred             eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCC----------ChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECC
Q psy3029         153 NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDIT----------QYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKT  221 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis----------~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~  221 (617)
                      ..+.+++|||+|++++..++..|+++++++|||||++          +..+|..+..|+..+.... ..++|++||+||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5789999999999999999999999999999999998          7778999999998887642 2458999999999


Q ss_pred             CCCCccc--c-------------------CHHHHHHHHHh----------------cCCeEEEEcCCCCCCHHHHHHHHH
Q psy3029         222 DLESSRE--V-------------------NREEAFHYSKS----------------IGGTYYETSALQDQGIEDVFLNVS  264 (617)
Q Consensus       222 DL~~~~~--v-------------------~~~e~~~~~~~----------------~g~~~~evSAktg~gI~eLf~~I~  264 (617)
                      ||..++.  +                   ..+++..++..                ..+.+++|||+++.||+++|+++.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            9853321  1                   14566666432                123568999999999999999999


Q ss_pred             HHHHHhh
Q psy3029         265 KGLICLS  271 (617)
Q Consensus       265 ~~l~~~~  271 (617)
                      +.+....
T Consensus       341 ~~I~~~~  347 (354)
T 2xtz_A          341 ETLRRRN  347 (354)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8886543

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.48  E-value=1.5e-13  Score=156.98  Aligned_cols=106  Identities=18%  Similarity=0.053  Sum_probs=74.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCC----------------CcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISP----------------TIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~----------------t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      .|+|||||+++|++.........                ..++++......+....+.++||||+|+++|......+++.
T Consensus        18 ~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~f~~~~~~~l~~   97 (665)
T 2dy1_A           18 AGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEA   97 (665)
T ss_dssp             TTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccchHHHHHHHHhh
Confidence            99999999999984322100000                11333333333343445789999999999998888999999


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      +|++++|+|+++...... ..++..+..   ..+|+++|+||+|+.
T Consensus        98 ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           98 ADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             CSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             cCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEecCCchh
Confidence            999999999887654333 244455444   347999999999986

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.48  E-value=4e-14  Score=150.14  Aligned_cols=108  Identities=14%  Similarity=0.031  Sum_probs=79.9

Q ss_pred             EEEEEecCCcccc-------------cccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         156 KLQVWDTAGQERF-------------RSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       156 ~l~i~Dt~G~e~~-------------~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      .+.+|||||..++             ..+...|+.++|++|+|+|..+.....  ..|+..+........|+++|+||+|
T Consensus       137 ~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~~~l~~~~~~~~~~~i~V~nK~D  214 (360)
T 3t34_A          137 NLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDAIKISREVDPSGDRTFGVLTKID  214 (360)
T ss_dssp             SEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHHHHHHHHSCTTCTTEEEEEECGG
T ss_pred             CeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHHHHHHHHhcccCCCEEEEEeCCc
Confidence            5899999998776             556778899999999999876543222  3455555555555679999999999


Q ss_pred             CCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         223 LESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       223 L~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +........+.+..+...++.+|+++|++++.++++.+..+..
T Consensus       215 l~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~  257 (360)
T 3t34_A          215 LMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAA  257 (360)
T ss_dssp             GCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHH
T ss_pred             cCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHH
Confidence            9766555555454455567789999999999998877665443

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.47  E-value=1.3e-13  Score=140.23  Aligned_cols=124  Identities=18%  Similarity=0.204  Sum_probs=84.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .++|+++|.                      +|||||||+|+|++..+. .+.++.+.++....+.+......+.|||||
T Consensus        39 ~~~I~vvG~----------------------~g~GKSSLin~l~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~l~iiDTp   95 (270)
T 1h65_A           39 SLTILVMGK----------------------GGVGKSSTVNSIIGERVV-SISPFQSEGPRPVMVSRSRAGFTLNIIDTP   95 (270)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHTSCCS-CCCSSSCCCSSCEEEEEEETTEEEEEEECC
T ss_pred             CeEEEEECC----------------------CCCCHHHHHHHHhCCCcc-cccCCCCcceeeEEEEEeeCCeEEEEEECC
Confidence            469999999                      999999999999987752 222333443333333333345679999999


Q ss_pred             Ccccccccchh-------h--hccCCEEEEEEeCCChhhHHHH-HHHHHHHHhcCCCC--CeEEEEEECCCCCCccccCH
Q psy3029         164 GQERFRSMAPM-------Y--YRNANAALLVFDITQYHSFAAI-KTWVKELKRNVDEP--LVLCVVGNKTDLESSREVNR  231 (617)
Q Consensus       164 G~e~~~~~~~~-------~--~~~ad~iIlV~Dis~~~S~~~l-~~~l~~i~~~~~~~--iPvIlVgNK~DL~~~~~v~~  231 (617)
                      |++++..+...       +  ...+|++|+|+|++.. ++... .+|+..+.......  .|+++|+||+|+...+....
T Consensus        96 G~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~  174 (270)
T 1h65_A           96 GLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPY  174 (270)
T ss_dssp             CSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             CCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCCH
Confidence            99776543332       1  2379999999998653 34433 36777776654332  59999999999976544333

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.44  E-value=2.4e-13  Score=155.94  Aligned_cols=110  Identities=15%  Similarity=0.189  Sum_probs=78.1

Q ss_pred             EEEEEecCCccc---ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         156 KLQVWDTAGQER---FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       156 ~l~i~Dt~G~e~---~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      .+.||||||...   .......++.++|++|+|+|++++.+..+...|...+..   ...|+++|+||+|+.....+..+
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~---~~~~iiiVlNK~Dl~~~~~~~~e  251 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG---RGLTVFFLVNAWDQVRESLIDPD  251 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT---SCCCEEEEEECGGGGGGGCSSTT
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh---hCCCEEEEEECcccccccccChh
Confidence            589999999754   345566788999999999999988887776666544432   24689999999998644311110


Q ss_pred             ----------HHHH-----HHHhc--------CCeEEEEcCC--------------CCCCHHHHHHHHHHHHH
Q psy3029         233 ----------EAFH-----YSKSI--------GGTYYETSAL--------------QDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       233 ----------e~~~-----~~~~~--------g~~~~evSAk--------------tg~gI~eLf~~I~~~l~  268 (617)
                                ....     +....        ..++++|||+              ++.|++++++.|.+.+.
T Consensus       252 e~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~  324 (695)
T 2j69_A          252 DVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLT  324 (695)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHH
Confidence                      1111     11111        2379999999              99999999999987664

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.44  E-value=3e-13  Score=140.23  Aligned_cols=112  Identities=16%  Similarity=0.083  Sum_probs=70.2

Q ss_pred             EEEEEEecCCccc-------------ccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         155 VKLQVWDTAGQER-------------FRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       155 ~~l~i~Dt~G~e~-------------~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      ..+.||||||..+             +..+...++..+|++|+|+|..+.. .......++..+.   ....|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~---~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhC---CCCCcEEEEEcC
Confidence            4689999999753             4456677889999999999974432 1111112223322   245799999999


Q ss_pred             CCCCCccccCHHHHHHHHHhcCCeEEEEcCCC------CCCHHHHHHHHHHHHHH
Q psy3029         221 TDLESSREVNREEAFHYSKSIGGTYYETSALQ------DQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       221 ~DL~~~~~v~~~e~~~~~~~~g~~~~evSAkt------g~gI~eLf~~I~~~l~~  269 (617)
                      +|+........+.+......++..++++|+.+      +.|+.++++.+...+..
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            99975443222222211112235677776654      78899999988777643

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.44  E-value=1.2e-13  Score=148.84  Aligned_cols=157  Identities=13%  Similarity=0.181  Sum_probs=83.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCc-c-------CCCcceeEEEEEEEECCeEE
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHH-I-------SPTIGASFFTAKINVGENKV  155 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~-~-------~~t~g~~~~~~~i~~~~~~~  155 (617)
                      .++|+|+|+                      +|||||||+++|++..+... +       .++.+.......+...+...
T Consensus        31 sf~I~lvG~----------------------sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~   88 (418)
T 2qag_C           31 EFTLMVVGE----------------------SGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQL   88 (418)
T ss_dssp             CEEEEEECC----------------------TTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CE
T ss_pred             CEEEEEECC----------------------CCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCccc
Confidence            468899999                      99999999999998765211 1       22333222111122223345


Q ss_pred             EEEEEecCCccccc-------c------------------cchhhhccCCEEEEEEeCCCh-hhHHHHH-HHHHHHHhcC
Q psy3029         156 KLQVWDTAGQERFR-------S------------------MAPMYYRNANAALLVFDITQY-HSFAAIK-TWVKELKRNV  208 (617)
Q Consensus       156 ~l~i~Dt~G~e~~~-------~------------------~~~~~~~~ad~iIlV~Dis~~-~S~~~l~-~~l~~i~~~~  208 (617)
                      .+.+||++|...+.       .                  +.+.++.++++.+++|+.... .+++.++ .|+..+.   
T Consensus        89 ~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~---  165 (418)
T 2qag_C           89 LLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH---  165 (418)
T ss_dssp             EEEEEECC-----------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT---
T ss_pred             ceeeeechhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh---
Confidence            79999999986531       1                  122344555554555554432 3455554 5776664   


Q ss_pred             CCCCeEEEEEECCCCCCccccCH--HHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         209 DEPLVLCVVGNKTDLESSREVNR--EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       209 ~~~iPvIlVgNK~DL~~~~~v~~--~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                       ..+|+|+|+||+|+...+++..  +++.+++..++++++++||+++.+++++|..|...
T Consensus       166 -~~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~  224 (418)
T 2qag_C          166 -EKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  224 (418)
T ss_dssp             -TTSEEEEEEESTTSSCHHHHHHHHHHHHHHHHHHTCCCCCCC-----------------
T ss_pred             -ccCcEEEEEEcccCccHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhh
Confidence             2579999999999976655544  56777888889999999999999999887766543

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.43  E-value=5.8e-13  Score=147.94  Aligned_cols=117  Identities=16%  Similarity=0.184  Sum_probs=78.2

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCC--CC------------C------ccCCCccee
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM--FS------------H------HISPTIGAS  142 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~--~~------------~------~~~~t~g~~  142 (617)
                      +..+|+|+|.                      +|+|||||+++|+...  +.            .      ....+.|.+
T Consensus        12 ~~~~I~IiG~----------------------~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiT   69 (529)
T 2h5e_A           12 KRRTFAIISH----------------------PDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGIS   69 (529)
T ss_dssp             TEEEEEEEEC----------------------TTSSHHHHHHHHHHSCC-------------------------------
T ss_pred             CCCEEEEECC----------------------CCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcc
Confidence            4578999999                      9999999999998531  10            0      001123333


Q ss_pred             EEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         143 FFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       143 ~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      +......+....+.+.||||||+++|......+++.+|++|+|+|+++...... ..++..+.   ..++|+++|+||+|
T Consensus        70 i~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~~---~~~ipiivviNK~D  145 (529)
T 2h5e_A           70 ITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVTR---LRDTPILTFMNKLD  145 (529)
T ss_dssp             CCTTEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHHT---TTTCCEEEEEECTT
T ss_pred             eeeeEEEEEECCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHHH---HcCCCEEEEEcCcC
Confidence            322223333345789999999999999888889999999999999988643222 22223322   24579999999999


Q ss_pred             CCC
Q psy3029         223 LES  225 (617)
Q Consensus       223 L~~  225 (617)
                      +..
T Consensus       146 l~~  148 (529)
T 2h5e_A          146 RDI  148 (529)
T ss_dssp             SCC
T ss_pred             Ccc
Confidence            864

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.40  E-value=1.5e-13  Score=147.53  Aligned_cols=77  Identities=21%  Similarity=0.071  Sum_probs=40.6

Q ss_pred             CCCCHHHHHHHHHcCCCCCccC--CCcceeEEEEEE-------------------EECC-eEEEEEEEecCCccc----c
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHIS--PTIGASFFTAKI-------------------NVGE-NKVKLQVWDTAGQER----F  168 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~--~t~g~~~~~~~i-------------------~~~~-~~~~l~i~Dt~G~e~----~  168 (617)
                      +|||||||+|+|++........  .|.........+                   .+++ ..+.+.||||||+.+    .
T Consensus         9 pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG~~~~a~~~   88 (397)
T 1wxq_A            9 PNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPGAHEG   88 (397)
T ss_dssp             TTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC---------
T ss_pred             CCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCCcccchhhh
Confidence            9999999999999876321111  122222221111                   1122 257899999999854    2


Q ss_pred             cccch---hhhccCCEEEEEEeCCCh
Q psy3029         169 RSMAP---MYYRNANAALLVFDITQY  191 (617)
Q Consensus       169 ~~~~~---~~~~~ad~iIlV~Dis~~  191 (617)
                      ..+..   .+++++|++++|+|+++.
T Consensus        89 ~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           89 RGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             ------CCCSSTTCSEEEEEEETTCC
T ss_pred             hhHHHHHHHHHhcCCEEEEEEecccc
Confidence            22333   346899999999999875

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.39  E-value=1.4e-12  Score=149.59  Aligned_cols=113  Identities=19%  Similarity=0.217  Sum_probs=80.4

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC--CCC------C------------ccCCCccee
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK--MFS------H------------HISPTIGAS  142 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~--~~~------~------------~~~~t~g~~  142 (617)
                      ...+|+|+|.                      +|+|||||+++|+..  .+.      .            ....|++..
T Consensus        11 ~~~~I~IvG~----------------------~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~   68 (691)
T 1dar_A           11 RLRNIGIAAH----------------------IDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAA   68 (691)
T ss_dssp             GEEEEEEEEC----------------------TTSCHHHHHHHHHHHHCC----------------------------CC
T ss_pred             cccEEEEECC----------------------CCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccc
Confidence            4468999999                      999999999999831  110      0            112222222


Q ss_pred             EEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         143 FFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       143 ~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                          ...+....+.+.||||||+.+|...+..+++.+|++|+|+|+++..++.....|.. +..   .++|+++|+||+|
T Consensus        69 ----~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD  140 (691)
T 1dar_A           69 ----VTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMD  140 (691)
T ss_dssp             ----EEEEEETTEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTT
T ss_pred             ----eEEEEECCeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCC
Confidence                12222234789999999999999889999999999999999999877776665543 333   2479999999999


Q ss_pred             CCC
Q psy3029         223 LES  225 (617)
Q Consensus       223 L~~  225 (617)
                      +..
T Consensus       141 ~~~  143 (691)
T 1dar_A          141 KTG  143 (691)
T ss_dssp             STT
T ss_pred             ccc
Confidence            864

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.34  E-value=2.5e-14  Score=140.79  Aligned_cols=57  Identities=19%  Similarity=0.131  Sum_probs=45.9

Q ss_pred             CeEEEEEECCCCCCccccCHHHHHHHHHhc--CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         212 LVLCVVGNKTDLESSREVNREEAFHYSKSI--GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~--g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      .|.+||+||+|+...+....++...++..+  +++++++||++|.|++++|+.|.+.+.
T Consensus       165 ~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  223 (226)
T 2hf9_A          165 TADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVK  223 (226)
T ss_dssp             TCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cCCEEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHH
Confidence            477999999998654444566666776654  569999999999999999999988764

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.33  E-value=3.5e-12  Score=146.20  Aligned_cols=117  Identities=17%  Similarity=0.180  Sum_probs=79.7

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHc--CCCCCc--------cCC------CcceeEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIG--KMFSHH--------ISP------TIGASFFTA  146 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~--~~~~~~--------~~~------t~g~~~~~~  146 (617)
                      +..+|+|+|.                      +|+|||||+++|+.  +.+...        ...      ..|.++...
T Consensus         9 ~~~~I~IvG~----------------------~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~   66 (693)
T 2xex_A            9 KTRNIGIMAH----------------------IDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSA   66 (693)
T ss_dssp             TEEEEEEECC----------------------GGGTHHHHHHHHHHHHSSCC-------------------------CCS
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeee
Confidence            3458888888                      99999999999984  221100        000      111111111


Q ss_pred             EEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         147 KINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       147 ~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      ...+....+.+.||||+|+.+|...+..+++.+|++|+|+|+++..++.....|. .+..   .++|+++|+||+|+..
T Consensus        67 ~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~-~~~~---~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           67 ATTAAWEGHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWR-QATT---YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             EEEEEETTEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHH-HHHH---TTCCEEEEEECTTSTT
T ss_pred             eEEEEECCeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHH-HHHH---cCCCEEEEEECCCccc
Confidence            1112223468999999999999988899999999999999999887776655553 3333   2479999999999864

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.33  E-value=1.9e-13  Score=144.53  Aligned_cols=109  Identities=17%  Similarity=0.090  Sum_probs=66.8

Q ss_pred             EEEEEEecCCcc-------------cccccchhhhccCCEEEE-EEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         155 VKLQVWDTAGQE-------------RFRSMAPMYYRNANAALL-VFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       155 ~~l~i~Dt~G~e-------------~~~~~~~~~~~~ad~iIl-V~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      ..+.||||||..             .+..+...|+.+++.+|+ |.|.+....-..   |+..+....+...|+++|+||
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~---~~~i~~~~~~~~~~~i~V~NK  206 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD---ALKVAKEVDPQGQRTIGVITK  206 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCH---HHHHHHHHCTTCTTEEEEEEC
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhH---HHHHHHHhCcCCCceEEEecc
Confidence            569999999963             344566677776655555 556554322112   222233333455799999999


Q ss_pred             CCCCCccccCHHHHHH--HHHhcCC-eEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         221 TDLESSREVNREEAFH--YSKSIGG-TYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       221 ~DL~~~~~v~~~e~~~--~~~~~g~-~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +|+........+....  +....++ +++++||+++.|++++++.+.+.
T Consensus       207 ~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~e  255 (353)
T 2x2e_A          207 LDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  255 (353)
T ss_dssp             GGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHHH
T ss_pred             ccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHHH
Confidence            9997543311221111  1111232 67889999999999999998763

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.33  E-value=1.3e-11  Score=141.74  Aligned_cols=116  Identities=16%  Similarity=0.180  Sum_probs=80.1

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC--CCCC-----------ccC---CCcceeEEEEE
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK--MFSH-----------HIS---PTIGASFFTAK  147 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~--~~~~-----------~~~---~t~g~~~~~~~  147 (617)
                      ..+|+|+|.                      .|+|||||+++|+..  .+..           .+.   ...|.++....
T Consensus        10 ~~~I~IiG~----------------------~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~   67 (704)
T 2rdo_7           10 YRNIGISAH----------------------IDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAA   67 (704)
T ss_pred             ccEEEEECC----------------------CCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeece
Confidence            357888888                      999999999999742  1110           000   01223332222


Q ss_pred             EEE--C-----CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         148 INV--G-----ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       148 i~~--~-----~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      ..+  .     +..+.+.||||||+.+|...+..+++.+|++|+|+|+++.........| ..+..   .++|+++|+||
T Consensus        68 ~~~~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~-~~~~~---~~ip~ilviNK  143 (704)
T 2rdo_7           68 TTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVW-RQANK---YKVPRIAFVNK  143 (704)
T ss_pred             EEEEECCccccCCceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHH-HHHHH---cCCCEEEEEeC
Confidence            222  1     2348899999999999988889999999999999999987655544434 33322   34799999999


Q ss_pred             CCCCC
Q psy3029         221 TDLES  225 (617)
Q Consensus       221 ~DL~~  225 (617)
                      +|+..
T Consensus       144 iD~~~  148 (704)
T 2rdo_7          144 MDRMG  148 (704)
T ss_pred             CCccc
Confidence            99853

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.32  E-value=1.7e-12  Score=127.21  Aligned_cols=104  Identities=14%  Similarity=0.096  Sum_probs=69.2

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      ..+.+|||+|+.....   .+....+.+++|+|+++...  ....+...+      .+|+++|+||+|+........++.
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~--~~~~~~~~~------~~~~iiv~NK~Dl~~~~~~~~~~~  177 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDD--VVEKHPEIF------RVADLIVINKVALAEAVGADVEKM  177 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTT--HHHHCHHHH------HTCSEEEEECGGGHHHHTCCHHHH
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcch--hhhhhhhhh------hcCCEEEEecccCCcchhhHHHHH
Confidence            4678999998511100   11125788999999877542  111222221      258899999999864333345556


Q ss_pred             HHHHHhc--CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         235 FHYSKSI--GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       235 ~~~~~~~--g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+++.+  +++++++||++|.|+++++++|.+.+..
T Consensus       178 ~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          178 KADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             HHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC-
T ss_pred             HHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            6666554  4689999999999999999999887643

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.30  E-value=2.4e-11  Score=128.16  Aligned_cols=136  Identities=13%  Similarity=0.022  Sum_probs=83.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccC--CCcceeEEEEEEEECCe---------------EEEEEEEecCCccccc----ccc-
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHIS--PTIGASFFTAKINVGEN---------------KVKLQVWDTAGQERFR----SMA-  172 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~--~t~g~~~~~~~i~~~~~---------------~~~l~i~Dt~G~e~~~----~~~-  172 (617)
                      ||||||||+|+|++..+.....  .|++.+..  .+.+.+.               ...+.+|||+|+.++.    .+. 
T Consensus        11 pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g--~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~~~gl~~   88 (363)
T 1jal_A           11 PNVGKSTLFNALTKAGIEAANYPFCTIEPNTG--VVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEGLGN   88 (363)
T ss_dssp             TTSSHHHHHHHHHHTC------CCCCCCCCSS--EEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGGTC
T ss_pred             CCCCHHHHHHHHHCCCCcccCCCCceECceEE--EEecCCcccceeeeeecccceeeeEEEEEECCCCcccccccchHHH
Confidence            9999999999999876422211  23333322  2233332               2579999999987653    232 


Q ss_pred             --hhhhccCCEEEEEEeCCCh----------hhHHHHHHHHHH-------------------------------------
Q psy3029         173 --PMYYRNANAALLVFDITQY----------HSFAAIKTWVKE-------------------------------------  203 (617)
Q Consensus       173 --~~~~~~ad~iIlV~Dis~~----------~S~~~l~~~l~~-------------------------------------  203 (617)
                        ..+++++|++++|+|+++.          +.+.++..+..+                                     
T Consensus        89 ~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~~~~l~~~  168 (363)
T 1jal_A           89 KFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFELSVMEKI  168 (363)
T ss_dssp             CHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHHHHHHHHH
Confidence              2357899999999999862          223332211111                                     


Q ss_pred             ---HHh-------------------c-CCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCC
Q psy3029         204 ---LKR-------------------N-VDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQ  252 (617)
Q Consensus       204 ---i~~-------------------~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAkt  252 (617)
                         +..                   + .....|+++|+||.|..-......+.+..++...+.+++++||+.
T Consensus       169 ~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          169 LPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             HHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence               110                   0 112379999999999642222335667778888899999999764

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=99.28  E-value=3.1e-12  Score=131.06  Aligned_cols=170  Identities=15%  Similarity=0.120  Sum_probs=104.1

Q ss_pred             EEecCCcc-cccccchhhhccCCEEEEEEeCCChhhHH--HHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH
Q psy3029         159 VWDTAGQE-RFRSMAPMYYRNANAALLVFDITQYHSFA--AIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF  235 (617)
Q Consensus       159 i~Dt~G~e-~~~~~~~~~~~~ad~iIlV~Dis~~~S~~--~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~  235 (617)
                      |-..||+. +........++++|++++|+|++++.+..  .+.+|+        ..+|+++|+||+||.+...  .+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~~--~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAAV--TQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHHH--HHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHHH--HHHHH
Confidence            34567764 44456677889999999999999988754  455543        2469999999999975322  23345


Q ss_pred             HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhh
Q psy3029         236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAET  315 (617)
Q Consensus       236 ~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~  315 (617)
                      ++++..+++++.+||+++.|+++|++.+.+.+........                               ........+
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~~~~~~~-------------------------------~~~~~~~~~  121 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRMR-------------------------------AKGVKPRAI  121 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHHHHHHHH-------------------------------HTTCCCCCE
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHHHHHHHH-------------------------------hcCCCCCCc
Confidence            5666678899999999999999999988877654321100                               000011235


Q ss_pred             heeeeccCCCCCCCcceeeeeeecccccccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         316 AKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       316 ~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      +++++|.|                +||||++++++.+.. ......|.+..+.  ..+.++ ..+.|--++|+.
T Consensus       122 ~v~~vG~~----------------nvGKSsliN~l~~~~~~~~~~~~g~T~~~--~~~~~~-~~~~l~DtpG~~  176 (282)
T 1puj_A          122 RALIIGIP----------------NVGKSTLINRLAKKNIAKTGDRPGITTSQ--QWVKVG-KELELLDTPGIL  176 (282)
T ss_dssp             EEEEEEST----------------TSSHHHHHHHHHTSCCC--------------CCEEET-TTEEEEECCCCC
T ss_pred             eEEEEecC----------------CCchHHHHHHHhcCceeecCCCCCeeeee--EEEEeC-CCEEEEECcCcC
Confidence            67788877                999999999998654 2333333332222  123333 345555567764

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.20  E-value=7.3e-12  Score=132.54  Aligned_cols=105  Identities=17%  Similarity=0.115  Sum_probs=69.7

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--  231 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--  231 (617)
                      .+.+.||||+|...   .....+..+|++|+|+|....+.+..+..+   +     ..+|++||+||+|+........  
T Consensus       171 ~~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~---~-----~~~p~ivVlNK~Dl~~~~~~~~~~  239 (355)
T 3p32_A          171 GFDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKKG---V-----LELADIVVVNKADGEHHKEARLAA  239 (355)
T ss_dssp             TCCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCTT---S-----GGGCSEEEEECCCGGGHHHHHHHH
T ss_pred             CCCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHHh---H-----hhcCCEEEEECCCCcChhHHHHHH
Confidence            35789999999532   223445889999999998765443222211   1     1258899999999854322111  


Q ss_pred             HHHHHHHH-------hcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         232 EEAFHYSK-------SIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       232 ~e~~~~~~-------~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ++......       .++.+++++||++|.||++++++|.+.+..
T Consensus       240 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          240 RELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            11111111       125789999999999999999999887755

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.18  E-value=4e-12  Score=134.20  Aligned_cols=103  Identities=13%  Similarity=0.045  Sum_probs=62.2

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      +.+.|+||+|....   .......+|++++|+|+..+.....+..   .+     ...|.++|+||+|+....... ...
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~~-~~~  234 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPAR-RIQ  234 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHHH-HHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhHH-HHH
Confidence            46789999996321   2345678999999999887543222211   11     124789999999985321110 011


Q ss_pred             HHHHH----------hcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         235 FHYSK----------SIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       235 ~~~~~----------~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+..          .+..+++.+||++|.|+++++++|.+.+..
T Consensus       235 ~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          235 AEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            12211          124578999999999999999999887643

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.16  E-value=3.8e-11  Score=127.60  Aligned_cols=96  Identities=22%  Similarity=0.305  Sum_probs=73.7

Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH----HHHH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF----HYSK  239 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~----~~~~  239 (617)
                      ..++|..+++.+++.++++|+|+|++++.     ..|...+.+... ++|+++|+||+||.... ...++..    .+++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~-~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVG-NNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSS-SSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhC-CCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHH
Confidence            45788899999999999999999999853     456666666554 47999999999996533 2233333    3466


Q ss_pred             hcCC---eEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         240 SIGG---TYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       240 ~~g~---~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      ..|+   +++++||++|.|++++++.|.+.
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~  157 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYY  157 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhh
Confidence            6787   89999999999999999988654

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.14  E-value=1.3e-10  Score=129.84  Aligned_cols=70  Identities=19%  Similarity=0.286  Sum_probs=53.0

Q ss_pred             EEEEEecCCccc-----------ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         156 KLQVWDTAGQER-----------FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       156 ~l~i~Dt~G~e~-----------~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      .+.||||+|...           |......++..+|++|+|+|+++.........|+..+..   ...|+++|+||+|+.
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~~~pvilVlNK~Dl~  231 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---HEDKIRVVLNKADMV  231 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---CGGGEEEEEECGGGS
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---cCCCEEEEEECCCcc
Confidence            588999999864           445667788899999999999875444555666666543   346899999999997


Q ss_pred             Cccc
Q psy3029         225 SSRE  228 (617)
Q Consensus       225 ~~~~  228 (617)
                      ...+
T Consensus       232 ~~~e  235 (550)
T 2qpt_A          232 ETQQ  235 (550)
T ss_dssp             CHHH
T ss_pred             CHHH
Confidence            5433

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.12  E-value=1.1e-10  Score=136.56  Aligned_cols=115  Identities=19%  Similarity=0.233  Sum_probs=84.3

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcC------------CCCC------ccCCCcceeEEE
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK------------MFSH------HISPTIGASFFT  145 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~------------~~~~------~~~~t~g~~~~~  145 (617)
                      ..+|+|+|.                      +|+|||||+++|+..            .+..      ....|++.....
T Consensus        19 ~rnI~IiG~----------------------~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~   76 (842)
T 1n0u_A           19 VRNMSVIAH----------------------VDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAIS   76 (842)
T ss_dssp             EEEEEEECC----------------------GGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEE
T ss_pred             ccEEEEECC----------------------CCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeE
Confidence            358999999                      999999999999853            1110      011233332222


Q ss_pred             EEEE------------ECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe
Q psy3029         146 AKIN------------VGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV  213 (617)
Q Consensus       146 ~~i~------------~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP  213 (617)
                      ..+.            .++..+.++||||||+.+|...+..+++.+|++|+|||+++..+++....|.... .   ..+|
T Consensus        77 ~~~~~~~~~~~~i~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~-~---~~~p  152 (842)
T 1n0u_A           77 LYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQAL-G---ERIK  152 (842)
T ss_dssp             EEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHH-H---TTCE
T ss_pred             EEecccccccccccccccCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHH-H---cCCC
Confidence            2332            2345789999999999999999999999999999999999988887766554433 2   3479


Q ss_pred             EEEEEECCCCC
Q psy3029         214 LCVVGNKTDLE  224 (617)
Q Consensus       214 vIlVgNK~DL~  224 (617)
                      +++|+||+|+.
T Consensus       153 ~ilviNK~D~~  163 (842)
T 1n0u_A          153 PVVVINKVDRA  163 (842)
T ss_dssp             EEEEEECHHHH
T ss_pred             eEEEEECCCcc
Confidence            99999999985

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.11  E-value=1.4e-10  Score=116.55  Aligned_cols=109  Identities=16%  Similarity=-0.020  Sum_probs=68.5

Q ss_pred             EEEEEEecCCcccccccch------hhhccCCEEEEEEeCCChhhHHHHH---HHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         155 VKLQVWDTAGQERFRSMAP------MYYRNANAALLVFDITQYHSFAAIK---TWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~------~~~~~ad~iIlV~Dis~~~S~~~l~---~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      +.+.||||+|.........      .++.. +++|+|+|.....+.....   .+......  ...+|+++|+||+|+..
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~--~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLS  185 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhc--ccCCCeEEEEecccccc
Confidence            5789999999876533221      24456 8899999876543322222   11111111  12368999999999865


Q ss_pred             ccccCHHHHHH----------------------------HHHhcC--CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         226 SREVNREEAFH----------------------------YSKSIG--GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       226 ~~~v~~~e~~~----------------------------~~~~~g--~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ..++  ++..+                            ++..++  .+++++||+++.|+++++++|.+.+.
T Consensus       186 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          186 EEEK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HHHH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            4321  11111                            123333  48999999999999999999987764

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.11  E-value=3.8e-11  Score=127.65  Aligned_cols=122  Identities=22%  Similarity=0.319  Sum_probs=91.8

Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHH----HHHH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF----HYSK  239 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~----~~~~  239 (617)
                      .+++|..+++.++..++++|+|+|++++.+     .|+..+.+... +.|+++|+||+||.... ...+...    .+++
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~-~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAA-DNPILLVGNKADLLPRS-VKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCT-TSCEEEEEECGGGSCTT-CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhC-CCCEEEEEEChhcCCCc-cCHHHHHHHHHHHHH
Confidence            478899999999999999999999999764     34444444443 46999999999997532 2223333    3466


Q ss_pred             hcCC---eEEEEcCCCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhh
Q psy3029         240 SIGG---TYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETA  316 (617)
Q Consensus       240 ~~g~---~~~evSAktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~  316 (617)
                      ..|+   .++.+||++|.|++++++.|.+...                                             ..+
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~~---------------------------------------------~~~  164 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRYRE---------------------------------------------GGD  164 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHHHT---------------------------------------------TSC
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhhcc---------------------------------------------cCc
Confidence            6776   7899999999999999998866431                                             135


Q ss_pred             eeeeccCCCCCCCcceeeeeeecccccccceeccccC
Q psy3029         317 KFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGK  353 (617)
Q Consensus       317 v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~  353 (617)
                      ++++|.+                ++|||++++.+++.
T Consensus       165 i~~vG~~----------------nvGKStliN~L~~~  185 (369)
T 3ec1_A          165 VYVVGCT----------------NVGKSTFINRIIEE  185 (369)
T ss_dssp             EEEECCT----------------TSSHHHHHHHHHHH
T ss_pred             EEEEcCC----------------CCchHHHHHHHHhh
Confidence            7788877                99999999999865

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.10  E-value=9.4e-11  Score=124.21  Aligned_cols=51  Identities=12%  Similarity=0.011  Sum_probs=37.9

Q ss_pred             CeEEEEEECCCC--CCc-cccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHH
Q psy3029         212 LVLCVVGNKTDL--ESS-REVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       212 iPvIlVgNK~DL--~~~-~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~  262 (617)
                      .|+++|+||.|.  .+. +....+.+..+++..+.+++++||+.+.++.+|.+.
T Consensus       202 KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSAk~E~el~eL~~~  255 (368)
T 2dby_A          202 KPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSARLEAELAELSGE  255 (368)
T ss_dssp             SCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECHHHHHHHHTSCHH
T ss_pred             CCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeechhHHHHHHhchH
Confidence            699999999984  221 123356677888888999999999987777766554

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.06  E-value=8.9e-11  Score=123.48  Aligned_cols=104  Identities=15%  Similarity=0.094  Sum_probs=65.4

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--  231 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--  231 (617)
                      .+.+.||||+|.....   ......+|++|+|+|......+..+..   ...     .+|+++|+||+|+........  
T Consensus       148 ~~~i~liDTpG~~~~~---~~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~~-----~~p~ivv~NK~Dl~~~~~~~~~~  216 (341)
T 2p67_A          148 GYDVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKK---GLM-----EVADLIVINKDDGDNHTNVAIAR  216 (341)
T ss_dssp             TCSEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCH---HHH-----HHCSEEEECCCCTTCHHHHHHHH
T ss_pred             CCCEEEEeCCCccchH---HHHHHhCCEEEEEEeCCccHHHHHHHH---hhh-----cccCEEEEECCCCCChHHHHHHH
Confidence            3579999999975433   234689999999999876533221111   111     257899999999865322111  


Q ss_pred             HHHHHHHHhc-------CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSI-------GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       232 ~e~~~~~~~~-------g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++.......+       ..+++++||++|.|++++++.|.+.+.
T Consensus       217 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          217 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            1122211121       357899999999999999999988765

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.02  E-value=4.1e-10  Score=128.74  Aligned_cols=108  Identities=17%  Similarity=0.079  Sum_probs=69.5

Q ss_pred             EEEEEecCCccc-------------ccccchhhh-ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECC
Q psy3029         156 KLQVWDTAGQER-------------FRSMAPMYY-RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKT  221 (617)
Q Consensus       156 ~l~i~Dt~G~e~-------------~~~~~~~~~-~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~  221 (617)
                      .+.|+||||...             +..+...|+ ..+|++|+|+|++....-.+...++..+.   ....|+|+|+||+
T Consensus       151 qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~---~~g~pvIlVlNKi  227 (772)
T 3zvr_A          151 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITKL  227 (772)
T ss_dssp             SEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHC---TTCSSEEEEEECT
T ss_pred             ceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHH---hcCCCEEEEEeCc
Confidence            478999999643             223444555 47899999999987543333222333333   3457999999999


Q ss_pred             CCCCccccCHHHHHH-HH-HhcC-CeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         222 DLESSREVNREEAFH-YS-KSIG-GTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       222 DL~~~~~v~~~e~~~-~~-~~~g-~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      |+............. +. ..++ .+++.+||++|.|+++|++.|.+.
T Consensus       228 Dlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          228 DLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             TSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             ccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            997654432221110 00 0123 267889999999999999998763

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.00  E-value=1.1e-09  Score=122.14  Aligned_cols=106  Identities=19%  Similarity=0.158  Sum_probs=70.8

Q ss_pred             CCCCHHHHHHHHHcC------------------CCCC--ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchh
Q psy3029         115 LGVGKTSMVVRYIGK------------------MFSH--HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM  174 (617)
Q Consensus       115 ~nVGKSSLinrl~~~------------------~~~~--~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~  174 (617)
                      .++|||||..+|+..                  .+.+  ......|+++....+.+..+.+.++|+||||+.+|......
T Consensus        40 vdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGHvDF~~Ev~r  119 (548)
T 3vqt_A           40 PDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPGHQDFSEDTYR  119 (548)
T ss_dssp             TTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETTEEEEEECCCCGGGCSHHHHH
T ss_pred             CCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCCCcHHHHHHHHH
Confidence            999999999999611                  0000  00112233332233333445678999999999999999999


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      .++-+|++|+|+|+...---+...-| ..+.+   .++|+++++||+|..
T Consensus       120 aL~~~DgAvlVvda~~GV~~qT~~v~-~~a~~---~~lp~i~fINK~Dr~  165 (548)
T 3vqt_A          120 VLTAVDSALVVIDAAKGVEAQTRKLM-DVCRM---RATPVMTFVNKMDRE  165 (548)
T ss_dssp             HHHSCSEEEEEEETTTBSCHHHHHHH-HHHHH---TTCCEEEEEECTTSC
T ss_pred             HHHhcCceEEEeecCCCcccccHHHH-HHHHH---hCCceEEEEecccch
Confidence            99999999999999886544443334 33333   348999999999975

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.95  E-value=6.2e-09  Score=110.32  Aligned_cols=144  Identities=13%  Similarity=0.063  Sum_probs=82.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc----cc---chhhhccCCEEEEEEe
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR----SM---APMYYRNANAALLVFD  187 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~----~~---~~~~~~~ad~iIlV~D  187 (617)
                      ||||||||+|+|++.+......|....+...-.+.+.+  ..++|+||||..+-.    .+   .-..++++|++++|+|
T Consensus        81 PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD  158 (376)
T 4a9a_A           81 PSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILD  158 (376)
T ss_dssp             CCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccccccc
Confidence            99999999999998764322223222333333444444  568999999974321    11   1234568999999999


Q ss_pred             CCChhh-HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC--------ccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHH
Q psy3029         188 ITQYHS-FAAIKTWVKELKRNVDEPLVLCVVGNKTDLES--------SREVNREEAFHYSKSIGGTYYETSALQDQGIED  258 (617)
Q Consensus       188 is~~~S-~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~--------~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~e  258 (617)
                      ++++.. ++.+...|..+.... ...|.+++.||+|...        ......++...+...+.+..-.+-...+...++
T Consensus       159 ~~~p~~~~~~i~~EL~~~~~~l-~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kpv~~~~nv~edd  237 (376)
T 4a9a_A          159 VNKPLHHKQIIEKELEGVGIRL-NKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAEIAFRCDATVDD  237 (376)
T ss_dssp             TTSHHHHHHHHHHHHHHTTEEE-TCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEEEEECSCCCHHH
T ss_pred             cCccHHHHHHHHHHHHHhhHhh-ccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCCeeecccCCHHH
Confidence            998742 233333232221111 2357789999999732        123445666666665555222222223445566


Q ss_pred             HHH
Q psy3029         259 VFL  261 (617)
Q Consensus       259 Lf~  261 (617)
                      +.+
T Consensus       238 l~d  240 (376)
T 4a9a_A          238 LID  240 (376)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.94  E-value=8.6e-10  Score=115.74  Aligned_cols=104  Identities=13%  Similarity=0.108  Sum_probs=63.3

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHH
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREE  233 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e  233 (617)
                      .+.+.|+||+|...-.   ......+|.+++|+|.........+..++.   .     ++.++|+||+|+..........
T Consensus       147 ~~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~i~---~-----~~~ivvlNK~Dl~~~~~~s~~~  215 (337)
T 2qm8_A          147 GFDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGIF---E-----LADMIAVNKADDGDGERRASAA  215 (337)
T ss_dssp             TCCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTHH---H-----HCSEEEEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHHHh---c-----cccEEEEEchhccCchhHHHHH
Confidence            3568999999974321   234578999999999865432221211111   1     3557778999975422211112


Q ss_pred             HHHHHHh----------cCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         234 AFHYSKS----------IGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       234 ~~~~~~~----------~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ...+...          +..+++.+||+++.|+++|++.|.+.+.
T Consensus       216 ~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          216 ASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            2222221          1357899999999999999999987654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.93  E-value=1.3e-10  Score=117.73  Aligned_cols=89  Identities=13%  Similarity=0.056  Sum_probs=62.3

Q ss_pred             cCCccc-ccccchhhhccCCEEEEEEeCCChhhHHH--HHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHH
Q psy3029         162 TAGQER-FRSMAPMYYRNANAALLVFDITQYHSFAA--IKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYS  238 (617)
Q Consensus       162 t~G~e~-~~~~~~~~~~~ad~iIlV~Dis~~~S~~~--l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~  238 (617)
                      .||+.. ........++++|++|+|+|++++.+...  +. |+         .+|.++|+||+||.+...  .+...+++
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~l~-ll---------~k~~iivlNK~DL~~~~~--~~~~~~~~   71 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYGVD-FS---------RKETIILLNKVDIADEKT--TKKWVEFF   71 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTTSC-CT---------TSEEEEEEECGGGSCHHH--HHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChHHH-hc---------CCCcEEEEECccCCCHHH--HHHHHHHH
Confidence            356542 23456778899999999999999876542  22 22         479999999999975322  23445566


Q ss_pred             HhcCCeEEEEcCCCCCCHHHHHHHH
Q psy3029         239 KSIGGTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       239 ~~~g~~~~evSAktg~gI~eLf~~I  263 (617)
                      +..|+++ .+||+++.|+++|++.|
T Consensus        72 ~~~g~~v-~iSa~~~~gi~~L~~~l   95 (262)
T 3cnl_A           72 KKQGKRV-ITTHKGEPRKVLLKKLS   95 (262)
T ss_dssp             HHTTCCE-EECCTTSCHHHHHHHHC
T ss_pred             HHcCCeE-EEECCCCcCHHHHHHHH
Confidence            6678888 99999999999887764

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.83  E-value=3.9e-10  Score=116.42  Aligned_cols=93  Identities=20%  Similarity=0.225  Sum_probs=70.4

Q ss_pred             ccccccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc--CHHHHHHHHHhcC
Q psy3029         166 ERFRSMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV--NREEAFHYSKSIG  242 (617)
Q Consensus       166 e~~~~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v--~~~e~~~~~~~~g  242 (617)
                      ++...+.+..+.++|.+++|+|+.+|. +...+++++..+..   ..+|++||+||+||.++...  ..+.+.+++...|
T Consensus        74 ~R~~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~---~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g  150 (307)
T 1t9h_A           74 ERTNELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIG  150 (307)
T ss_dssp             CCSCEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHT
T ss_pred             chhhhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCC
Confidence            455667778899999999999999766 56667777766544   34788999999999764321  1244556777789


Q ss_pred             CeEEEEcCCCCCCHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~  261 (617)
                      ++++.+||+++.|+++|++
T Consensus       151 ~~v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          151 YDVYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             CCEEECCHHHHTTCTTTGG
T ss_pred             CeEEEEecCCCCCHHHHHh
Confidence            9999999999998877653

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.74  E-value=2.2e-09  Score=121.93  Aligned_cols=109  Identities=15%  Similarity=0.131  Sum_probs=73.6

Q ss_pred             CCCCCCCHHHHHHHHHc--CCCCC--------ccCC------CcceeEEEEEEEECCeEEEEEEEecCCcccccccchhh
Q psy3029         112 WFWLGVGKTSMVVRYIG--KMFSH--------HISP------TIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY  175 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~--~~~~~--------~~~~------t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~  175 (617)
                      +|-...|||||..+|+.  +....        .+..      ..|+++....+.+..+.+.++|+||||+.+|.......
T Consensus         8 iaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~Ev~ra   87 (638)
T 3j25_A            8 LAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLAEVYRS   87 (638)
T ss_dssp             ECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHHHHHHH
T ss_pred             EcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHHHHHHH
Confidence            33399999999999962  11100        0000      12334444444455566789999999999999999999


Q ss_pred             hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       176 ~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      ++-+|++|+|+|+...-.-+...-| ..+.+   .++|.|+++||+|..
T Consensus        88 L~~~DgavlVVDa~~GV~~qT~~v~-~~a~~---~~lp~i~~INKmDr~  132 (638)
T 3j25_A           88 LSVLDGAILLISAKDGVQAQTRILF-HALRK---MGIPTIFFINKIDQN  132 (638)
T ss_dssp             HTTCSEEECCEESSCTTCSHHHHHH-HHHHH---HTCSCEECCEECCSS
T ss_pred             HHHhCEEEEEEeCCCCCcHHHHHHH-HHHHH---cCCCeEEEEeccccc
Confidence            9999999999999876433332223 33333   237889999999974

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=98.71  E-value=9.8e-08  Score=101.72  Aligned_cols=76  Identities=20%  Similarity=0.144  Sum_probs=48.2

Q ss_pred             CCCCHHHHHHHHHcCCC-CCccCCCcceeEEEEEEEECCe---------------EEEEEEEecCCcccc-------ccc
Q psy3029         115 LGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGEN---------------KVKLQVWDTAGQERF-------RSM  171 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~-~~~~~~t~g~~~~~~~i~~~~~---------------~~~l~i~Dt~G~e~~-------~~~  171 (617)
                      +|||||||+|+|++... .....|....+...-.+.+.+.               ...+.+||++|....       ...
T Consensus        29 pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~~s~~e~L~~~  108 (392)
T 1ni3_A           29 PNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNA  108 (392)
T ss_dssp             SSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCHH
T ss_pred             CCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccCCcHHHHHHHH
Confidence            99999999999998664 2233332222222223444431               136899999996432       223


Q ss_pred             chhhhccCCEEEEEEeCCC
Q psy3029         172 APMYYRNANAALLVFDITQ  190 (617)
Q Consensus       172 ~~~~~~~ad~iIlV~Dis~  190 (617)
                      ...+++.+|++++|+|+.+
T Consensus       109 fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A          109 FLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             HHHHHTTCSEEEEEEECCC
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            3445679999999999864

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=98.69  E-value=1.3e-08  Score=98.20  Aligned_cols=104  Identities=7%  Similarity=-0.104  Sum_probs=66.4

Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHH---H-hcC-CCCCeEEEEEECC-CCCCccccCHHHHH
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKEL---K-RNV-DEPLVLCVVGNKT-DLESSREVNREEAF  235 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i---~-~~~-~~~iPvIlVgNK~-DL~~~~~v~~~e~~  235 (617)
                      .+|++.++.+|+.||.++|++|||+|.+|.+-++ ..+-+..+   . ... ..++|++|.+||. |+..  ..+..++.
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~--Ams~~EI~  185 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLA  185 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSC--BCCHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccC--CCCHHHHH
Confidence            4588999999999999999999999999875433 22223222   2 211 2468999999995 6743  34444443


Q ss_pred             HHHH----hcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         236 HYSK----SIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       236 ~~~~----~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +...    .....+..|||++|+|+.+-++||.+.+.
T Consensus       186 e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~  222 (227)
T 3l82_B          186 HELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  222 (227)
T ss_dssp             HHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTT
T ss_pred             HHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHH
Confidence            2221    12346899999999999999999987653

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.66  E-value=1.5e-08  Score=107.87  Aligned_cols=79  Identities=14%  Similarity=0.038  Sum_probs=41.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCe---------------EEEEEEEecCCcccccc-------cc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN---------------KVKLQVWDTAGQERFRS-------MA  172 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~---------------~~~l~i~Dt~G~e~~~~-------~~  172 (617)
                      +|||||||+|+|++..+.....|..+.+.....+.+.+.               ...+.+|||+|..+...       ..
T Consensus        31 pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~as~~~glg~~~  110 (396)
T 2ohf_A           31 PNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQGLGNAF  110 (396)
T ss_dssp             SSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----------CCHH
T ss_pred             CCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccccchhhHHHHHH
Confidence            999999999999987653332232222222233333332               23599999999876443       34


Q ss_pred             hhhhccCCEEEEEEeCCChhh
Q psy3029         173 PMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       173 ~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      ..+++++|++++|+|+++..+
T Consensus       111 l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A          111 LSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             HHHHHTSSSEEEEEEC-----
T ss_pred             HHHHHhcCeEEEEEecCCCcc
Confidence            567889999999999986544

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.63  E-value=2.6e-07  Score=106.24  Aligned_cols=106  Identities=20%  Similarity=0.188  Sum_probs=68.2

Q ss_pred             CCCCHHHHHHHHHcC--------CCC--Ccc------CCCcceeEEEEEEEE--C-----CeEEEEEEEecCCccccccc
Q psy3029         115 LGVGKTSMVVRYIGK--------MFS--HHI------SPTIGASFFTAKINV--G-----ENKVKLQVWDTAGQERFRSM  171 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--------~~~--~~~------~~t~g~~~~~~~i~~--~-----~~~~~l~i~Dt~G~e~~~~~  171 (617)
                      ...|||||..+|+..        +..  ..+      ....|+++....+.+  .     .+.+.++|+||||+-+|...
T Consensus        22 vd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlIDTPGHvDF~~E  101 (709)
T 4fn5_A           22 VDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTPGHVDFTIE  101 (709)
T ss_dssp             SSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEECCCSCTTCHHH
T ss_pred             CCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEeCCCCcccHHH
Confidence            999999999999621        100  001      112333333322322  1     23689999999999999998


Q ss_pred             chhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         172 APMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       172 ~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      ....++-+|++|+|+|+...-..+...-|-.. .+   .++|.++++||+|..
T Consensus       102 v~~aLr~~DgavlvVDaveGV~~qT~~v~~~a-~~---~~lp~i~~iNKiDr~  150 (709)
T 4fn5_A          102 VERSLRVLDGAVVVFCGTSGVEPQSETVWRQA-NK---YGVPRIVYVNKMDRQ  150 (709)
T ss_dssp             HHHHHHHCSEEEEEEETTTCSCHHHHHHHHHH-HH---HTCCEEEEEECSSST
T ss_pred             HHHHHHHhCeEEEEEECCCCCchhHHHHHHHH-HH---cCCCeEEEEcccccc
Confidence            99999999999999999876544333333332 22   247999999999974

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=98.61  E-value=3.3e-08  Score=103.97  Aligned_cols=85  Identities=18%  Similarity=0.144  Sum_probs=61.8

Q ss_pred             hhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc-CHHHHHHHHHhcCCeEEEEcCC
Q psy3029         174 MYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV-NREEAFHYSKSIGGTYYETSAL  251 (617)
Q Consensus       174 ~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v-~~~e~~~~~~~~g~~~~evSAk  251 (617)
                      ..+.++|.+++|.+. .|. +...+++|+......   .+|++||+||+||.++... ..++....+...|++++.+||+
T Consensus       126 ~i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~  201 (358)
T 2rcn_A          126 PIAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSH  201 (358)
T ss_dssp             EEEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTT
T ss_pred             HHHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecC
Confidence            347899999988775 454 566778887665442   3688999999999764321 1223445566789999999999


Q ss_pred             CCCCHHHHHHH
Q psy3029         252 QDQGIEDVFLN  262 (617)
Q Consensus       252 tg~gI~eLf~~  262 (617)
                      ++.|+++|...
T Consensus       202 ~~~gl~~L~~~  212 (358)
T 2rcn_A          202 TQDGLKPLEEA  212 (358)
T ss_dssp             TTBTHHHHHHH
T ss_pred             CCcCHHHHHHh
Confidence            99999887753

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=98.48  E-value=2.1e-07  Score=94.07  Aligned_cols=105  Identities=7%  Similarity=-0.123  Sum_probs=71.1

Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHH---HHHHHHHHHHhc-CCCCCeEEEEEEC-CCCCCccccCHHHHHH
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFA---AIKTWVKELKRN-VDEPLVLCVVGNK-TDLESSREVNREEAFH  236 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~---~l~~~l~~i~~~-~~~~iPvIlVgNK-~DL~~~~~v~~~e~~~  236 (617)
                      .+|++..+.+|+.|+.++|++|||+|.+|++-++   ++.+....+.+. ...++|++|.+|| .|+..  ..+..++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~--Ams~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSC--BCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccC--CCCHHHHHH
Confidence            4688999999999999999999999999986433   222221222221 1245799999997 58743  344444332


Q ss_pred             HHH----hcCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         237 YSK----SIGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       237 ~~~----~~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ...    .....+..|||++|+|+.+-++||.+.+.
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~  307 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  307 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSC
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHH
Confidence            221    12346899999999999999999988763

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=98.40  E-value=7.7e-08  Score=94.34  Aligned_cols=59  Identities=24%  Similarity=0.357  Sum_probs=41.7

Q ss_pred             CCCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         326 SRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       326 s~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++.+.+|++++|.++|||||++.||+.+.|...|.||||.+|..+.+.+++..|+|+|-
T Consensus         9 ~P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iw   67 (216)
T 4dkx_A            9 NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLW   67 (216)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEE
T ss_pred             CCCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEE
Confidence            34566788888888999999999999999999999999999999999999999999985

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.25  E-value=1.6e-07  Score=99.64  Aligned_cols=139  Identities=14%  Similarity=0.054  Sum_probs=80.4

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC----CCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccccc-------chhh
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK----MFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSM-------APMY  175 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~----~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~-------~~~~  175 (617)
                      ..++++|.+|||||||+|+|++.    .......+.+|.+.....+.+...   +.++||||......+       ...+
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~~  239 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDLKI  239 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTHHH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHHHH
Confidence            45666677999999999999875    112233344555655555555443   789999997432211       1122


Q ss_pred             h---ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCC
Q psy3029         176 Y---RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQ  252 (617)
Q Consensus       176 ~---~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAkt  252 (617)
                      +   +..+.++++++......+..+..    +.......+|+++|+||+|........ .....+.+.+|..+...++..
T Consensus       240 ~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~~-~~~~~~~~~~g~~l~p~~~~~  314 (369)
T 3ec1_A          240 ITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKLE-KADSLYANQLGELLSPPSKRY  314 (369)
T ss_dssp             HSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEGG-GHHHHHHHHBTTTBCSSCGGG
T ss_pred             HhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccHH-HHHHHHHHhcCCccCCCCchh
Confidence            2   57899999998732211111110    111123457999999999986543322 223345556666555555544


Q ss_pred             C
Q psy3029         253 D  253 (617)
Q Consensus       253 g  253 (617)
                      .
T Consensus       315 ~  315 (369)
T 3ec1_A          315 A  315 (369)
T ss_dssp             T
T ss_pred             h
Confidence            3

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.21  E-value=6e-08  Score=102.84  Aligned_cols=135  Identities=12%  Similarity=0.067  Sum_probs=74.5

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcCC-----CCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc----cchhh--
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGKM-----FSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS----MAPMY--  175 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~~-----~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~----~~~~~--  175 (617)
                      ..++++|.+|||||||+|+|++..     ......+.+|.+.....+.+...   +.++||||......    +....  
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  237 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLK  237 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHH
Confidence            445566669999999999998752     12223455566655555554443   78999999743221    11111  


Q ss_pred             ----hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEc
Q psy3029         176 ----YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETS  249 (617)
Q Consensus       176 ----~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evS  249 (617)
                          .+..+.++++++......+..+.    .+.......+|+++|+||+|....... ......+.+.+|..+...+
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~----~~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~  310 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLA----RFDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPT  310 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTE----EEEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSC
T ss_pred             HhccccccCceEEEEcCCCEEEEcceE----EEEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCc
Confidence                24678888888863221111111    011112245799999999998654332 2223344455665544444

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.20  E-value=2.4e-06  Score=91.74  Aligned_cols=131  Identities=15%  Similarity=0.163  Sum_probs=65.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccC--CCcceeEEEEEEEECC--eEEEEEEEecCCcccc--------------cccchhhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHIS--PTIGASFFTAKINVGE--NKVKLQVWDTAGQERF--------------RSMAPMYY  176 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~--~t~g~~~~~~~i~~~~--~~~~l~i~Dt~G~e~~--------------~~~~~~~~  176 (617)
                      +|+|||||+|.|++..+.....  ...+.......+.+..  -...+.++|++|....              ...+..++
T Consensus        51 nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~i~~q~~~~L  130 (427)
T 2qag_B           51 TGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEFIDAQFEAYL  130 (427)
T ss_dssp             TTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHHHHHHHHHHH
Confidence            9999999999999865422111  1222222222222222  2236889999875321              01111111


Q ss_pred             -------------cc--CC-EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--HHHHHHH
Q psy3029         177 -------------RN--AN-AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--EEAFHYS  238 (617)
Q Consensus       177 -------------~~--ad-~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--~e~~~~~  238 (617)
                                   ..  +| +++|+.|...+.+..++ .++.   ... ..+|+|+|.||+|.....++..  +.+....
T Consensus       131 ~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Di-eilk---~L~-~~~~vI~Vi~KtD~Lt~~E~~~l~~~I~~~L  205 (427)
T 2qag_B          131 QEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDL-VTMK---KLD-SKVNIIPIIAKADAISKSELTKFKIKITSEL  205 (427)
T ss_dssp             HHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHH-HHHH---HTC-SCSEEEEEESCGGGSCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHH-HHHH---HHh-hCCCEEEEEcchhccchHHHHHHHHHHHHHH
Confidence                         11  22 46667776654333221 1222   222 4579999999999865433211  1122223


Q ss_pred             HhcCCeEEEEcC
Q psy3029         239 KSIGGTYYETSA  250 (617)
Q Consensus       239 ~~~g~~~~evSA  250 (617)
                      ...|++++.+|.
T Consensus       206 ~~~gi~I~~is~  217 (427)
T 2qag_B          206 VSNGVQIYQFPT  217 (427)
T ss_dssp             BTTBCCCCCCC-
T ss_pred             HHcCCcEEecCC
Confidence            345778888875

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.17  E-value=7.5e-07  Score=97.84  Aligned_cols=102  Identities=18%  Similarity=0.160  Sum_probs=62.0

Q ss_pred             EEEEEEEecCCcccccc-cchh---h--hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeE-EEEEECCCCCCc
Q psy3029         154 KVKLQVWDTAGQERFRS-MAPM---Y--YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVL-CVVGNKTDLESS  226 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~-~~~~---~--~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPv-IlVgNK~DL~~~  226 (617)
                      .+.+.|+||+|...... +...   +  +..+|.+++|+|+........   ....+...    +|+ +||+||+|....
T Consensus       183 ~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~---~a~~~~~~----~~i~gvVlNK~D~~~~  255 (504)
T 2j37_W          183 NFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEA---QAKAFKDK----VDVASVIVTKLDGHAK  255 (504)
T ss_dssp             TCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHH---HHHHHHHH----HCCCCEEEECTTSCCC
T ss_pred             CCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHH---HHHHHHhh----cCceEEEEeCCccccc
Confidence            35789999999753221 1111   1  227899999999987543211   12223221    464 799999998643


Q ss_pred             cccCHHHHHHHHHhcCCeE------------------EEEcCCCCCC-HHHHHHHHHHH
Q psy3029         227 REVNREEAFHYSKSIGGTY------------------YETSALQDQG-IEDVFLNVSKG  266 (617)
Q Consensus       227 ~~v~~~e~~~~~~~~g~~~------------------~evSAktg~g-I~eLf~~I~~~  266 (617)
                      ..    .+.......+.|+                  +.+|+.+|.| +.+|++++.+.
T Consensus       256 ~g----~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          256 GG----GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CT----HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             hH----HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            22    1223333444443                  3478999999 99999888654

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.07  E-value=1.1e-05  Score=86.46  Aligned_cols=148  Identities=13%  Similarity=0.113  Sum_probs=76.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCc-ceeEEE-EEEEECCeEEEEEEEecCCcccccccchhh-----hccCCEEEEEEe
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTI-GASFFT-AKINVGENKVKLQVWDTAGQERFRSMAPMY-----YRNANAALLVFD  187 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~-g~~~~~-~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~-----~~~ad~iIlV~D  187 (617)
                      +|+|||||+|.+++-.....-.-++ |.+... ..+.-....-.+.+||++|..........+     +...+.+++ +|
T Consensus        78 nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~~-lS  156 (413)
T 1tq4_A           78 TGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFII-IS  156 (413)
T ss_dssp             TTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEE-EE
T ss_pred             CCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccccCCeeehHhhcccchHHHHHHHHHHcCCCccCCeEE-eC
Confidence            9999999999999843221111111 111000 011111111147899999864322222233     234466555 77


Q ss_pred             CCChhh-HHHHHHHHHHHHhcCCCCCeEEEEEECCCCC--Cc-----cccCHHH----HHHHH----HhcC---CeEEEE
Q psy3029         188 ITQYHS-FAAIKTWVKELKRNVDEPLVLCVVGNKTDLE--SS-----REVNREE----AFHYS----KSIG---GTYYET  248 (617)
Q Consensus       188 is~~~S-~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~--~~-----~~v~~~e----~~~~~----~~~g---~~~~ev  248 (617)
                      ...... -..+..++.   .   .+.|+++|.||.|+.  ++     .....++    +.+++    .+.|   ..++.+
T Consensus       157 ~G~~~kqrv~la~aL~---~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iili  230 (413)
T 1tq4_A          157 ATRFKKNDIDIAKAIS---M---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLL  230 (413)
T ss_dssp             SSCCCHHHHHHHHHHH---H---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEEC
T ss_pred             CCCccHHHHHHHHHHH---h---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEE
Confidence            652111 111222222   2   236999999999973  10     1112222    23332    1222   267889


Q ss_pred             cC--CCCCCHHHHHHHHHHHHHH
Q psy3029         249 SA--LQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       249 SA--ktg~gI~eLf~~I~~~l~~  269 (617)
                      |+  ..+.|++++.+.|.+.+..
T Consensus       231 Ssh~l~~~~~e~L~d~I~~~Lpe  253 (413)
T 1tq4_A          231 SNKNVCHYDFPVLMDKLISDLPI  253 (413)
T ss_dssp             CTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             ecCcCCccCHHHHHHHHHHhCcc
Confidence            99  6777899999999877643

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.75  E-value=3.8e-05  Score=77.68  Aligned_cols=64  Identities=16%  Similarity=0.132  Sum_probs=34.6

Q ss_pred             cCCEEEEEEeCC-ChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--HHHHHHHHhcCCeEE
Q psy3029         178 NANAALLVFDIT-QYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--EEAFHYSKSIGGTYY  246 (617)
Q Consensus       178 ~ad~iIlV~Dis-~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--~e~~~~~~~~g~~~~  246 (617)
                      .+.++++++|.. .+-+-.+ .+.+..+.+   . +++|+|.+|+|.....+...  +.+.+.....++.+|
T Consensus       111 Ral~~lllldep~~gL~~lD-~~~l~~L~~---~-~~vI~Vi~K~D~lt~~e~~~~k~~i~~~l~~~~i~i~  177 (270)
T 3sop_A          111 RVHCCLYFISPTGHSLRPLD-LEFMKHLSK---V-VNIIPVIAKADTMTLEEKSEFKQRVRKELEVNGIEFY  177 (270)
T ss_dssp             SCCEEEEEECCCSSSCCHHH-HHHHHHHHT---T-SEEEEEETTGGGSCHHHHHHHHHHHHHHHHHTTCCCS
T ss_pred             eeeeeeEEEecCCCcCCHHH-HHHHHHHHh---c-CcEEEEEeccccCCHHHHHHHHHHHHHHHHHcCcccc
Confidence            468888888854 2222222 223344433   3 79999999999865432211  222233444555554

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=97.71  E-value=2.7e-05  Score=79.30  Aligned_cols=59  Identities=22%  Similarity=0.296  Sum_probs=36.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+++|.                      ||||||||+|+|++.. ...+.+.+|.+.....+.+..   .+.+||
T Consensus       118 ~~~~~v~~vG~----------------------~nvGKSsliN~l~~~~-~~~~~~~~g~T~~~~~~~~~~---~~~l~D  171 (282)
T 1puj_A          118 PRAIRALIIGI----------------------PNVGKSTLINRLAKKN-IAKTGDRPGITTSQQWVKVGK---ELELLD  171 (282)
T ss_dssp             CCCEEEEEEES----------------------TTSSHHHHHHHHHTSC-CC------------CCEEETT---TEEEEE
T ss_pred             CCCceEEEEec----------------------CCCchHHHHHHHhcCc-eeecCCCCCeeeeeEEEEeCC---CEEEEE
Confidence            34578999999                      9999999999999876 334555666665444443432   478999


Q ss_pred             cCCcc
Q psy3029         162 TAGQE  166 (617)
Q Consensus       162 t~G~e  166 (617)
                      |||..
T Consensus       172 tpG~~  176 (282)
T 1puj_A          172 TPGIL  176 (282)
T ss_dssp             CCCCC
T ss_pred             CcCcC
Confidence            99974

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.58  E-value=2.1e-05  Score=79.16  Aligned_cols=49  Identities=16%  Similarity=0.220  Sum_probs=29.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER  167 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~  167 (617)
                      +|||||||+|+|++... ..+.+++|.+.....+.+..   .+.+|||||...
T Consensus       108 ~~vGKSslin~l~~~~~-~~~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          108 PNTGKSTIINKLKGKRA-SSVGAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             TTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             CCCCHHHHHHHHhcccc-cccCCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            99999999999998764 34556666655443333332   578999999754

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=97.53  E-value=4.7e-05  Score=70.39  Aligned_cols=46  Identities=37%  Similarity=0.567  Sum_probs=41.6

Q ss_pred             cccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         339 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       339 ~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++|||+++++++.+.|...+.+|+|.++..+.+.+++..+.+++-
T Consensus        24 ~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   69 (179)
T 1z0f_A           24 MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIW   69 (179)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEE
T ss_pred             CCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEE
Confidence            3999999999999999998899999999999999999988877764

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=97.48  E-value=8.1e-05  Score=71.44  Aligned_cols=54  Identities=31%  Similarity=0.405  Sum_probs=45.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|+|.+|..+.+.++++.+.|+|-
T Consensus        27 ~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~   80 (201)
T 2ew1_A           27 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIW   80 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            344445555999999999999999999999999999999999999988887754

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.46  E-value=0.00019  Score=77.40  Aligned_cols=93  Identities=17%  Similarity=0.160  Sum_probs=56.3

Q ss_pred             EEEEEEecCCcccccc-cch-----hhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc
Q psy3029         155 VKLQVWDTAGQERFRS-MAP-----MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE  228 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~-~~~-----~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~  228 (617)
                      +.+.|+||+|...... +..     .....+|.++||+|+.........   ...+....   .+..||.||+|....  
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~---a~~f~~~~---~i~gVIlTKlD~~~~--  254 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQ---ALAFKEAT---PIGSIIVTKLDGSAK--  254 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH---HHHHHHSC---TTEEEEEECCSSCSS--
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHH---HHHHHhhC---CCeEEEEECCCCccc--
Confidence            5688999999633221 111     112367999999998765432222   23333222   245689999997542  


Q ss_pred             cCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         229 VNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       229 v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                        ...+..+....+.|+.+++.  |+++++|
T Consensus       255 --gG~~ls~~~~~g~PI~fig~--Ge~vddL  281 (443)
T 3dm5_A          255 --GGGALSAVAATGAPIKFIGT--GEKIDDI  281 (443)
T ss_dssp             --HHHHHHHHHTTCCCEEEEEC--SSSTTCE
T ss_pred             --ccHHHHHHHHHCCCEEEEEc--CCChHHh
Confidence              23345566678889888875  6666543

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=97.44  E-value=9.6e-05  Score=68.24  Aligned_cols=55  Identities=27%  Similarity=0.379  Sum_probs=46.5

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++++++|..++|||+++++++.+.|...+.+|++.++..+.+.++++.+.|++-
T Consensus        14 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   68 (179)
T 2y8e_A           14 KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLW   68 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEE
Confidence            3455555555999999999999999999999999999999999999987777653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=97.43  E-value=5e-05  Score=70.34  Aligned_cols=56  Identities=25%  Similarity=0.251  Sum_probs=46.6

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC-EEEEEEee
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQLR  384 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~-~~v~LqI~  384 (617)
                      +.++++++|..++|||++++++..+.|...+.||+|.+|..+.+.+++ ..++|++-
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~   61 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW   61 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEE
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEE
Confidence            345666666669999999999999999888899999999999999987 56666653

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=97.42  E-value=8e-05  Score=70.27  Aligned_cols=51  Identities=22%  Similarity=0.395  Sum_probs=42.8

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||+++++++.+.|...+.||++.+| .+.+.++++.+.|+|-
T Consensus        24 i~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   74 (187)
T 3c5c_A           24 LAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVM   74 (187)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEE
Confidence            33334449999999999999999999999999988 6778899998888874

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=97.40  E-value=7.2e-05  Score=68.60  Aligned_cols=54  Identities=37%  Similarity=0.476  Sum_probs=46.6

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      .++++++|..++|||+++++++.+.+...+.||++.+|..+.+.++++.+.|+|
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i   59 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAI   59 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEE
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEE
Confidence            355566666699999999999999999889999999999899999998888775

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=97.39  E-value=8.4e-05  Score=69.29  Aligned_cols=54  Identities=28%  Similarity=0.332  Sum_probs=30.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||+|.+|..+.+.++++.+.|+|-
T Consensus         9 ~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   62 (183)
T 2fu5_C            9 FKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIW   62 (183)
T ss_dssp             EEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEE
Confidence            344455555999999999999999998899999999999999999988887764

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=97.39  E-value=8.3e-05  Score=71.10  Aligned_cols=54  Identities=30%  Similarity=0.311  Sum_probs=36.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||+|.+|..+.+.++++.++|+|-
T Consensus        30 ~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   83 (201)
T 2hup_A           30 FKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIW   83 (201)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEE
Confidence            344444455999999999999999998899999999999999999988888764

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=97.38  E-value=0.00014  Score=69.00  Aligned_cols=54  Identities=28%  Similarity=0.323  Sum_probs=47.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||++++++....+...+.||+|.+|..+.+.++++.+.+++-
T Consensus        30 ~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~   83 (191)
T 1oix_A           30 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW   83 (191)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEE
Confidence            456666667999999999999999998999999999999999999999887654

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=97.38  E-value=8.7e-05  Score=70.60  Aligned_cols=54  Identities=24%  Similarity=0.332  Sum_probs=47.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++.++..+.+.++++.+.|+|-
T Consensus        34 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   87 (199)
T 3l0i_B           34 FKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW   87 (199)
T ss_dssp             EEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEE
Confidence            566666667999999999999999999999999999999999999988877754

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=97.37  E-value=0.00012  Score=67.87  Aligned_cols=53  Identities=13%  Similarity=0.144  Sum_probs=44.2

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++++++|..+||||+++++++.+.|.. +.||++..| .+.+.++++.++|+|-
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~   59 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIR   59 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEE
Confidence            3555566666999999999999999987 789999766 7899999999888874

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=97.36  E-value=0.00011  Score=69.35  Aligned_cols=51  Identities=27%  Similarity=0.380  Sum_probs=39.2

Q ss_pred             eeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         334 ANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       334 ~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++|..++|||+++++++.+.|...+.+|+|.+|..+.+.++++.+.|+|-
T Consensus        25 ~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   75 (191)
T 2a5j_A           25 IIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIW   75 (191)
T ss_dssp             EEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEE
T ss_pred             EEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEE
Confidence            333334999999999999999998899999999999999999988888764

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.33  E-value=0.00014  Score=66.31  Aligned_cols=55  Identities=31%  Similarity=0.517  Sum_probs=47.0

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++++++|..++|||+++++++.+.+...+.||+|.++..+.+.+++..+.+++-
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   57 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIW   57 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            3456666666999999999999999998899999999999999999987777764

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=97.33  E-value=0.00013  Score=67.33  Aligned_cols=54  Identities=28%  Similarity=0.366  Sum_probs=42.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||+|.++..+.+.++++.+.++|-
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   61 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIW   61 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEE
Confidence            445555555999999999999999998999999999999999999987777764

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=97.31  E-value=0.00015  Score=66.23  Aligned_cols=55  Identities=27%  Similarity=0.398  Sum_probs=46.9

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++++++|..++|||+++++++.+.+...+.+|+|.++..+.+.+++..+.+++-
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   60 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIW   60 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEE
Confidence            3555566666999999999999999999899999999999999999988877764

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=97.30  E-value=0.00013  Score=69.40  Aligned_cols=53  Identities=19%  Similarity=0.119  Sum_probs=41.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|.++|||||+++++....+...+.||++.++..+.+.++++.++|+|-
T Consensus        25 ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~   77 (195)
T 3cbq_A           25 KVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVY   77 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEE
Confidence            34444444999999999998666555567888999989999999999998863

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.30  E-value=8e-05  Score=80.37  Aligned_cols=91  Identities=19%  Similarity=0.164  Sum_probs=53.1

Q ss_pred             EEEEEEEecCCcccccc-cch---h--hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCC-e-EEEEEECCCCCC
Q psy3029         154 KVKLQVWDTAGQERFRS-MAP---M--YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPL-V-LCVVGNKTDLES  225 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~-~~~---~--~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~i-P-vIlVgNK~DL~~  225 (617)
                      .+.+.|+||+|...... +..   .  .+..+|.+++|+|......   .......+..    .+ | ..+|.||+|...
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~----~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFKE----AVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHHT----TSCSCEEEEEECSSSCS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHhh----cccCCeEEEEeCCCCcc
Confidence            35688999999754211 111   1  1226899999999866532   1122222221    23 4 789999999753


Q ss_pred             ccccCHHHHHHHHHhcCCeEEEEcCCCCCCHH
Q psy3029         226 SREVNREEAFHYSKSIGGTYYETSALQDQGIE  257 (617)
Q Consensus       226 ~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~  257 (617)
                      ..    ..+..+....+.++..++  .|+.++
T Consensus       253 ~~----g~~l~~~~~~~~pi~~ig--~Ge~~~  278 (432)
T 2v3c_C          253 KG----GGALSAVAETKAPIKFIG--IGEGID  278 (432)
T ss_dssp             TT----HHHHHHHHHSSCCEEEEC--CSSSSS
T ss_pred             ch----HHHHHHHHHHCCCEEEee--cCcccc
Confidence            21    224456667788877765  444443

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=97.27  E-value=0.00014  Score=68.82  Aligned_cols=46  Identities=30%  Similarity=0.562  Sum_probs=34.3

Q ss_pred             cccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         339 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       339 ~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++|||+++++++.+.|...+.+|+|.++..+.+.++++.+.|+|-
T Consensus        35 ~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~   80 (192)
T 2il1_A           35 RGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIW   80 (192)
T ss_dssp             TTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEE
T ss_pred             CCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEE
Confidence            3999999999999999998899999999999999999988777764

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=97.26  E-value=0.00018  Score=65.56  Aligned_cols=54  Identities=31%  Similarity=0.412  Sum_probs=45.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.+...+.||+|.++..+.+.+++..+.+++-
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   59 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLW   59 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEE
Confidence            344455555999999999999999999999999999999999999988877764

>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster}

Probab=97.25  E-value=0.0017  Score=52.96  Aligned_cols=70  Identities=23%  Similarity=0.337  Sum_probs=56.3

Q ss_pred             HhhcCCEEEEEEeCCcEEEEEEeeecCC-ceEEEEeeeecCCCC----CCCCCCCcccceeeeecCceeEEEecc
Q psy3029         457 TLHIGDKVTVYTVHGKQFEGYLKTFSKQ-FELVISMTHQVDPEN----PQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       457 ~~~iG~~v~v~~~~G~~y~Gi~~~~s~~-~~~~l~~~~~~~~~~----~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      +..||+.+.+..|++.+|||||++.+++ .-|+|+-+|---.+.    ...+..+++-+.++|.+.||-++.+-+
T Consensus         9 ~~yIGs~iSLISk~dIRYeGiL~~In~~~sTi~L~nVrsfGTEgR~~~~~ipp~~~vy~yIvFrgsDIKdL~V~~   83 (88)
T 2vxe_A            9 LPELGSKISLISKADIRYEGRLYTVDPQECTIALSSVRSFGTEDRDTQFQIAPQSQIYDYILFRGSDIKDIRVVN   83 (88)
T ss_dssp             SCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEECCCTTTCCSSCCCCCCSCEEEEEEETTTEEEEEECC
T ss_pred             CcccCCeEEEEECCCceEEEEEeeecCcccEEEEEeeeEecCcCCCCCcccCCCCceeeEEEEccCCccEEEEec
Confidence            3468999999999999999999998865 679998888663222    234455778899999999999998754

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=97.25  E-value=0.00016  Score=68.09  Aligned_cols=52  Identities=27%  Similarity=0.332  Sum_probs=42.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.|| +.+| .+.+.++++.+.|+|-
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t-~~~~-~~~~~~~~~~~~l~i~   72 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTGTYVQEESPE-GGRF-KKEIVVDGQSYLLLIR   72 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHSSCCCCCCTT-CEEE-EEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCCC-cceE-EEEEEECCEEEEEEEE
Confidence            44444444499999999999999999988888 4566 5899999999998865

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.25  E-value=0.00015  Score=78.09  Aligned_cols=92  Identities=16%  Similarity=0.159  Sum_probs=55.7

Q ss_pred             EEEEEEEecCCccc--cc-ccc---hhh--hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC
Q psy3029         154 KVKLQVWDTAGQER--FR-SMA---PMY--YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES  225 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~--~~-~~~---~~~--~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~  225 (617)
                      .+.+.|+||+|...  .. .+.   ...  ....+.++||+|.........+   ...+.+..   .+..||+||.|...
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~---a~~f~~~~---~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDL---ASRFHQAS---PIGSVIITKMDGTA  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHH---HHHHHHHC---SSEEEEEECGGGCS
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHH---HHHHhccc---CCcEEEEecccccc
Confidence            35677999999643  11 111   111  1256899999998765432222   23333222   25678999999753


Q ss_pred             ccccCHHHHHHHHHhcCCeEEEEcCCCCCCHH
Q psy3029         226 SREVNREEAFHYSKSIGGTYYETSALQDQGIE  257 (617)
Q Consensus       226 ~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~  257 (617)
                      .    ...+..+....+.|+.+++.  |++++
T Consensus       253 ~----~G~als~~~~~g~Pi~fig~--Ge~v~  278 (433)
T 3kl4_A          253 K----GGGALSAVVATGATIKFIGT--GEKID  278 (433)
T ss_dssp             C----HHHHHHHHHHHTCEEEEEEC--CSSSS
T ss_pred             c----chHHHHHHHHHCCCEEEEEC--CCChH
Confidence            2    33455666778999988886  76664

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=97.25  E-value=0.0002  Score=67.38  Aligned_cols=53  Identities=25%  Similarity=0.324  Sum_probs=44.7

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.+|+|.+|..+.+.++++.++|+|-
T Consensus        22 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   74 (189)
T 1z06_A           22 KIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLW   74 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEE
Confidence            33344444999999999999999999899999999999999999988877764

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=97.22  E-value=0.00016  Score=67.02  Aligned_cols=54  Identities=30%  Similarity=0.489  Sum_probs=45.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.+...+.+|+|.+|..+.+.+++..++++|-
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   66 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIW   66 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEE
Confidence            344444445999999999999999999899999999999999999988777764

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=97.21  E-value=0.00024  Score=66.77  Aligned_cols=48  Identities=29%  Similarity=0.437  Sum_probs=42.3

Q ss_pred             eecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         337 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       337 g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |..++|||+++++++.+.|...+.+|+|.+|..+.+.++++.+.++|-
T Consensus        29 G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   76 (189)
T 2gf9_A           29 GNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIW   76 (189)
T ss_dssp             CSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEE
T ss_pred             CCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEE
Confidence            333999999999999999998899999999998999999988887764

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=97.20  E-value=0.00022  Score=67.89  Aligned_cols=54  Identities=28%  Similarity=0.323  Sum_probs=44.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||++++++++..|...+.||+|.+|..+.+.++++.+.++|-
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~   59 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIW   59 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            455666666999999999999999998899999999999999999998888764

>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A

Probab=97.19  E-value=0.0014  Score=54.10  Aligned_cols=71  Identities=18%  Similarity=0.270  Sum_probs=56.1

Q ss_pred             hHhhcCCEEEEEEeCCcEEEEEEeeecCC-ceEEEEeeeecCCCC----CCCCCCCcccceeeeecCceeEEEecc
Q psy3029         456 ITLHIGDKVTVYTVHGKQFEGYLKTFSKQ-FELVISMTHQVDPEN----PQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       456 ~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~-~~~~l~~~~~~~~~~----~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      .+..||+.+.+..|++.+|||||.+.+.+ .-|+|+-+|---.+.    ...+..+++-+.++|.+.||-++.+-+
T Consensus        14 ~~~~IGs~ISLISk~dIRYeGiL~~In~~~sTiaL~nVRsfGTEgR~~~~~ipp~~~vyeyIvFrGsDIKDL~V~e   89 (95)
T 2fb7_A           14 GTPYIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIAPRDETFEYIIFRGSDIKDLTVCE   89 (95)
T ss_dssp             --CCSSEEEEEEETTTEEEEEEEEEEETTTTEEEEESCCCCSCCSSSCSSCCCSCCCCSSCEEECSTTEEEEEESC
T ss_pred             cCcccCCeEEEEECCCceEEEEEecccCccCEEEEEeeeEecccCCCCCCccCCCCcceeEEEEcCCCcceEEEec
Confidence            35689999999999999999999998864 679998877653222    224455788899999999999998865

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=97.19  E-value=0.00028  Score=64.50  Aligned_cols=55  Identities=31%  Similarity=0.415  Sum_probs=46.5

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .++++++|..++|||+++++++.+.|...+.||+|.++..+.+.+++..+++++-
T Consensus         6 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   60 (170)
T 1z0j_A            6 ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIW   60 (170)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEE
Confidence            3455566666999999999999999998899999999999999999987777653

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=97.18  E-value=0.00032  Score=65.38  Aligned_cols=54  Identities=33%  Similarity=0.367  Sum_probs=45.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++.+|..+.+.++++.+.|++-
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   64 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW   64 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEE
Confidence            445555555999999999999999999999999999999999999987777764

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=97.18  E-value=0.00025  Score=67.64  Aligned_cols=54  Identities=24%  Similarity=0.342  Sum_probs=46.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||+|.+|..+.+.+++..+.|+|-
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   62 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW   62 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEE
Confidence            344445555999999999999999999999999999999999999998887764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=97.17  E-value=0.00025  Score=66.52  Aligned_cols=49  Identities=35%  Similarity=0.523  Sum_probs=43.0

Q ss_pred             eeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         336 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       336 ~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|..++|||+++++++.+.|...+.+|+|.+|..+.+.+++..+.|+|-
T Consensus        21 ~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   69 (195)
T 1x3s_A           21 IGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIW   69 (195)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             ECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEE
Confidence            3333999999999999999999999999999999999999988887754

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=97.13  E-value=0.00035  Score=64.50  Aligned_cols=52  Identities=33%  Similarity=0.406  Sum_probs=41.3

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      +++++|..++|||+++++++.+.+...+.+|++.++..+.+.+++..+.|.+
T Consensus        11 ~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   62 (181)
T 3tw8_B           11 KLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQI   62 (181)
T ss_dssp             EEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEE
Confidence            3444444499999999999999999999999999999999999998777764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=97.13  E-value=0.00029  Score=66.29  Aligned_cols=52  Identities=35%  Similarity=0.429  Sum_probs=43.8

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||+++++++.+.|...+.+|+|.+|..+.+.+++..+.|+|-
T Consensus        28 i~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   79 (193)
T 2oil_A           28 VVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIW   79 (193)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEE
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            3333344999999999999999998899999999999999999888877764

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=97.11  E-value=0.00022  Score=68.88  Aligned_cols=52  Identities=23%  Similarity=0.217  Sum_probs=41.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..+||||+++++++.+.|...+.||++.+| .+.+.+++..+.|+|-
T Consensus        29 ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   80 (214)
T 3q3j_B           29 KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLW   80 (214)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEE
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEE
Confidence            333334449999999999999999999999999998 6788899988888864

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=97.10  E-value=0.00038  Score=66.06  Aligned_cols=54  Identities=28%  Similarity=0.328  Sum_probs=45.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|+|.+|..+.+.+++..+.|+|-
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   62 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIW   62 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEE
Confidence            344455555999999999999999998899999999999999999988777753

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=97.09  E-value=0.00039  Score=65.37  Aligned_cols=48  Identities=27%  Similarity=0.462  Sum_probs=42.6

Q ss_pred             eecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         337 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       337 g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |..++|||+++++++.+.+...+.+|++.++..+.+.++++.+.++|-
T Consensus        23 G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   70 (196)
T 3tkl_A           23 GDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIW   70 (196)
T ss_dssp             CSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEE
T ss_pred             CcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEE
Confidence            333999999999999999999999999999999999999988777753

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=97.08  E-value=0.00021  Score=65.37  Aligned_cols=54  Identities=30%  Similarity=0.391  Sum_probs=39.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++.+|..+.+.+++..+.|++-
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   57 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIW   57 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            345555555999999999999999988899999999999999999988877753

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=97.08  E-value=0.00032  Score=65.30  Aligned_cols=51  Identities=22%  Similarity=0.317  Sum_probs=43.4

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||+++++++.+.|...+.+|++..+ .+.+.++++.+.|+|-
T Consensus        21 i~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   71 (183)
T 3kkq_A           21 LVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVL   71 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEE
Confidence            33334449999999999999999999999999999 8899999999888763

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=97.07  E-value=0.00027  Score=67.01  Aligned_cols=54  Identities=15%  Similarity=0.185  Sum_probs=39.8

Q ss_pred             ceeeeeeecccccccceecccc--CcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIG--KMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~--~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ++++++|.++|||||++++|++  ..|...+ +++|.++..+.+.++++.+.|++..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~D   62 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLD   62 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEEC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEE
Confidence            4555555559999999999985  3455544 5689999899999999999887643

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=97.06  E-value=0.00025  Score=68.80  Aligned_cols=53  Identities=15%  Similarity=0.193  Sum_probs=38.6

Q ss_pred             eeeeeeecccccccceecccc--CcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         332 FEANWFWLGVGKTSMVVRYIG--KMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~--~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      |++++|.++|||||++++|+.  ..|...+ +|+|.+|..+.+.++++.++|++..
T Consensus        39 kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~D   93 (211)
T 2g3y_A           39 RVVLIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLD   93 (211)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEee
Confidence            344444449999999999985  3455544 5689999899999999999887643

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=97.05  E-value=0.0003  Score=68.23  Aligned_cols=52  Identities=25%  Similarity=0.362  Sum_probs=38.6

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||+++++++.+.|...+.||+|.+|..+.+.++++.+.|+|-
T Consensus        16 i~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   67 (223)
T 3cpj_B           16 IVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIW   67 (223)
T ss_dssp             EEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEE
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEE
Confidence            3333444999999999999999998899999999999999999988887764

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=97.05  E-value=0.0003  Score=66.74  Aligned_cols=51  Identities=33%  Similarity=0.301  Sum_probs=34.8

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||+++++++.+.|...+.||++..| .+.+.++++.+.|+|-
T Consensus        23 i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   73 (201)
T 2q3h_A           23 CVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLC   73 (201)
T ss_dssp             EEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEE
Confidence            33334449999999999999999999999998777 6788999998887764

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=97.05  E-value=0.00047  Score=63.74  Aligned_cols=53  Identities=32%  Similarity=0.332  Sum_probs=43.1

Q ss_pred             eeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|. ..+.||++.+|..+.+.+++..+.|++-
T Consensus        12 ~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~   65 (180)
T 2g6b_A           12 KVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW   65 (180)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEE
Confidence            3444444499999999999988885 5778999999988888999988887753

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=97.04  E-value=0.00025  Score=67.33  Aligned_cols=48  Identities=31%  Similarity=0.395  Sum_probs=33.1

Q ss_pred             eecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         337 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       337 g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |..++|||+++++++.+.|...+.+|+|.+|..+.+.+++..+.|+|-
T Consensus        35 G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~   82 (199)
T 2p5s_A           35 GDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLW   82 (199)
T ss_dssp             SSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEE
T ss_pred             CcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEE
Confidence            333999999999999999988899999999999999999988887764

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=97.04  E-value=0.0004  Score=65.48  Aligned_cols=53  Identities=17%  Similarity=0.112  Sum_probs=43.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++.+| .+.+.++++.+.|+|-
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   76 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLW   76 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeee-EEEEEECCEEEEEEEE
Confidence            3344444449999999999999999999999999988 5678899998877754

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=97.03  E-value=0.00033  Score=65.58  Aligned_cols=53  Identities=21%  Similarity=0.314  Sum_probs=44.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||++++++..+.|...+.||++..| .+.+.+++..+.|+|-
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   60 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLW   60 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEE
Confidence            4555555669999999999999999999999999888 6788888888777764

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=97.03  E-value=0.00036  Score=66.40  Aligned_cols=51  Identities=24%  Similarity=0.264  Sum_probs=41.9

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||++++++..+.|...+.||++.+|. +.+.++++.+.|+|-
T Consensus        28 i~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~   78 (201)
T 2gco_A           28 LVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALW   78 (201)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEE
Confidence            333444499999999999999999999999999985 568899988887764

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=97.03  E-value=0.00047  Score=63.96  Aligned_cols=53  Identities=30%  Similarity=0.394  Sum_probs=44.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+++++|..++|||+++++++.+.|...+.||++..+ .+.+.++++.+.|+|-
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   59 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLV   59 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEE
Confidence            3444555559999999999999999999999999999 8899999998887764

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=97.02  E-value=0.00034  Score=66.59  Aligned_cols=52  Identities=31%  Similarity=0.409  Sum_probs=33.0

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||+++++++.+.|...+.+|+|.+|..+.+.+++..+.|+|-
T Consensus        28 i~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~   79 (200)
T 2o52_A           28 FLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIW   79 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEE
T ss_pred             EEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEE
Confidence            3334444999999999999999999999999999999999999988877764

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=97.00  E-value=0.00035  Score=66.36  Aligned_cols=54  Identities=35%  Similarity=0.451  Sum_probs=45.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+++++|..++|||+++++++.+.|...+.+|+|.++..+.+.+++..+.|+|-
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~   62 (207)
T 1vg8_A            9 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW   62 (207)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEE
Confidence            344455555999999999999999999999999999999999999887777653

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.00  E-value=0.00046  Score=65.87  Aligned_cols=48  Identities=35%  Similarity=0.538  Sum_probs=42.1

Q ss_pred             eecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         337 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       337 g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |..++|||+++++++.+.|...+.||++.+|..+.+.+++..+.|+|-
T Consensus        27 G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~   74 (213)
T 3cph_A           27 GDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLW   74 (213)
T ss_dssp             CSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEE
T ss_pred             CCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEE
Confidence            333999999999999999988899999999999999999987777754

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=96.99  E-value=0.00054  Score=63.23  Aligned_cols=52  Identities=23%  Similarity=0.273  Sum_probs=43.1

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.+|++.+|. +.+.+++..+.|+|-
T Consensus        11 ~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~   62 (181)
T 2fn4_A           11 KLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDIL   62 (181)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEE
Confidence            3444444499999999999999999999999999985 888999988877754

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=96.98  E-value=0.00027  Score=67.88  Aligned_cols=53  Identities=21%  Similarity=0.314  Sum_probs=43.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||++++++..+.|...+.||++.+| .+.+.++++.+.|+|-
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   81 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLW   81 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEE
Confidence            4445555559999999999999999999999999988 6788888888777764

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=96.97  E-value=0.00021  Score=67.01  Aligned_cols=53  Identities=17%  Similarity=0.078  Sum_probs=30.0

Q ss_pred             ceeeeeeecccccccceeccccC--cccCccCCccceeeEEEEEEE---CCEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGK--MFSHHISPTIGASFFTAKINV---GENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~--~f~~~~~pTIg~df~~k~v~~---d~~~v~LqI  383 (617)
                      +|++++|.++|||||+++++...  .|...+.||+|.+|..+.+.+   +++.+.|+|
T Consensus         3 ~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i   60 (184)
T 2zej_A            3 MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNV   60 (184)
T ss_dssp             CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEE
Confidence            45666666699999999999974  677788999999998777665   334455554

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=96.97  E-value=0.00042  Score=65.08  Aligned_cols=49  Identities=31%  Similarity=0.362  Sum_probs=40.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEE
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKV  379 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v  379 (617)
                      ++++++|..++|||+++++++.+.|...+.+|+|.+|..+.+.+++..+
T Consensus         8 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~   56 (208)
T 3clv_A            8 YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINI   56 (208)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC---
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccc
Confidence            4555566669999999999999999999999999999999888887653

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=96.96  E-value=0.00031  Score=66.26  Aligned_cols=53  Identities=40%  Similarity=0.559  Sum_probs=43.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      ++++++|..++|||+++++++.+.|...+.||+|.+|..+.+.+++..++++|
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   76 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLI   76 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEE
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEE
Confidence            33444444499999999999999998889999999999999999887777765

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=96.95  E-value=0.00027  Score=67.03  Aligned_cols=53  Identities=23%  Similarity=0.228  Sum_probs=14.5

Q ss_pred             eeeeeeecccccccceeccccC--cccCccCCccceeeEEEEEEECCE--EEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGK--MFSHHISPTIGASFFTAKINVGEN--KVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~--~f~~~~~pTIg~df~~k~v~~d~~--~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+  .|...+.+|+|.++..+.+.++++  .+.|+|-
T Consensus        22 ~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~   78 (208)
T 2yc2_C           22 KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLL   78 (208)
T ss_dssp             EEEEC----------------------------------CEEEECTTSSEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEE
Confidence            3334444499999999999998  888889999999999999999987  6666654

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=96.94  E-value=0.00044  Score=66.80  Aligned_cols=54  Identities=19%  Similarity=0.163  Sum_probs=45.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|+|.++..+.+.+++..+.++|-
T Consensus        16 ~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   69 (221)
T 3gj0_A           16 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVW   69 (221)
T ss_dssp             EEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEE
Confidence            344444444999999999999999999999999999999999999988888763

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=96.92  E-value=0.00043  Score=66.29  Aligned_cols=53  Identities=28%  Similarity=0.285  Sum_probs=44.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++..| .+.+.++++.+.|+|-
T Consensus        10 ~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   62 (212)
T 2j0v_A           10 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLW   62 (212)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEE
Confidence            4455555559999999999999999999999999887 6788889988888764

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=96.91  E-value=0.00045  Score=62.87  Aligned_cols=53  Identities=23%  Similarity=0.353  Sum_probs=43.7

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.+...+.||++..+ .+.+.+++..+.|++-
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   56 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEIL   56 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEE
Confidence            4555566669999999999999999999999999887 5778888887777754

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.90  E-value=0.00071  Score=63.95  Aligned_cols=53  Identities=25%  Similarity=0.456  Sum_probs=43.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++..+ .+.+.+++..++|++-
T Consensus        29 ~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   81 (196)
T 2atv_A           29 VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEIL   81 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEE
Confidence            3444444559999999999999999999999999888 6788999988888863

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=96.90  E-value=0.00072  Score=61.24  Aligned_cols=53  Identities=23%  Similarity=0.306  Sum_probs=43.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++..+ .+.+.+++..+.+++-
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~   56 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEVDSSPSVLEIL   56 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEECCEEEEEEEE
Confidence            4555666669999999999999999998999998766 7889999988777654

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=96.87  E-value=0.0007  Score=62.82  Aligned_cols=53  Identities=25%  Similarity=0.246  Sum_probs=44.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++..+ .+.+.+++..+.|++-
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   58 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLW   58 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEE
Confidence            4455555559999999999999999999999998877 6788999999888764

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=96.85  E-value=0.00044  Score=66.44  Aligned_cols=46  Identities=24%  Similarity=0.307  Sum_probs=38.2

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCE
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN  377 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~  377 (617)
                      +++++|..++|||+++++++.+.|...+.+|++.+|..+.+.+++.
T Consensus        27 ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~   72 (217)
T 2f7s_A           27 KLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQ   72 (217)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCc
Confidence            3444444499999999999999998889999999998889988876

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=96.84  E-value=0.00065  Score=63.35  Aligned_cols=46  Identities=24%  Similarity=0.247  Sum_probs=37.7

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeE-EEEEEECCE
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFF-TAKINVGEN  377 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~-~k~v~~d~~  377 (617)
                      +++++|..++|||+++++++.+.|...+.||+|.+|. .+.+.+++.
T Consensus        13 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~   59 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANG   59 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCC
Confidence            3344444499999999999999998889999999998 677777765

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=96.83  E-value=0.00073  Score=65.06  Aligned_cols=52  Identities=21%  Similarity=0.256  Sum_probs=36.3

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.||++..| .+.+.++++.++|+|-
T Consensus        36 ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~   87 (214)
T 2j1l_A           36 KVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIW   87 (214)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEE
Confidence            344444449999999999999999988999998877 6788999998888764

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.83  E-value=0.00052  Score=64.60  Aligned_cols=52  Identities=23%  Similarity=0.262  Sum_probs=42.6

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.||++..| .+.+.++++.+.|+|-
T Consensus        20 ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   71 (194)
T 2atx_A           20 KCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLY   71 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEE
Confidence            333444449999999999999999999999999888 6788889888887764

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=96.80  E-value=0.00076  Score=61.89  Aligned_cols=53  Identities=21%  Similarity=0.199  Sum_probs=39.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.+...+ +|+|.++..+.+.+++..+.|++-
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   57 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVV   57 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC-----C-CCSSSSEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCccHHHHHHHHhcCCCcccc-CccccceeEEEEEECCEEEEEEEE
Confidence            44555555599999999999988886654 578889888999999998887764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.77  E-value=0.0003  Score=66.28  Aligned_cols=53  Identities=30%  Similarity=0.334  Sum_probs=43.8

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.+|+|.++..+.+.++++.+.++|-
T Consensus        25 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   77 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIW   77 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEE
T ss_pred             EEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEE
Confidence            33344444999999999999999999999999999999999998877776654

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=96.76  E-value=0.001  Score=61.69  Aligned_cols=53  Identities=19%  Similarity=0.274  Sum_probs=42.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++..+ .+.+.++++.+.|+|-
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   71 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDIL   71 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEE
Confidence            3344444449999999999999999999999999888 6778899987777654

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=96.76  E-value=0.001  Score=60.20  Aligned_cols=53  Identities=19%  Similarity=0.274  Sum_probs=43.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++..+ .+.+.++++.+.+++-
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   57 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDIL   57 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEE
Confidence            4455555559999999999999999988999999888 5778899987777653

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=96.75  E-value=0.0014  Score=73.20  Aligned_cols=53  Identities=15%  Similarity=0.068  Sum_probs=30.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCC-CcceeEEEEEE--EE-CCeEEEEEEEecCCccc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISP-TIGASFFTAKI--NV-GENKVKLQVWDTAGQER  167 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~-t~g~~~~~~~i--~~-~~~~~~l~i~Dt~G~e~  167 (617)
                      ||||||||+|+|++....-.+.. +.+.+...+.+  .+ ......+.++||+|...
T Consensus        47 pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           47 YRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             TTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            99999999999998763212211 11222222211  11 12234688999999753

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=96.74  E-value=0.00041  Score=64.10  Aligned_cols=53  Identities=32%  Similarity=0.458  Sum_probs=40.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEEC-CEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d-~~~v~LqI  383 (617)
                      ++++++|..++|||+++++++.+.|...+.||+|.++..+.+.++ ++.+.++|
T Consensus         9 ~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   62 (182)
T 1ky3_A            9 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQV   62 (182)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEE
Confidence            445555555999999999999999999999999999999988887 55556554

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=96.74  E-value=0.00081  Score=61.41  Aligned_cols=54  Identities=19%  Similarity=0.099  Sum_probs=35.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++...+...+.++.+.++..+.+.++++.+.|++-
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   56 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVY   56 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEE
Confidence            355566666999999999999888887777888899999999999999988864

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.71  E-value=0.0013  Score=59.88  Aligned_cols=53  Identities=26%  Similarity=0.392  Sum_probs=42.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++..+ .+.+..++..+.+++-
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~~~   56 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQIT   56 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEE
Confidence            4455555559999999999999999888999999887 5677888887777654

>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1

Probab=96.69  E-value=0.008  Score=48.18  Aligned_cols=71  Identities=13%  Similarity=0.061  Sum_probs=56.1

Q ss_pred             hHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         451 RFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       451 r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      .-+-++..++|++|.|.+|+|..|+|.+.++..-+-++|+=|.......    . ..-...++|.+..|.-|.++|
T Consensus         5 ~P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~e~~~~~----~-~~~lg~v~IRG~nI~~i~lPd   75 (75)
T 1d3b_A            5 VPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDG----R-VAQLEQVYIRGCKIRFLILPD   75 (75)
T ss_dssp             CHHHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTTS----C-EEEEEEEEECGGGEEEEEECC
T ss_pred             CHHHHHHHhCCCEEEEEECCCcEEEEEEEEEccceeEEEEeEEEECCCC----c-EEEcCeEEEeCCEEEEEEcCC
Confidence            3466889999999999999999999999999999999999888764211    1 112246788888888887754

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.68  E-value=0.0015  Score=61.39  Aligned_cols=53  Identities=26%  Similarity=0.385  Sum_probs=42.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++..+ .+.+.+++..+.|+|-
T Consensus         9 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   61 (199)
T 2gf0_A            9 YRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQIT   61 (199)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE-EEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce-eEEEEECCEEEEEEEE
Confidence            4455555559999999999999999988999999877 5677888887777764

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=96.67  E-value=0.0013  Score=62.15  Aligned_cols=52  Identities=19%  Similarity=0.287  Sum_probs=42.0

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.+|++..+ .+.+.+++..+.++|-
T Consensus        16 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   67 (206)
T 2bov_A           16 KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDIL   67 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEE
Confidence            333444449999999999999999999999999887 6788899987777653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.67  E-value=0.00071  Score=64.28  Aligned_cols=52  Identities=23%  Similarity=0.392  Sum_probs=38.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.|...+.+|++..+ .+.+.+++..+.|+|-
T Consensus        26 ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   77 (201)
T 3oes_A           26 KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLV   77 (201)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEE
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEE
Confidence            344444449999999999999999999999999998 7788888877766653

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=96.67  E-value=0.0013  Score=61.30  Aligned_cols=60  Identities=15%  Similarity=0.026  Sum_probs=46.8

Q ss_pred             CCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      +.+..+++++|..++||||++++++...+...+.|+++.++....+.+++..+.|--++|
T Consensus         4 ~~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G   63 (188)
T 2wjg_A            4 HMKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFKVVDLPG   63 (188)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETTEEEEEEECCC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCCcEEEEEECCC
Confidence            344566677777799999999999987776667788888888888999887666655555

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.64  E-value=0.0011  Score=63.34  Aligned_cols=53  Identities=23%  Similarity=0.208  Sum_probs=36.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.|...+.||++.++. ..+.++++.+.|+|-
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~   78 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALW   78 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEE
T ss_pred             cEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEE
Confidence            34444455599999999999999999989999999884 558889988777754

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=96.62  E-value=0.0016  Score=58.71  Aligned_cols=52  Identities=21%  Similarity=0.291  Sum_probs=43.7

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      ++++++|..++|||+++++++.+.+...+.+|++..+ .+.+.+++..+.+++
T Consensus         4 ~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   55 (166)
T 2ce2_X            4 YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDI   55 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEE
Confidence            4566666669999999999999999888899998776 778889998887776

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=96.54  E-value=0.0012  Score=62.90  Aligned_cols=52  Identities=25%  Similarity=0.261  Sum_probs=40.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++..+ .+.+.++++.+.|+|
T Consensus        31 ~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i   82 (204)
T 4gzl_A           31 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGL   82 (204)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEEEE-EEEEECC-CEEEEEE
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeeccee-EEEEEECCEEEEEEE
Confidence            4445555559999999999999999999999997655 788889998888665

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.54  E-value=0.0026  Score=65.96  Aligned_cols=92  Identities=20%  Similarity=0.203  Sum_probs=54.5

Q ss_pred             EEEEEecCCccccccc-chhh-----hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc
Q psy3029         156 KLQVWDTAGQERFRSM-APMY-----YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV  229 (617)
Q Consensus       156 ~l~i~Dt~G~e~~~~~-~~~~-----~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v  229 (617)
                      .+.++|++|....... ....     .-..|-.+++.|.....   ++...+..+.+...   .-+|+.||.|....   
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~~~---it~iilTKlD~~a~---  283 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEAVK---IDGIILTKLDADAR---  283 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHHSC---CCEEEEECGGGCSC---
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHhcC---CCEEEEeCcCCccc---
Confidence            4567999997433221 1110     11478899999976543   33333344443222   23688999996321   


Q ss_pred             CHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         230 NREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       230 ~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                       .-.+..+....+.++..++  +|++++++
T Consensus       284 -~G~~l~~~~~~~~pi~~i~--~Ge~v~dl  310 (328)
T 3e70_C          284 -GGAALSISYVIDAPILFVG--VGQGYDDL  310 (328)
T ss_dssp             -CHHHHHHHHHHTCCEEEEE--CSSSTTCE
T ss_pred             -hhHHHHHHHHHCCCEEEEe--CCCCcccc
Confidence             2335567777889988887  77777554

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=96.54  E-value=0.0016  Score=60.46  Aligned_cols=53  Identities=21%  Similarity=0.276  Sum_probs=42.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++.+.+...+.+|++..+ .+.+.+++..+.|+|-
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   57 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDIL   57 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCchheE-EEEEEECCcEEEEEEE
Confidence            4445555559999999999999999999989996655 6888999998888763

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=96.54  E-value=0.0014  Score=60.08  Aligned_cols=56  Identities=16%  Similarity=0.013  Sum_probs=39.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++++|.+++||||+++++.+..+...+.|+++.++....+.+++..+.+--++|
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~i~Dt~G   59 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNGEKFKVVDLPG   59 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETTEEEEEEECCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECCcEEEEEECCC
Confidence            45566666699999999999987776666788888888888888886655554444

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.51  E-value=0.0027  Score=64.85  Aligned_cols=93  Identities=15%  Similarity=0.145  Sum_probs=57.7

Q ss_pred             EEEEEEEecCCccc--cc-ccch-----hhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCC
Q psy3029         154 KVKLQVWDTAGQER--FR-SMAP-----MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLE  224 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~--~~-~~~~-----~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~  224 (617)
                      .+.+.|+||+|...  .. .+..     .....+|.+++|+|......   ..+.+..+..    .++ ..+|.||+|..
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~----~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK---AYDLASKFNQ----ASKIGTIIITKMDGT  252 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG---HHHHHHHHHH----TCTTEEEEEECGGGC
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHH---HHHHHHHHHh----hCCCCEEEEeCCCCC
Confidence            35688999999765  22 1221     12447899999999865322   1222233332    134 67899999964


Q ss_pred             CccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         225 SSREVNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       225 ~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                      ..    ...+..+....+.++..++  +|++++++
T Consensus       253 ~~----~g~~~~~~~~~~~pi~~i~--~Ge~v~dl  281 (297)
T 1j8m_F          253 AK----GGGALSAVAATGATIKFIG--TGEKIDEL  281 (297)
T ss_dssp             TT----HHHHHHHHHTTTCCEEEEE--CSSSTTCE
T ss_pred             cc----hHHHHHHHHHHCcCEEEEe--CCCChhhc
Confidence            32    2345567778888888876  57777554

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=96.50  E-value=0.0018  Score=60.52  Aligned_cols=52  Identities=21%  Similarity=0.282  Sum_probs=41.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|..++|||+++++++.+.+...+.+|++..+ .+.+.+++..+.++|-
T Consensus        23 ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~   74 (190)
T 3con_A           23 KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDIL   74 (190)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEE
Confidence            344444449999999999999999888889998877 6788999988777753

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=96.48  E-value=0.0017  Score=60.89  Aligned_cols=54  Identities=22%  Similarity=0.185  Sum_probs=40.0

Q ss_pred             ceeeeeeecccccccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++++|..++|||+++++++.+. |...+.+|+|  +..+.+.+++..+.|--++|
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~l~Dt~G   76 (190)
T 2h57_A           22 VHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSSLSFTVFDMSG   76 (190)
T ss_dssp             EEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSSCEEEEEEECC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECCEEEEEEECCC
Confidence            334444444999999999999887 6778889998  44677888886666665555

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=96.45  E-value=0.002  Score=60.56  Aligned_cols=48  Identities=21%  Similarity=0.223  Sum_probs=34.6

Q ss_pred             ecccccccceeccccCcccC-ccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         338 WLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       338 ~~~vGKssi~~~~~~~~f~~-~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ..++|||+++++++.+.|.. .|.||+|..  .+.+..++..+.|--++|.
T Consensus        25 ~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~i~Dt~G~   73 (199)
T 4bas_A           25 LDNSGKTTIINQVKPAQSSSKHITATVGYN--VETFEKGRVAFTVFDMGGA   73 (199)
T ss_dssp             CTTSCHHHHHHHHSCCC----CCCCCSSEE--EEEEEETTEEEEEEEECCS
T ss_pred             CCCCCHHHHHHHHhcCCCccccccccccee--EEEEEeCCEEEEEEECCCC
Confidence            33999999999999999988 889999944  4556666666666656664

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=96.45  E-value=0.0011  Score=61.00  Aligned_cols=56  Identities=13%  Similarity=0.075  Sum_probs=45.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      .+++++|..++|||+++++++.+.|...+.++++.++..+.+.+++..+.|--++|
T Consensus         9 ~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G   64 (178)
T 2lkc_A            9 PVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDKKITFLDTPG   64 (178)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTEEEEESCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCceEEEEECCC
Confidence            44555555599999999999999999888899999998888999998776544444

>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}

Probab=96.41  E-value=0.012  Score=48.01  Aligned_cols=61  Identities=13%  Similarity=0.121  Sum_probs=47.3

Q ss_pred             HhHhhcCCEEEEEEeCCcEEEEEEeeec-CCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         455 AITLHIGDKVTVYTVHGKQFEGYLKTFS-KQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       455 ~~~~~iG~~v~v~~~~G~~y~Gi~~~~s-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      -+.++||++|.|++.||..|+|++.|+. ..+.|+|.=| .  .        +.-....+|.+.-|..|.+.+
T Consensus        11 el~~li~KeV~V~l~dg~~y~G~l~tvDp~s~sIvL~n~-~--~--------~~~~~~~iI~G~aI~eI~v~~   72 (86)
T 1y96_A           11 EWQDYIYKEVRVTASEKNEYKGWVLTTDPVSANIVLVNF-L--E--------DGSMSVTGIMGHAVQTVETMN   72 (86)
T ss_dssp             HHHHTTTCEEEEEETTTEEEEEEEEEECTTTCCEEEEEE-C--T--------TSCEEEEEECGGGEEEEEEEE
T ss_pred             HHHhhcCCEEEEEEcCCCEEEEEEEEECCCceEEEEeec-c--c--------CCeEEEEEEecceEEEEEEec
Confidence            4688999999999999999999999999 5689998755 1  1        122235577888888877755

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=96.37  E-value=0.0021  Score=60.20  Aligned_cols=49  Identities=29%  Similarity=0.278  Sum_probs=38.3

Q ss_pred             eeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         336 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       336 ~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      +|..++|||+++++++.+.|...+.||+|.++.  .+..++..+.|--++|
T Consensus        28 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~~~~~l~Dt~G   76 (188)
T 1zd9_A           28 VGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMR--KITKGNVTIKLWDIGG   76 (188)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE--EEEETTEEEEEEEECC
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCccCCCCceeEE--EEEeCCEEEEEEECCC
Confidence            333399999999999999998888999999884  4666666666655555

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=96.35  E-value=0.0048  Score=69.44  Aligned_cols=23  Identities=22%  Similarity=-0.032  Sum_probs=18.2

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKM  130 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~  130 (617)
                      +++|+|++|+|||||++.+.+-.
T Consensus        47 ~iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHHHSCC
T ss_pred             eEEEECCCCChHHHHHHHHhCCC
Confidence            35555559999999999998853

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=96.35  E-value=0.00037  Score=64.55  Aligned_cols=53  Identities=26%  Similarity=0.296  Sum_probs=27.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||++++++..+.|...+.||++..| .+.+.++++.+.|+|-
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~   61 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLW   61 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCC----------C-BCCCC-------CEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeE-EEEEEECCEEEEEEEE
Confidence            4455555559999999999999999999999999877 4556777777776653

>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A*

Probab=96.30  E-value=0.011  Score=47.44  Aligned_cols=69  Identities=16%  Similarity=0.283  Sum_probs=54.7

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      +-++..++|++|.|.++||..|.|+|.++..-+-++|+=|.......     ...-...++|.+..|+.|...|
T Consensus         6 ~~~L~~~~~~~V~V~L~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~-----~~~~lg~v~iRG~~I~~i~~~d   74 (77)
T 1i4k_A            6 LDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGE-----VVRKVGSVVIRGDTVVFVSPAP   74 (77)
T ss_dssp             HHHHHTTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEETTE-----EEEEEEEEEECGGGEEEEEECC
T ss_pred             HHHHHHhCCCEEEEEEcCCCEEEEEEEEEcCCCCeEEeeEEEEecCC-----cEeECCEEEECCCEEEEEEeCC
Confidence            45788899999999999999999999999999999999988764321     1112246788999988887754

>2y9a_D Small nuclear ribonucleoprotein SM D3; splicing-RNA complex, PRE-mRNA splicing, spliceosome, snRNP biogenesis, SM site, SM fold, heteromeric heptameric ring; 3.60A {Homo sapiens} PDB: 2y9b_D 2y9c_D 2y9d_D 3pgw_Z* 3cw1_D

Probab=96.22  E-value=0.019  Score=50.72  Aligned_cols=69  Identities=13%  Similarity=0.108  Sum_probs=57.3

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      +-+|..++|++|+|.+|||..|.|+|.++..-+-++|+=+.......    . ..-.+.++|-...|.-|.+.|
T Consensus         7 ~~~L~~~~gk~V~VeLknG~~~~G~L~~~D~~MNi~L~dv~e~~~~g----~-~~~l~~v~IRGnnI~~I~lpd   75 (126)
T 2y9a_D            7 IKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDG----R-VAQLEQVYIRGSKIRFLILPD   75 (126)
T ss_dssp             HHHHHSCSSCEEEEEESSCCEEEEEEEEECTTSCEEEEEEEEECTTS----C-CEEEEEEEECGGGEEEEECCS
T ss_pred             HHHHHHhCCCEEEEEECCCcEEEEEEEEEcCceEEEEeeEEEEcCCC----c-EeecccEEEeCCEEEEEEccc
Confidence            56889999999999999999999999999999999999888764211    1 123357899999999999877

>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1

Probab=96.20  E-value=0.019  Score=46.57  Aligned_cols=71  Identities=14%  Similarity=0.316  Sum_probs=55.9

Q ss_pred             hHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         451 RFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       451 r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      .-+-++..++|++|.|.++||..|.|+|.++..-+-++|+=|.....+.     ...-...++|.+..|+-|...|
T Consensus         9 ~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~-----~~~~lg~v~iRG~~I~~i~~~~   79 (81)
T 1th7_A            9 TAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDG-----SGKKLGTIVIRGDNVILISPLQ   79 (81)
T ss_dssp             HHHHHHHHHTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEECSSS-----CEEEEEEEEECGGGEEEEEEC-
T ss_pred             chHHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCCCCEEEccEEEEecCC-----ceeECCEEEECCCEEEEEEecC
Confidence            4456888999999999999999999999999999999999988764321     1112346788999988887654

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=96.19  E-value=0.00054  Score=64.18  Aligned_cols=53  Identities=19%  Similarity=0.073  Sum_probs=39.7

Q ss_pred             ceeeeeeecccccccceeccccCcccCc-----------cCCccceeeEEEEE-EECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHH-----------ISPTIGASFFTAKI-NVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~-----------~~pTIg~df~~k~v-~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++ +++.+.|...           +.||+|.+|..+.+ .++++.++|+|-
T Consensus        15 ~ki~vvG~~~~GKssL~-~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~   79 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNL-KWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLY   79 (198)
T ss_dssp             EEEEEECSTTSSHHHHH-HHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEE
T ss_pred             cEEEEECCCCCCHHHHH-HHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEE
Confidence            44444455599999999 6777777666           45799999988777 778888888764

>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A*

Probab=96.18  E-value=0.014  Score=46.58  Aligned_cols=70  Identities=14%  Similarity=0.255  Sum_probs=54.2

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      -+-++..++|++|.|.++||..|.|+|.++..-+-++|+=|......     ....-...++|.+..|+.|...|
T Consensus         5 P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~~-----~~~~~lg~v~iRG~~I~~i~~~~   74 (75)
T 1h64_1            5 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDG-----EVVKRYGKIVIRGDNVLAISPTE   74 (75)
T ss_dssp             HHHHHHTTTTSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEETT-----EEEEEEEEEEECGGGEEEEEEC-
T ss_pred             HHHHHHHHCCCEEEEEECCCCEEEEEEEEEeCCCCeEEeeEEEEeeC-----CceeECCEEEECCCEEEEEEeCC
Confidence            35678899999999999999999999999999999999988876431     01112246788888888877643

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=96.17  E-value=0.00035  Score=69.75  Aligned_cols=56  Identities=14%  Similarity=0.182  Sum_probs=40.6

Q ss_pred             cceeeeeeec---------ccccccceecccc---CcccCccCCcc-ceeeEEEEEE--------------ECCEEEEEE
Q psy3029         330 NCFEANWFWL---------GVGKTSMVVRYIG---KMFSHHISPTI-GASFFTAKIN--------------VGENKVKLQ  382 (617)
Q Consensus       330 ~~~~~~~g~~---------~vGKssi~~~~~~---~~f~~~~~pTI-g~df~~k~v~--------------~d~~~v~Lq  382 (617)
                      .+|++++|..         +|||||++++++.   +.|...+.||+ +.+|..+.+.              ++++.++|+
T Consensus        19 ~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~l~   98 (255)
T 3c5h_A           19 TYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVECKMH   98 (255)
T ss_dssp             CEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------CEE
T ss_pred             eeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEEEEE
Confidence            4667777777         9999999999998   67888888887 8888766554              577888888


Q ss_pred             eec
Q psy3029         383 LRT  385 (617)
Q Consensus       383 I~~  385 (617)
                      |--
T Consensus        99 i~D  101 (255)
T 3c5h_A           99 IVE  101 (255)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            876

>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A

Probab=96.08  E-value=0.026  Score=49.44  Aligned_cols=71  Identities=8%  Similarity=0.097  Sum_probs=58.0

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEeccc
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNV  527 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~v  527 (617)
                      ++-+|..++|++|.|.++||..|.|+|.++..-+-++|+=|.......    . ..-...++|....|+.|...|-
T Consensus         3 p~~~L~~~~gk~V~V~Lk~g~~~~G~L~~~D~~MNlvL~d~~e~~~~~----~-~~~lg~v~IRG~nI~~I~~pd~   73 (119)
T 1b34_A            3 LVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNR----E-PVQLETLSIRGNNIRYFILPDS   73 (119)
T ss_dssp             HHHHHHTCTTCEEEEEETTCCEEEEEEEEECTTCCEEEEEEEEECTTS----C-CEEEEEEEECGGGEEEEECCTT
T ss_pred             hHHHHHHhCCCEEEEEEcCCCEEEEEEEEEcccceEEeccEEEecCCC----c-eeEcceEEEcCCeEEEEEeccc
Confidence            456889999999999999999999999999999999999988764211    1 1233578899999999998773

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=95.04  E-value=0.001  Score=63.23  Aligned_cols=46  Identities=28%  Similarity=0.382  Sum_probs=38.7

Q ss_pred             eecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         337 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       337 g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      |..++|||+++++++.+.|...+.+|++..+ .+.+.+++..+.|+|
T Consensus        37 G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i   82 (204)
T 3th5_A           37 GDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGL   82 (204)
Confidence            3339999999999999999988999998777 677888888877664

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=96.05  E-value=0.0053  Score=56.81  Aligned_cols=57  Identities=12%  Similarity=0.042  Sum_probs=41.2

Q ss_pred             ceeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      .+++++|.+++||||+++++....+. ....|+++.++..+.+.+++..+.|--++|+
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~   62 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGL   62 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCeEEEEEECCCc
Confidence            45555556699999999999977653 2334667788888999999977665544443

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=96.05  E-value=0.0033  Score=60.23  Aligned_cols=53  Identities=23%  Similarity=0.207  Sum_probs=40.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC-EEEEEEe
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQL  383 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~-~~v~LqI  383 (617)
                      ++++++|..++|||+++++++.+.|...+.+|++..+....+..++ ..+.++|
T Consensus        12 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l   65 (218)
T 4djt_A           12 YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNV   65 (218)
T ss_dssp             EEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEE
Confidence            4444444559999999999999999998999999998777666654 3355553

>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G

Probab=96.04  E-value=0.024  Score=45.40  Aligned_cols=67  Identities=18%  Similarity=0.353  Sum_probs=46.9

Q ss_pred             HhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         455 AITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       455 ~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      .|..++|++|.|.++||..|.|.|.++..-+-++|+=|.......    . ......++|.+..|+.+..-|
T Consensus         8 ~L~~~~~k~V~V~Lk~gr~~~G~L~~~D~~mNlvL~~~~e~~~~~----~-~~~lg~v~iRG~~I~~i~~~d   74 (76)
T 3s6n_G            8 ELKKFMDKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVEMATSG----Q-QNNIGMVVIRGNSIIMLEALE   74 (76)
T ss_dssp             ------CCEEEEEETTTEEEEEEEEEECTTCCEEEEEEEECCCC---------CBSSEEECSSSEEEEEC--
T ss_pred             HHHHhCCCeEEEEECCCcEEEEEEEEECCcceEEEeceEEEccCC----c-EeEcCEEEECCCeEEEEEecc
Confidence            467889999999999999999999999999999999888763321    1 112346788999988887643

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=95.98  E-value=0.0069  Score=56.24  Aligned_cols=54  Identities=20%  Similarity=0.177  Sum_probs=40.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      .+++++|..++|||+++++++.+. ...+.||+|..  .+.+.+++..+.|--++|.
T Consensus        19 ~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~--~~~~~~~~~~~~~~Dt~G~   72 (186)
T 1ksh_A           19 LRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFN--IKTLEHRGFKLNIWDVGGQ   72 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEE--EEEEEETTEEEEEEEECCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccc--eEEEEECCEEEEEEECCCC
Confidence            344444445999999999999887 67778999844  5677888877777766665

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.97  E-value=0.00043  Score=75.51  Aligned_cols=103  Identities=13%  Similarity=0.038  Sum_probs=57.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcc--cccccc--------hhhhccCCEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQE--RFRSMA--------PMYYRNANAALL  184 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e--~~~~~~--------~~~~~~ad~iIl  184 (617)
                      +|+||||+.++|...-.. ...++.+...........+......+||..|.+  +....+        ..++....+.++
T Consensus        48 pGsGKSTia~~La~~l~~-~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~~l~~~~G~~v  126 (469)
T 1bif_A           48 PARGKTYISKKLTRYLNF-IGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKFLSEEGGHVA  126 (469)
T ss_dssp             TTSSHHHHHHHHHHHHHH-TTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHHHHHTTCCSEE
T ss_pred             CCCCHHHHHHHHHHHHhc-cCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhCCCCEE
Confidence            999999999999753211 111221111000000001112334678988873  222222        556666788899


Q ss_pred             EEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         185 VFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       185 V~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      |+|.++. +......|+..+.+..   .+++.+-..++
T Consensus       127 V~D~tn~-~~~~R~~~~~~~~~~~---~~vv~l~~~~~  160 (469)
T 1bif_A          127 VFDATNT-TRERRAMIFNFGEQNG---YKTFFVESICV  160 (469)
T ss_dssp             EEESCCC-SHHHHHHHHHHHHHHT---CEEEEEEECCC
T ss_pred             EEeCCCC-CHHHHHHHHHHHHhcC---CcEEEEEEECC
Confidence            9999886 5666677777666532   35555544444

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=95.90  E-value=0.0055  Score=55.54  Aligned_cols=52  Identities=17%  Similarity=0.110  Sum_probs=34.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||++++++.+..+. ...+++|..+ .+.+.+++..+.|++-
T Consensus         3 ~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~   54 (166)
T 3q72_A            3 YKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVY   54 (166)
T ss_dssp             CEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEEEEEEE
Confidence            45566666699999999999866654 3457788777 6888999999888865

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=95.90  E-value=0.0058  Score=62.43  Aligned_cols=48  Identities=27%  Similarity=0.337  Sum_probs=40.6

Q ss_pred             eeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         336 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       336 ~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|..++|||+++++++.+.|...+.+|++..+ .+.+.+++..+.|+|-
T Consensus       161 ~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~  208 (332)
T 2wkq_A          161 VGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLW  208 (332)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEE
T ss_pred             ECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEE
Confidence            33339999999999999999989999998777 6788999999887754

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=95.89  E-value=0.0026  Score=59.15  Aligned_cols=53  Identities=21%  Similarity=0.197  Sum_probs=39.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      +++++|..++|||+++++++.+.| ..+.||+|..+  +.+.+++..+.|--++|.
T Consensus        23 ~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~--~~~~~~~~~~~i~Dt~G~   75 (181)
T 2h17_A           23 KVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV--EEIVINNTRFLMWDIGGQ   75 (181)
T ss_dssp             EEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSC--EEEEETTEEEEEEEESSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceee--EEEEECCEEEEEEECCCC
Confidence            333444449999999999999888 56789998655  677888877776666664

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=95.87  E-value=0.0055  Score=56.62  Aligned_cols=54  Identities=20%  Similarity=0.098  Sum_probs=39.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      .+++++|..++|||+++++++.+.+ ..+.||+|..  .+.+.+++..+.+--++|.
T Consensus        19 ~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~--~~~~~~~~~~~~i~Dt~G~   72 (183)
T 1moz_A           19 LRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFN--VETLSYKNLKLNVWDLGGQ   72 (183)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCC--EEEEEETTEEEEEEEEC--
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccc--eEEEEECCEEEEEEECCCC
Confidence            4455555559999999999998888 5678999844  4677888766666655554

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.77  E-value=0.0041  Score=58.04  Aligned_cols=54  Identities=20%  Similarity=0.191  Sum_probs=40.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ++++++|..++|||+++++++.+.|. .+.||+|..  .+.+.+++..+.|--++|.
T Consensus        17 ~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~--~~~~~~~~~~~~i~Dt~G~   70 (187)
T 1zj6_A           17 HKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSN--VEEIVINNTRFLMWDIGGQ   70 (187)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSS--CEEEEETTEEEEEEECCC-
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccc--eEEEEECCEEEEEEECCCC
Confidence            45555555699999999999988887 678999844  4677888866666655554

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=95.75  E-value=0.004  Score=56.34  Aligned_cols=53  Identities=17%  Similarity=0.053  Sum_probs=38.3

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      +++++|..++|||+++++++.+.|.. +.||+|  +..+.+..++..+.|--++|.
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~~~~~~~i~Dt~G~   54 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKNISFTVWDVGGQ   54 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSS--CCEEEEECSSCEEEEEECCCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCc--eeEEEEEECCEEEEEEEcCCC
Confidence            45555666999999999999888875 579998  445666766666666555554

>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F

Probab=95.73  E-value=0.031  Score=45.97  Aligned_cols=70  Identities=13%  Similarity=0.194  Sum_probs=55.1

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEeccc
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNV  527 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~v  527 (617)
                      +-+|..++|++|.|.++||..|.|.|.++..-+-++|+=|.....+.     ...-...++|.+..|+-|...|-
T Consensus         8 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~g~-----~~~~lg~v~IRG~nI~~i~~~d~   77 (86)
T 3s6n_F            8 KPFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEEYIDGA-----LSGHLGEVLIRCNNVLYIRGVEE   77 (86)
T ss_dssp             HHHHHHHTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEETTE-----EEEEESSEEECGGGEEEEEECC-
T ss_pred             HHHHHHhCCCeEEEEEcCCeEEEEEEEEEcCceEEEEeeEEEEcCCc-----eeeEccEEEEeCCeEEEEEeCCc
Confidence            46788999999999999999999999999999999999887643210     01122468889999999888763

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=95.73  E-value=0.0076  Score=56.18  Aligned_cols=53  Identities=17%  Similarity=0.028  Sum_probs=40.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++++|..++|||++++++..+.+.. +.||+|.  ..+.+.+++..+.|--++|
T Consensus        23 ~~i~v~G~~~~GKssli~~l~~~~~~~-~~~t~~~--~~~~~~~~~~~~~~~Dt~G   75 (189)
T 2x77_A           23 IRVLMLGLDNAGKTSILYRLHLGDVVT-TVPTVGV--NLETLQYKNISFEVWDLGG   75 (189)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCCSCCEE-ECSSTTC--CEEEEEETTEEEEEEEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCC-cCCCCce--EEEEEEECCEEEEEEECCC
Confidence            555566666999999999999888765 6789984  4567788877777766666

>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A*

Probab=95.70  E-value=0.032  Score=45.30  Aligned_cols=70  Identities=13%  Similarity=0.223  Sum_probs=55.1

Q ss_pred             hHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         451 RFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       451 r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      .-+-++..++|++|.|.++||..|.|+|.++..-+-++|+=|...+.      ....-...++|.+..|+-|...|
T Consensus        11 ~P~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~d~~e~~~------~~~~~lg~v~iRG~~I~~i~~~d   80 (81)
T 1i8f_A           11 TLGATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIID------GNVYKRGTMVVRGENVLFISPVP   80 (81)
T ss_dssp             CHHHHHHTTTTSEEEEEEGGGEEEEEEEEEECTTCCEEEEEEEEEET------TEEEEEEEEEECGGGEEEEEECC
T ss_pred             chHHHHHHHCCCeEEEEEcCCcEEEEEEEEEcCCCeeEEccEEEEcC------CcccCCCEEEECCCEEEEEEeCC
Confidence            34567888999999999999999999999999999999998888611      11112346788899888887654

>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe}

Probab=95.67  E-value=0.03  Score=47.84  Aligned_cols=73  Identities=14%  Similarity=0.188  Sum_probs=48.0

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecccc
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVD  528 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~v~  528 (617)
                      .+-+|..++|++|.|.+|+|..|.|+|.++..-+-++|+=|.......    ....-...++|.+..|+-|...|--
T Consensus        17 p~~lL~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~e~~~dg----~~~~~lg~v~IRG~nI~~I~~pd~l   89 (105)
T 4emh_A           17 PLTLLNATQGRPILVELKNGETFNGHLENCDNYMNLTLREVIRTMPDG----DKFFRLPECYIRGNNIKYLRIQDEV   89 (105)
T ss_dssp             ---------CCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTTS----CEEEEEEEEEECGGGEEEEEC----
T ss_pred             HHHHHHHhCCCEEEEEECCCCEEEEEEEEEcCCceEEEEEEEEEccCC----ceeeEcCeEEEeCCeEEEEecCHHH
Confidence            467789999999999999999999999999999999999887653211    0111235788899999999887743

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=95.62  E-value=0.0064  Score=59.54  Aligned_cols=53  Identities=15%  Similarity=0.082  Sum_probs=38.8

Q ss_pred             eeecccccccceeccccCcccCccCC--ccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         336 WFWLGVGKTSMVVRYIGKMFSHHISP--TIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       336 ~g~~~vGKssi~~~~~~~~f~~~~~p--TIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      +|..++|||++++++++..+.....+  +++.++....+.+++..+.|--++|+-
T Consensus        35 vG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~i~liDTpG~~   89 (239)
T 3lxx_A           35 VGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELVVVDTPGIF   89 (239)
T ss_dssp             ECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTEEEEEEECCSCC
T ss_pred             ECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCceEEEEECCCcc
Confidence            33339999999999998877665555  677777778889999888887777764

>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1

Probab=95.61  E-value=0.04  Score=44.21  Aligned_cols=69  Identities=14%  Similarity=0.217  Sum_probs=53.8

Q ss_pred             hHHhHhhcCCEEEEEEeCC-cEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         453 MQAITLHIGDKVTVYTVHG-KQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G-~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      +-++..++|++|.|++++| ..|.|+|.++..-+-++|+=|.......     ...-...++|.+..|+-|...|
T Consensus         7 ~~~L~~~~~~~v~V~lk~g~~~~~G~L~~~D~~mNlvL~d~~e~~~~~-----~~~~lg~v~iRG~nI~~i~~~d   76 (77)
T 1ljo_A            7 NQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEE-----KVRSLGEIVLRGNNVVLIQPQE   76 (77)
T ss_dssp             HHHHHHTTTSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEETTE-----EEEEEEEEEECGGGEEEEEEC-
T ss_pred             HHHHHHHCCCEEEEEEeCCCEEEEEEEEEECCcceEEEeeEEEEecCC-----cEeECCeEEEeCCeEEEEEeCC
Confidence            4578899999999999999 9999999999999999999888764211     1112246788888888887654

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=95.61  E-value=0.0066  Score=57.15  Aligned_cols=54  Identities=17%  Similarity=0.029  Sum_probs=38.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ++++++|..++|||+++++++.+.|.. +.||+|  +..+.+..++..+.|--++|.
T Consensus        30 ~ki~v~G~~~vGKSsLi~~l~~~~~~~-~~~t~~--~~~~~~~~~~~~~~i~Dt~G~   83 (192)
T 2b6h_A           30 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEYKNICFTVWDVGGQ   83 (192)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCSSCCEE-EEEETT--EEEEEEEETTEEEEEEECC--
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCccc-cCCcCc--eeEEEEEECCEEEEEEECCCC
Confidence            444555555999999999999888874 578998  445677777766666655554

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=95.57  E-value=0.0057  Score=65.94  Aligned_cols=24  Identities=8%  Similarity=-0.173  Sum_probs=19.1

Q ss_pred             CCccccCCCCCCCCHHHHHHHHHc
Q psy3029         105 PNCFEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       105 ~~~~~~i~G~~nVGKSSLinrl~~  128 (617)
                      +.++++|+|.+++|||+|+|+|++
T Consensus        66 ~v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           66 EVVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             BEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHhh
Confidence            445555666699999999999985

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=95.51  E-value=0.013  Score=53.29  Aligned_cols=54  Identities=22%  Similarity=0.132  Sum_probs=40.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ++++++|..++|||++++++..+.|.. +.||+|..  .+.+.+++..+.|--++|.
T Consensus         8 ~~i~v~G~~~~GKssl~~~l~~~~~~~-~~~t~~~~--~~~~~~~~~~~~~~Dt~G~   61 (171)
T 1upt_A            8 MRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGFN--VETVTYKNLKFQVWDLGGL   61 (171)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSEE--EEEEEETTEEEEEEEECCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCC-cCCcCccc--eEEEEECCEEEEEEECCCC
Confidence            445555556999999999999888764 67888754  4677888777777666653

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=95.43  E-value=0.0097  Score=56.34  Aligned_cols=53  Identities=11%  Similarity=0.015  Sum_probs=34.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      .+++++|.+++|||++++++..+.|. .+.||++...  +.+.+++..+.+--++|
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~~~l~i~Dt~G   78 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTIAGMTFTTFDLGG   78 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETTEEEEEEEECC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEECCEEEEEEECCC
Confidence            45555566699999999999988875 4679998864  67888885555544444

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=95.40  E-value=0.01  Score=55.19  Aligned_cols=53  Identities=21%  Similarity=0.134  Sum_probs=37.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++++|..++|||++++++..+.+. .+.||+|.  ..+.+.+++..+.+--++|
T Consensus        17 ~ki~ivG~~~vGKSsL~~~l~~~~~~-~~~~t~g~--~~~~~~~~~~~l~i~Dt~G   69 (181)
T 1fzq_A           17 VRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGF--NIKSVQSQGFKLNVWDIGG   69 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTE--EEEEEEETTEEEEEEECSS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCC-cccCcCCe--EEEEEEECCEEEEEEECCC
Confidence            44555555599999999999987654 46789984  4567888876555544444

>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B

Probab=95.34  E-value=0.04  Score=44.00  Aligned_cols=67  Identities=16%  Similarity=0.267  Sum_probs=50.9

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEe
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEA  524 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~  524 (617)
                      +-++..++|++|.|.++||..|.|.|.++..-+-++|+=|.....+.     ...-...++|.+..|+-+..
T Consensus         6 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~-----~~~~lg~v~iRG~~I~~i~~   72 (75)
T 4emk_B            6 NEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVNGK-----KTNVYGDAFIRGNNVLYVSA   72 (75)
T ss_dssp             HHHHHHTTTSEEEEECTTSCEEEEEEEEECTTCEEEEEEEEEEETTE-----EEEEEEEEEEEGGGSSEEEE
T ss_pred             HHHHHHhCCCeEEEEEcCCcEEEEEEEEEcCcceEEEccEEEEecCC-----cccEecEEEEcCCeEEEEEe
Confidence            45788999999999999999999999999999999998887653211     01122356777777777654

>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, HOMO octamer, mRNA processing; 2.50A {Saccharomyces cerevisiae}

Probab=95.30  E-value=0.044  Score=46.04  Aligned_cols=76  Identities=13%  Similarity=0.210  Sum_probs=55.8

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCC--CCCCcccceeeeecCceeEEEeccc
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQC--IDPNTVVDMKIFKLDDIVRIEAKNV  527 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~--~~~~~~~~~l~~~~~d~v~~~~~~v  527 (617)
                      ..-++..++|++|.|.+++|..|.|+|.++..-+-++|.=|..........  .....-...+++.+..|+.|...+-
T Consensus        11 p~~~L~~~i~k~V~V~Lk~gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nVv~I~~~d~   88 (96)
T 3bw1_A           11 PLDLLKLNLDERVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEELSESERRCEMVFIRGDTVTLISTPSE   88 (96)
T ss_dssp             HHHHHGGGTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEEEECCSTTCCCEEEEEEEEEEECGGGEEEEECCC-
T ss_pred             HHHHHHHHCCCeEEEEECCCcEEEEEEEEECCCCcEEEcCEEEEeccccccccCcceeEcCEEEECCCEEEEEEecCc
Confidence            355788999999999999999999999999999999999887653211110  0001112367889999999887653

>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A

Probab=95.30  E-value=0.028  Score=46.67  Aligned_cols=71  Identities=15%  Similarity=0.351  Sum_probs=52.2

Q ss_pred             hHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecC--CCCCCCC-C--CCcccceeeeecCceeEEEecc
Q psy3029         456 ITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVD--PENPQCI-D--PNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       456 ~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~--~~~~~~~-~--~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      |..++|++|.|.+++|..|.|+|.++..-+-++|.=|....  ....... .  ..--...++|.+..|+.|.+.+
T Consensus         9 L~~~~~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~lg~v~iRG~~I~~i~~~~   84 (91)
T 1d3b_B            9 MLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEG   84 (91)
T ss_dssp             CGGGTTSEEEEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEEEE
T ss_pred             HHHHcCCcEEEEECCCeEEEEEEEEECCCCeEEecCEEEEeeccccccccccCccEeECCEEEECCCeEEEEEcCC
Confidence            56789999999999999999999999999999999887642  1110000 0  0111235788999999988865

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=95.27  E-value=0.014  Score=54.87  Aligned_cols=52  Identities=15%  Similarity=0.115  Sum_probs=36.7

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      +++++|..++||||+++++..+.|. .+.||++..  .+.+.+++..+.+--++|
T Consensus        25 ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~~~~~i~Dt~G   76 (190)
T 1m2o_B           25 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGNIKFTTFDLGG   76 (190)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETTEEEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECCEEEEEEECCC
Confidence            3344444499999999999988876 467899885  467888885554443333

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.26  E-value=0.074  Score=50.93  Aligned_cols=86  Identities=13%  Similarity=0.055  Sum_probs=56.1

Q ss_pred             EEEEEEEecCCc-ccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         154 KVKLQVWDTAGQ-ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       154 ~~~l~i~Dt~G~-e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      .+.+.|+|+++. ..  ......+..+|.+|+++.. +..++..+...+..+....  ..++.+|.|++|.....  ..+
T Consensus        67 ~yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~-~~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~~--~~~  139 (209)
T 3cwq_A           67 KYQNIVIDTQARPED--EDLEALADGCDLLVIPSTP-DALALDALMLTIETLQKLG--NNRFRILLTIIPPYPSK--DGD  139 (209)
T ss_dssp             GCSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECS-SHHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTSC--HHH
T ss_pred             cCCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecC-CchhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccch--HHH
Confidence            356889999876 32  2345567789999999986 3456677777777666533  35688999999964301  123


Q ss_pred             HHHHHHHhcCCeEE
Q psy3029         233 EAFHYSKSIGGTYY  246 (617)
Q Consensus       233 e~~~~~~~~g~~~~  246 (617)
                      +..++.++++.+++
T Consensus       140 ~~~~~l~~~g~~v~  153 (209)
T 3cwq_A          140 EARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHHTTCCBC
T ss_pred             HHHHHHHHcCCchh
Confidence            44455555666544

>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A

Probab=95.18  E-value=0.05  Score=44.36  Aligned_cols=67  Identities=19%  Similarity=0.340  Sum_probs=50.8

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEE
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIE  523 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~  523 (617)
                      -+-++..++|++|.|.++||..|.|.|.++..-+-++|+=|.....+.     ...-...++|.+..|+.|.
T Consensus        16 P~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~-----~~~~lg~v~IRG~~I~~i~   82 (83)
T 1mgq_A           16 PLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGE-----VTRRLGTVLIRGDNIVYIS   82 (83)
T ss_dssp             TTHHHHHTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEETTE-----EEEEEEEEEECGGGEEEEE
T ss_pred             hHHHHHHhCCCEEEEEEcCCcEEEEEEEEECCCceeEEccEEEEecCC-----cccCCCEEEECCCEEEEEE
Confidence            355788899999999999999999999999999999999888764321     1111235677777776653

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=95.11  E-value=0.011  Score=59.59  Aligned_cols=58  Identities=12%  Similarity=-0.044  Sum_probs=46.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      ++++++|..++||||+++++++..+.....|+++.++....+..++..+.|--++|.-
T Consensus         4 ~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~~~~~liDtpG~~   61 (274)
T 3i8s_A            4 LTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTY   61 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSSCEEEEEECCCCS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCCCceEEEECcCCC
Confidence            4455556669999999999998877666778888999889999988888876666653

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=95.10  E-value=0.013  Score=58.26  Aligned_cols=56  Identities=14%  Similarity=0.032  Sum_probs=45.4

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      ++++|..++||||+++++++..+.....|+++.++....+.+++..+.|--++|.-
T Consensus         4 I~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~~~~lvDtpG~~   59 (256)
T 3iby_A            4 ALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEHLIEITDLPGVY   59 (256)
T ss_dssp             EEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTEEEEEEECCCCS
T ss_pred             EEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCeEEEEEeCCCcc
Confidence            44455559999999999998877666678999999899999999988887777653

>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A

Probab=95.02  E-value=0.05  Score=45.38  Aligned_cols=69  Identities=10%  Similarity=0.148  Sum_probs=50.9

Q ss_pred             HhHHhHhhcCCEEEEEEeCC-cEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEec
Q psy3029         452 FMQAITLHIGDKVTVYTVHG-KQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAK  525 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G-~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~  525 (617)
                      .+-+|..++|++|.|.++|| ..|.|+|.++..-+-++|+=|.....+.    . ..-...++|.+..|+-|...
T Consensus        22 P~~~L~~~i~k~V~V~Lk~g~~~~~G~L~~~D~~MNlvL~d~~E~~~~~----~-~~~lg~v~IRG~nI~~I~~~   91 (93)
T 1n9r_A           22 PKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGV----S-HGTLGEIFIRCNNVLYIREL   91 (93)
T ss_dssp             ----CGGGTTSEEEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEETTE----E-EEECCSEEECGGGEEEEEEC
T ss_pred             hHHHHHHhCCCEEEEEEcCCCEEEEEEEEEEccccEEEEeeEEEEcCCC----e-EeEcCEEEEcCCeEEEEEeC
Confidence            45578889999999999999 9999999999999999999887763210    0 11223678888888877654

>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1

Probab=95.00  E-value=0.09  Score=46.62  Aligned_cols=67  Identities=16%  Similarity=0.303  Sum_probs=55.9

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecccc
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVD  528 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~v~  528 (617)
                      +-+|..++|++|.|.++||..|.|+|.++..-+-++|+=|.....        . -...++|.+..|+-|...+-.
T Consensus         2 ~~~L~~~igk~V~V~Lk~G~~~~G~L~~~D~~MNlvL~d~~E~~~--------~-~lg~v~IRG~nI~~I~~~d~~   68 (130)
T 1m5q_A            2 VAELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAG--------E-KFNRVFIMYRYIVHIDSTERR   68 (130)
T ss_dssp             HHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEECTTC--------C-EEEEEEECGGGEEEEEECCCC
T ss_pred             hhHHHHhCCCeEEEEECCCcEEEEEEEEEcccceeEEeeEEEEcC--------C-EeceEEEeCCeEEEEEcCCcc
Confidence            457889999999999999999999999999999999998887531        1 224678899999999887743

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=94.99  E-value=0.017  Score=57.85  Aligned_cols=57  Identities=16%  Similarity=-0.026  Sum_probs=46.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      .+++++|..++||||+++++++..+.....|+++.++....+.+++..+.|--++|+
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~   60 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREKEFLVVDLPGI   60 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTEEEEEEECCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCceEEEEeCCCc
Confidence            345555566999999999999888876778999999999999999988777766654

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=94.92  E-value=0.014  Score=55.66  Aligned_cols=51  Identities=22%  Similarity=0.123  Sum_probs=35.7

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCE-EEEEEe
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN-KVKLQL  383 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~-~v~LqI  383 (617)
                      .++++++|..++||||++++++.+.|...+. |++.++..  +.+++. .++|+|
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~i   58 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQYRDTQT-SITDSSAI--YKVNNNRGNSLTL   58 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSCCCCBCC-CCSCEEEE--EECSSTTCCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcccccC-CcceeeEE--EEecCCCccEEEE
Confidence            4556666666999999999999999988875 45566643  677743 344443

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=94.90  E-value=0.017  Score=55.94  Aligned_cols=51  Identities=16%  Similarity=0.079  Sum_probs=32.8

Q ss_pred             eecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         337 FWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       337 g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      |..++||||++++++.+.|.....+....++....+..++..+.|--++|+
T Consensus        36 G~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~   86 (228)
T 2qu8_A           36 GAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHKLNKYQIIDTPGL   86 (228)
T ss_dssp             CSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEETTEEEEEEECTTT
T ss_pred             CCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecCCCeEEEEECCCC
Confidence            333999999999999888764444444455555566667766666666665

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.83  E-value=0.015  Score=52.25  Aligned_cols=56  Identities=18%  Similarity=0.099  Sum_probs=35.6

Q ss_pred             eeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      +++++|..++|||++++++..+.+. ....++++.++..+.+.+++..+.|--++|+
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   59 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRGRFLLVDTGGL   59 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTEEEEEEECGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCceEEEEECCCC
Confidence            4555666699999999999987654 3345667777878888999887766655543

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=94.80  E-value=0.02  Score=56.57  Aligned_cols=50  Identities=12%  Similarity=0.189  Sum_probs=39.5

Q ss_pred             ecccccccceeccccCc-ccCccCCc-cceeeEEEEEEECCEEEEEEeecCC
Q psy3029         338 WLGVGKTSMVVRYIGKM-FSHHISPT-IGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       338 ~~~vGKssi~~~~~~~~-f~~~~~pT-Ig~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ..++||||++++++... |...+.++ ++.++....+.+++..+.|--++|+
T Consensus        30 ~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~i~iiDTpG~   81 (260)
T 2xtp_A           30 KTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIVIIDTPDM   81 (260)
T ss_dssp             CTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETTEEEEEEECCGG
T ss_pred             CCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCCCEEEEEECcCC
Confidence            33999999999999776 67666666 6777777788889988887766665

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=94.77  E-value=0.01  Score=59.50  Aligned_cols=57  Identities=14%  Similarity=0.128  Sum_probs=33.5

Q ss_pred             ceeeeeeecccccccceeccc-cCcccCcc-------CCccceeeEEEEEEECCEEEE--EEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYI-GKMFSHHI-------SPTIGASFFTAKINVGENKVK--LQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~-~~~f~~~~-------~pTIg~df~~k~v~~d~~~v~--LqI~~~~  387 (617)
                      ++++++|.+++|||+++++++ .+.+...+       .+|++.++....+..++..+.  |--++|+
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~   75 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGF   75 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCc
Confidence            455566666999999999955 45566666       799999998887777776444  4445554

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=94.65  E-value=0.0071  Score=62.49  Aligned_cols=47  Identities=15%  Similarity=0.045  Sum_probs=34.3

Q ss_pred             eeeeeeecccccccceeccccCcccC---ccCCccceeeEEEEEEECCEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSH---HISPTIGASFFTAKINVGENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~---~~~pTIg~df~~k~v~~d~~~v~LqI  383 (617)
                      |++++|.++|||||++.++..+.+..   .+.||||.+|..    ++ ..++|+|
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqI   50 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAV   50 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEE
Confidence            46677888999999999877654433   368999999953    23 3467776

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=94.52  E-value=0.023  Score=56.58  Aligned_cols=57  Identities=18%  Similarity=-0.026  Sum_probs=43.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ++++++|..++||||+++++++..+.....|+++.+.....+..++..+.|--++|.
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~tv~~~~~~~~~~~~~~~l~DtpG~   62 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTGTKQYVANWPGVTVEKKEGVFTYKGYTINLIDLPGT   62 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETTEEEEEEECCCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceEEEEEEEEEECCeEEEEEECCCc
Confidence            344455555999999999999877765556778788877788887877777766665

>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A

Probab=94.32  E-value=0.2  Score=41.71  Aligned_cols=68  Identities=15%  Similarity=0.221  Sum_probs=53.3

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEe
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEA  524 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~  524 (617)
                      +-++..++|++|.|.+++|..|.|+|.++..-+-++|+=|.......    ....-...++|.+..|+-|..
T Consensus        22 l~lL~~~l~k~V~V~Lk~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~----~~~~~lg~v~IRG~nI~~i~p   89 (94)
T 4emk_A           22 LELIDKCIGSNLWVIMKSEREFAGTLVGFDDYVNIVLKDVTEYDTVT----GVTEKHSEMLLNGNGMCMLIP   89 (94)
T ss_dssp             HHHHHHTTTSEEEEEESSSEEEEEEEEEECTTCCEEEEEEEEEETTT----CCEEEEEEEEECSTTEEEEEE
T ss_pred             HHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeeeEEEEecCC----CcEeEcCEEEEcCCEEEEEEe
Confidence            57889999999999999999999999999998999998887764110    111223467888888887765

>4emk_C U6 snRNA-associated SM-like protein LSM7; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_C

Probab=94.18  E-value=0.16  Score=43.84  Aligned_cols=77  Identities=13%  Similarity=0.173  Sum_probs=50.1

Q ss_pred             hHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCC--CCCCcccceeeeecCceeEEEeccc
Q psy3029         451 RFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQC--IDPNTVVDMKIFKLDDIVRIEAKNV  527 (617)
Q Consensus       451 r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~--~~~~~~~~~l~~~~~d~v~~~~~~v  527 (617)
                      +-+..|..++|+.|.|++++|..|.|+|.++..-+-+||.=|..........  ....-....++|.+..|+.|..-|-
T Consensus        23 e~i~~L~~~l~k~V~V~L~dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nIv~I~~~d~  101 (113)
T 4emk_C           23 ESILDLSRYQDQRIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTLVLIAPMDG  101 (113)
T ss_dssp             ---------CCSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEC---------CCEEEEEEEEECTTTEEEEEECC-
T ss_pred             chHHHHHHHcCCcEEEEEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCCCCcccccceeEccEEEECCCeEEEEEecCc
Confidence            3456677889999999999999999999999999999999888764321110  0111122368899999999988663

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.16  E-value=0.055  Score=55.06  Aligned_cols=91  Identities=19%  Similarity=0.114  Sum_probs=51.9

Q ss_pred             EEEEEEEecCCcccccc-cc---hhhhc--cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc
Q psy3029         154 KVKLQVWDTAGQERFRS-MA---PMYYR--NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR  227 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~-~~---~~~~~--~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~  227 (617)
                      ...+.|+||+|...... +.   ...+.  ..+.+++|+|.+..  ...+.++...+..   -. ..-+|.||.|.... 
T Consensus       182 ~~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~~---l~-~~giVltk~D~~~~-  254 (296)
T 2px0_A          182 EYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFSS---VP-VNQYIFTKIDETTS-  254 (296)
T ss_dssp             GSSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTSS---SC-CCEEEEECTTTCSC-
T ss_pred             CCCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHhc---CC-CCEEEEeCCCcccc-
Confidence            34688999999754321 11   11222  36788999987653  3444444333321   11 23466799997532 


Q ss_pred             ccCHHHHHHHHHhcCCeEEEEcCCCCCCH
Q psy3029         228 EVNREEAFHYSKSIGGTYYETSALQDQGI  256 (617)
Q Consensus       228 ~v~~~e~~~~~~~~g~~~~evSAktg~gI  256 (617)
                         ...+..++...++++..++  .|+++
T Consensus       255 ---~g~~~~~~~~~~~pi~~i~--~ge~v  278 (296)
T 2px0_A          255 ---LGSVFNILAESKIGVGFMT--NGQNV  278 (296)
T ss_dssp             ---CHHHHHHHHTCSCCCSEEC--CSSCT
T ss_pred             ---hhHHHHHHHHHCcCEEEEE--CCCCC
Confidence               2345667778888876664  34444

>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A

Probab=93.98  E-value=0.15  Score=49.35  Aligned_cols=72  Identities=15%  Similarity=0.341  Sum_probs=53.8

Q ss_pred             HhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCC--CCCC---CCCCCcccceeeeecCceeEEEecc
Q psy3029         455 AITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDP--ENPQ---CIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       455 ~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~--~~~~---~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      .|..+|+++|.|+++||..|.|+|.++..-+-+||+=+.....  ....   ..........++|..+.|+.|.+.+
T Consensus         8 kL~klIdKrV~V~LkdGRel~GtLkgFDq~MNLVL~Da~E~~~ik~k~~k~~~~~~~R~LGlV~IRGdnIV~Isve~   84 (231)
T 3pgw_B            8 KMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVEG   84 (231)
T ss_pred             HHHHhcCCeEEEEECCCcEEEEEEEEEcccccEEecCEEEEEeccCcccccccccceeEeceEEECCCcEEEEEecC
Confidence            3567899999999999999999999999989999988876521  1100   0011122236889999999999876

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=93.94  E-value=0.035  Score=57.28  Aligned_cols=51  Identities=18%  Similarity=0.067  Sum_probs=36.2

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++|..++|||++++++..+.|...+ ||++..+.  .+..++..+.|--++|
T Consensus       168 I~ivG~~~vGKSsLl~~l~~~~~~~~~-pT~~~~~~--~~~~~~~~l~i~Dt~G  218 (329)
T 3o47_A          168 ILMVGLDAAGKTTILYKLKLGEIVTTI-PTIGFNVE--TVEYKNISFTVWDVGG  218 (329)
T ss_dssp             EEEEESTTSSHHHHHHHTCSSCCEEEE-EETTEEEE--EEEETTEEEEEEECC-
T ss_pred             EEEECCCCccHHHHHHHHhCCCCCCcc-cccceEEE--EEecCcEEEEEEECCC
Confidence            333444499999999999998887654 89988774  5666776666655555

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=93.68  E-value=0.0064  Score=57.34  Aligned_cols=49  Identities=14%  Similarity=-0.070  Sum_probs=30.0

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEE--C-CEEEEEEe
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV--G-ENKVKLQL  383 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~--d-~~~v~LqI  383 (617)
                      +++++|..+||||++++++.. .|...  +|++.++..+.+..  . ++.++|+|
T Consensus        22 ki~~vG~~~vGKTsLi~~l~~-~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i   73 (196)
T 3llu_A           22 RILLMGLRRSGKSSIQKVVFH-KMSPN--ETLFLESTNKIYKDDISNSSFVNFQI   73 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS-CCCGG--GGGGCCCCCSCEEEEECCTTSCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHh-cCCCc--ceeeeccccceeeeeccCCCeeEEEE
Confidence            333334449999999986554 44433  77888776655543  2 45555554

>4a53_A EDC3; RNA binding protein; NMR {Schizosaccharomyces pombe} PDB: 4a54_A

Probab=93.64  E-value=0.54  Score=40.57  Aligned_cols=58  Identities=14%  Similarity=0.239  Sum_probs=43.3

Q ss_pred             hHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEE--EeeeecCCCCCCCCCCCcccceeeeecCceeEEEeccccc
Q psy3029         456 ITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVI--SMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNVDL  529 (617)
Q Consensus       456 ~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l--~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~v~~  529 (617)
                      ++-++|+.|.|++++|.+|.|+...+.++ .++|  .-|..               ....|.++||.++.+-.+..
T Consensus         7 ~sqFlGy~V~v~LkDgs~~qG~I~~vd~k-~LtL~~~~a~~---------------s~~~I~asdI~DLkVl~~~~   66 (125)
T 4a53_A            7 VADFYGSNVEVLLNNDSKARGVITNFDSS-NSILQLRLAND---------------STKSIVTKDIKDLRILPKNE   66 (125)
T ss_dssp             HHHHTTCEEEEEETTSCEEEEEEEEEETT-TTEEEEEETTT---------------EEEEEEGGGEEEEEECCSCC
T ss_pred             HHHhcCceEEEEECCCCEeeEEEEeecCC-eeEEecccccc---------------ccceeecccccceeeeeccc
Confidence            56789999999999999999999987543 3444  43310               12288999999998877654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=93.63  E-value=0.022  Score=53.14  Aligned_cols=22  Identities=23%  Similarity=0.064  Sum_probs=17.3

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      .++|+|++|||||||++.|.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4455555999999999999863

>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe}

Probab=93.44  E-value=0.23  Score=41.29  Aligned_cols=72  Identities=13%  Similarity=0.245  Sum_probs=50.9

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCC-CCC-------CCCcccceeeeecCceeEEEe
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENP-QCI-------DPNTVVDMKIFKLDDIVRIEA  524 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~-~~~-------~~~~~~~~l~~~~~d~v~~~~  524 (617)
                      +-++..++|++|.|.+++|..|.|.|.++..-+-++|.=|........ .+.       ........+++.+..|+.|..
T Consensus        11 l~lL~~~~~~~V~V~l~~gr~~~G~L~~~D~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lG~v~iRG~nVv~I~p   90 (93)
T 4emg_A           11 LDLVRLSLDEIVYVKLRGDRELNGRLHAYDEHLNMVLGDAEEIVTIFDDEETDKDKALKTIRKHYEMLFVRGDSVILIAP   90 (93)
T ss_dssp             THHHHTTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEEC--------------CEEEEEEEEEECGGGEEEEEC
T ss_pred             HHHHHHhCCCEEEEEECCCcEEEEEEEEECCcccEEeecEEEEEeccccCCccccccccccEeEeceEEECCCeEEEEEe
Confidence            467788899999999999999999999999999999988876532111 010       001122357778888877754

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=93.29  E-value=0.051  Score=55.43  Aligned_cols=55  Identities=18%  Similarity=0.076  Sum_probs=37.3

Q ss_pred             ceeeeeeecccccccceeccccC--ccc-CccCCccceeeEEEEEEECC-EEEEEEeecCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGK--MFS-HHISPTIGASFFTAKINVGE-NKVKLQLRTGL  387 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~--~f~-~~~~pTIg~df~~k~v~~d~-~~v~LqI~~~~  387 (617)
                      .|++++|..++|||+++++++.+  .+. ..+.+|++.++..  +.+++ ..+.+--++|.
T Consensus         4 ~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~~~~l~i~Dt~G~   62 (307)
T 3r7w_A            4 SKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLGNMTLNLWDCGGQ   62 (307)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETTTEEEEEEEECCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCCceEEEEEECCCc
Confidence            34555555599999999999876  454 3678999998864  45543 44555445553

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=93.06  E-value=0.039  Score=51.31  Aligned_cols=54  Identities=17%  Similarity=0.035  Sum_probs=26.0

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      +++++|..++|||+++++++...|...+.++.|..+......+++ .+.|--++|
T Consensus        25 ~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~l~Dt~G   78 (195)
T 1svi_A           25 EIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND-ELHFVDVPG   78 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT-TEEEEECCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC-cEEEEECCC
Confidence            344444449999999999998887777777777666545455544 233333444

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=92.91  E-value=0.2  Score=53.80  Aligned_cols=84  Identities=21%  Similarity=0.116  Sum_probs=46.4

Q ss_pred             EEEEEEEecCCcccccc-cch-----hhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCc
Q psy3029         154 KVKLQVWDTAGQERFRS-MAP-----MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESS  226 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~-~~~-----~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~  226 (617)
                      .+.+.|+||+|...... +..     ..+...+.+++|+|+.......   ..+..+...    ++ .-+|.||+|....
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~---~~~~~f~~~----l~i~gvVlnK~D~~~~  255 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAA---NTAKAFNEA----LPLTGVVLTKVDGDAR  255 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHH---HHHHHHHHH----SCCCCEEEECTTSSSC
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHH---HHHHHHhcc----CCCeEEEEecCCCCcc
Confidence            35688999999654321 111     1234688999999987543322   122222221    23 3478999997432


Q ss_pred             cccCHHHHHHHHHhcCCeEEEE
Q psy3029         227 REVNREEAFHYSKSIGGTYYET  248 (617)
Q Consensus       227 ~~v~~~e~~~~~~~~g~~~~ev  248 (617)
                      .    ..+..+....+.++..+
T Consensus       256 ~----g~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          256 G----GAALSIRHITGKPIKFL  273 (433)
T ss_dssp             C----THHHHHHHHHCCCEEEE
T ss_pred             H----HHHHHHHHHHCCCeEEE
Confidence            2    12334555556654433

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=92.81  E-value=0.04  Score=59.96  Aligned_cols=59  Identities=12%  Similarity=0.073  Sum_probs=29.8

Q ss_pred             ceeeeeeecccccccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCCc
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLKV  389 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~  389 (617)
                      ++++++|..++||||++++++...+ .....|+++.++....+.+++..+.|--++|+..
T Consensus       234 ~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g~~l~liDT~G~~~  293 (476)
T 3gee_A          234 VSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDKTMFRLTDTAGLRE  293 (476)
T ss_dssp             EEEEEECCTTSSHHHHHHHCC------------------CEEEEETTEEEEEEC------
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCCCc
Confidence            3444455559999999999998753 3444577788888899999999888888888743

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=92.76  E-value=0.037  Score=52.92  Aligned_cols=19  Identities=16%  Similarity=0.135  Sum_probs=15.3

Q ss_pred             CCCCCCCCHHHHHHHHHcC
Q psy3029         111 NWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~  129 (617)
                      |+|++|||||||+++|++.
T Consensus        24 l~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           24 LIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHHhh
Confidence            3344999999999999854

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=92.70  E-value=0.089  Score=53.56  Aligned_cols=57  Identities=18%  Similarity=0.202  Sum_probs=36.9

Q ss_pred             eeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      +++++|.+++||||+++++++..+. ....|.+..+.....+..++..+.|--++|+-
T Consensus         9 ~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~   66 (301)
T 1wf3_A            9 FVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLH   66 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCCcEEEEecCcccc
Confidence            4445555599999999999988775 33444443444344455666777766666654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=92.67  E-value=0.035  Score=52.72  Aligned_cols=20  Identities=15%  Similarity=0.080  Sum_probs=16.1

Q ss_pred             ccCCCCCCCCHHHHHHHHHc
Q psy3029         109 EANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~  128 (617)
                      ++|+|++|+|||||++.|++
T Consensus         7 i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            7 VVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            44445599999999999975

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=92.66  E-value=0.052  Score=51.29  Aligned_cols=46  Identities=17%  Similarity=0.008  Sum_probs=23.3

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE  376 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~  376 (617)
                      .+++++|..++|||++++++++..|...+.||.|..+....+.+++
T Consensus        27 ~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~   72 (210)
T 1pui_A           27 IEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD   72 (210)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC
Confidence            3455555559999999999998776666677888776555554443

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=92.64  E-value=0.042  Score=59.88  Aligned_cols=57  Identities=12%  Similarity=0.072  Sum_probs=43.4

Q ss_pred             eeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      +++++|..++||||++++++...+. ....|+++.|+..+.+.+++..+.|--++|+.
T Consensus       245 kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g~~~~l~DTaG~~  302 (482)
T 1xzp_A          245 RMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVR  302 (482)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCC
T ss_pred             EEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCCeEEEEEECCCcc
Confidence            3444444499999999999976542 33457777888889999999998888888764

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=92.59  E-value=0.042  Score=50.71  Aligned_cols=36  Identities=19%  Similarity=0.172  Sum_probs=29.2

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASF  367 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df  367 (617)
                      +++++|..++||||++++++.+.|...+.|+++.+.
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~~~   38 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKI   38 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcCCccCCCCCcccee
Confidence            456666669999999999999999888888776554

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=92.50  E-value=0.041  Score=51.94  Aligned_cols=23  Identities=26%  Similarity=0.095  Sum_probs=18.0

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      .+++|+|++|+|||||++.|.+.
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECcCCCCHHHHHHHHHhh
Confidence            34555566999999999999864

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=92.43  E-value=0.11  Score=51.59  Aligned_cols=57  Identities=21%  Similarity=0.126  Sum_probs=39.1

Q ss_pred             eeeeeeecccccccceeccccCcc--cCccCCccceeeEEEEEEECCEEEEEEeecCCCc
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMF--SHHISPTIGASFFTAKINVGENKVKLQLRTGLKV  389 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f--~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~  389 (617)
                      +++++|..++||||++++++...+  ...+ +++........+.+++..+.|--++|+-.
T Consensus        38 ~I~lvG~~g~GKSSLin~l~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~l~liDTpG~~~   96 (262)
T 3def_A           38 TVLVLGKGGVGKSSTVNSLIGEQVVRVSPF-QAEGLRPVMVSRTMGGFTINIIDTPGLVE   96 (262)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTSCCSCCCSS-CC-CCCCEEEEEEETTEEEEEEECCCSEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcccCCC-CCcceeeEEEEEEECCeeEEEEECCCCCC
Confidence            334444449999999999998764  3333 33344555677888999888888888743

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=92.35  E-value=0.022  Score=62.85  Aligned_cols=31  Identities=35%  Similarity=0.452  Sum_probs=18.7

Q ss_pred             ccccccceeccccCcccCccCCccceeeEEE
Q psy3029         340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTA  370 (617)
Q Consensus       340 ~vGKssi~~~~~~~~f~~~~~pTIg~df~~k  370 (617)
                      +|||||++++++...|...+.||+|.++.++
T Consensus        51 ~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~   81 (535)
T 3dpu_A           51 MAGKTSLLKQLIGETFDPKESQTHGLNVVTK   81 (535)
T ss_dssp             CSSHHHHHHHHHC-----------CCCEEEE
T ss_pred             CCCHHHHHHHHhcCCCCCCCCCccceEEEEe
Confidence            9999999999999999999999999999765

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.00  E-value=0.052  Score=52.45  Aligned_cols=22  Identities=18%  Similarity=0.137  Sum_probs=16.9

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.|.+-
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            3444455999999999999873

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=91.90  E-value=0.085  Score=49.34  Aligned_cols=17  Identities=35%  Similarity=0.462  Sum_probs=14.2

Q ss_pred             CCCCCCHHHHHHHHHcC
Q psy3029         113 FWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~  129 (617)
                      |++|+|||||++.+++.
T Consensus         7 G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            7 GEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHH
Confidence            33999999999998764

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=91.85  E-value=0.053  Score=51.72  Aligned_cols=20  Identities=20%  Similarity=-0.023  Sum_probs=15.7

Q ss_pred             cCCCCCCCCHHHHHHHHHcC
Q psy3029         110 ANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~  129 (617)
                      +|+|++|+|||||++.+.+-
T Consensus        24 ~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           24 VLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             EEECSTTSSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHhh
Confidence            33344999999999999864

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=91.70  E-value=0.13  Score=52.35  Aligned_cols=58  Identities=16%  Similarity=0.086  Sum_probs=38.4

Q ss_pred             ceeeeeeecccccccceeccccCcccC-ccCCccceeeEEEEEEEC-CEEEEEEeecCCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVG-ENKVKLQLRTGLK  388 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~-~~~pTIg~df~~k~v~~d-~~~v~LqI~~~~~  388 (617)
                      .+++++|..++||||+++++++..+.. ...+.+..+.....+..+ +..+.|--++|+-
T Consensus        11 g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~   70 (308)
T 3iev_A           11 GYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIY   70 (308)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCCC
Confidence            344444555999999999999887753 334444444445556677 7777777676653

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=91.65  E-value=0.054  Score=56.60  Aligned_cols=23  Identities=26%  Similarity=0.223  Sum_probs=17.9

Q ss_pred             cccCCCCCCCCHHHHHHHHHcCC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGKM  130 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~~  130 (617)
                      .++|+|++|||||||+|.|++..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            34444559999999999999754

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=91.63  E-value=0.079  Score=55.43  Aligned_cols=54  Identities=15%  Similarity=0.169  Sum_probs=32.4

Q ss_pred             ceeeeeeecccccccceeccc-cCcccCcc--------CCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYI-GKMFSHHI--------SPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~-~~~f~~~~--------~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++++|..++|||+++++++ .+.|...+        .+|++.++....+..++..+.|.|-
T Consensus        38 ~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~  100 (361)
T 2qag_A           38 FTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVV  100 (361)
T ss_dssp             ECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEE
T ss_pred             EEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEE
Confidence            556667777999999999955 45555444        3788888877777777776666654

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=91.61  E-value=0.053  Score=50.59  Aligned_cols=17  Identities=18%  Similarity=0.153  Sum_probs=14.7

Q ss_pred             CCCCCCHHHHHHHHHcC
Q psy3029         113 FWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~  129 (617)
                      |++|+|||||++.|.+.
T Consensus        16 G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           16 GHPGSGKSTIAEALANL   32 (191)
T ss_dssp             ECTTSCHHHHHHHHHTC
T ss_pred             CCCCCCHHHHHHHHHhc
Confidence            33999999999999874

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=91.56  E-value=0.058  Score=52.31  Aligned_cols=21  Identities=19%  Similarity=0.119  Sum_probs=16.4

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|+|++|+|||||++.|.+.
T Consensus        19 i~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           19 YIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            334444999999999999864

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=91.41  E-value=0.055  Score=50.05  Aligned_cols=20  Identities=15%  Similarity=0.080  Sum_probs=15.5

Q ss_pred             cccCCCCCCCCHHHHHHHHH
Q psy3029         108 FEANWFWLGVGKTSMVVRYI  127 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~  127 (617)
                      +++++|++|+|||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            44555559999999999765

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=91.32  E-value=0.033  Score=60.36  Aligned_cols=58  Identities=17%  Similarity=0.093  Sum_probs=41.2

Q ss_pred             ceeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      ++++++|..++||||++++++...+. ....|+++.++..+.+.+++..+.|--++|+.
T Consensus       225 ~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~v~liDT~G~~  283 (462)
T 3geh_A          225 LKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGGIPVQVLDTAGIR  283 (462)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETTEEEEECC-----
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECCEEEEEEECCccc
Confidence            34555555599999999999976553 34457788888888999999998887777763

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=91.29  E-value=0.067  Score=49.62  Aligned_cols=21  Identities=19%  Similarity=-0.037  Sum_probs=16.0

Q ss_pred             cccCCCCCCCCHHHHHHHHHc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~  128 (617)
                      +++|.|.+||||||+.+.|..
T Consensus         5 ~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            5 VVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            344445599999999999864

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=91.28  E-value=0.065  Score=51.20  Aligned_cols=21  Identities=19%  Similarity=-0.070  Sum_probs=16.6

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|+|++|||||||++.|...
T Consensus        11 i~l~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A           11 IVLSGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHHhh
Confidence            444455999999999999865

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=90.95  E-value=0.037  Score=53.12  Aligned_cols=36  Identities=17%  Similarity=0.132  Sum_probs=28.5

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeE
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFF  368 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~  368 (617)
                      ++++|..++||||++++++...|...+.+||+.+|.
T Consensus        41 i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~   76 (226)
T 2hf9_A           41 FDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVI   76 (226)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCC
Confidence            344444599999999999988887777788888874

>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A

Probab=90.93  E-value=0.39  Score=41.95  Aligned_cols=75  Identities=13%  Similarity=0.222  Sum_probs=54.6

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCC--C----CCCC--C--CcccceeeeecCceeE
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPEN--P----QCID--P--NTVVDMKIFKLDDIVR  521 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~--~----~~~~--~--~~~~~~l~~~~~d~v~  521 (617)
                      =+-+|..++|++|.|.+++|..|.|+|.++..-+-++|+=|.......  .    .+..  .  ..-...++|.+..|+-
T Consensus        29 Pl~lL~~~l~k~V~V~Lk~Gr~~~G~L~~fD~~mNlVL~d~~E~~~~~~~~~~~~~g~~~~~~~~r~lG~v~IRG~nVv~  108 (121)
T 2fwk_A           29 PLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNVAM  108 (121)
T ss_dssp             HHHHHHHTBTSBCEEEETTTEEECCEEEEECTTCCEEEESCCEEEC---------------CEECCCCSEEEECGGGEEE
T ss_pred             cHHHHHHHcCCeEEEEECCCcEEEEEEEEEcccCCeEeceEEEEEeccccccccccCcccccccceEcceEEECCCEEEE
Confidence            367889999999999999999999999999998999998876553210  0    0100  0  1122467889999998


Q ss_pred             EEecc
Q psy3029         522 IEAKN  526 (617)
Q Consensus       522 ~~~~~  526 (617)
                      |...+
T Consensus       109 I~~~~  113 (121)
T 2fwk_A          109 LVPGG  113 (121)
T ss_dssp             EESSS
T ss_pred             EEecC
Confidence            88755

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=90.81  E-value=0.095  Score=53.67  Aligned_cols=58  Identities=9%  Similarity=0.026  Sum_probs=42.4

Q ss_pred             HHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         203 ELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       203 ~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .+.++....+|+ ||++|.|..      .++..+.+++.+++++.+++.+...+..+..+|...+
T Consensus        72 rler~l~~~~P~-IIltrg~~~------peelie~A~~~~IPVL~T~~~ts~~~~~l~~~l~~~~  129 (314)
T 1ko7_A           72 RMRKLCRPETPA-IIVTRDLEP------PEELIEAAKEHETPLITSKIATTQLMSRLTTFLEHEL  129 (314)
T ss_dssp             HHHHHCCTTCCC-EEECTTCCC------CHHHHHHHHHTTCCEEECCSCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCCCE-EEEeCCCCC------CHHHHHHHHHCCCeEEEECCchhHHHHHHHHHHHHhh
Confidence            344444455676 677888864      2456788889999999999999888888877766543

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=90.70  E-value=0.21  Score=48.58  Aligned_cols=140  Identities=11%  Similarity=0.082  Sum_probs=63.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE-ecCCc-cccc-----ccchhhhccCCEEEEEEe
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW-DTAGQ-ERFR-----SMAPMYYRNANAALLVFD  187 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~-Dt~G~-e~~~-----~~~~~~~~~ad~iIlV~D  187 (617)
                      +++||+.|++++.+.. ......+     ......-......+-|| |.-.. ..+.     .-.+....-..++|+||+
T Consensus        38 ~~~~~~~~~~~lf~~~-~~~~~i~-----k~v~w~TKYYsa~V~IwVDe~~~l~~W~~EF~SdEA~EVR~viggII~~f~  111 (233)
T 3uc9_A           38 HNFLKTQFLQDLFHCS-STGISIV-----KDQTWENRYYKVHFDLYIDSCKDIPVWVEEFITPECEPLRNVMAGIILITD  111 (233)
T ss_dssp             GHHHHHHHHHHHHCCC-CCSSCEE-----EEEEEECSSCEEEEEEEEEEESCHHHHHHHHTSGGGHHHHHTEEEEEEEEC
T ss_pred             ccccHHHHHHHHhccc-ccccccc-----cCCeeeeceEEEEcceEEEecCCHHHHHHHhcCHHHHHHHHhcceEEEEEe
Confidence            9999999999998863 1111111     12222222233444443 44221 1110     011111223478999998


Q ss_pred             CCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCC----------CCCCHH
Q psy3029         188 ITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSAL----------QDQGIE  257 (617)
Q Consensus       188 is~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAk----------tg~gI~  257 (617)
                      ...+..+..+.+.+    .-...+.-+++|+.-.+......-..++...++...|+.|+.....          ...|++
T Consensus       112 ~p~~~~~~~i~~~~----~~~~~dg~~v~Vg~~~~~~~~~~de~~e~~~~~~~~GfE~V~~~~~~~~~~~ne~gE~~Gi~  187 (233)
T 3uc9_A          112 IRQTKPQELLHQFM----IAAHRNTFVVLVNVNEEVEQDEIDELNEIWSNAFTNVIEFVNWKRSKPTVNHNDYGEKLGLD  187 (233)
T ss_dssp             HHHHCGGGTHHHHH----HHSCTTCEEEEEECCTTCCHHHHHHHHHHHTTSSSSCEEEEECC----CCCBCTTSCBCHHH
T ss_pred             CCCcchHHHHHHHh----ccCCCCceEEEEecCCccCCCchhhHHHHHHHHHhcCeEEEEecCCCcccccccccchhCHH
Confidence            65554444433322    2223334555665433321111000112222334467788865321          234667


Q ss_pred             HHHHHHH
Q psy3029         258 DVFLNVS  264 (617)
Q Consensus       258 eLf~~I~  264 (617)
                      .+++.|-
T Consensus       188 RI~E~Le  194 (233)
T 3uc9_A          188 RIQEIID  194 (233)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7666653

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=90.66  E-value=0.082  Score=51.79  Aligned_cols=22  Identities=23%  Similarity=0.013  Sum_probs=17.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4555555999999999999863

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=90.49  E-value=0.097  Score=48.11  Aligned_cols=20  Identities=15%  Similarity=-0.147  Sum_probs=15.9

Q ss_pred             ccCCCCCCCCHHHHHHHHHc
Q psy3029         109 EANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~  128 (617)
                      +.+.|++|+||||+.+.|..
T Consensus         6 i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            6 IILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            34445599999999999975

>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens}

Probab=90.43  E-value=1.9  Score=34.76  Aligned_cols=68  Identities=15%  Similarity=0.259  Sum_probs=50.8

Q ss_pred             CchHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEec
Q psy3029         449 NARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAK  525 (617)
Q Consensus       449 n~r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~  525 (617)
                      ..|++++++.++|.+|++++..+..-.|.|.++..+..-..  +.....       +=.+.+.-++-..||+++.++
T Consensus        17 ReRfLr~l~~m~~~~v~f~m~E~t~V~a~F~a~d~d~~~f~--Vs~L~T-------PiGv~~eAlLR~~Dii~~sF~   84 (85)
T 1y96_B           17 RERYLRSLLAMVGHQVSFTLHEGVRVAAHFGATDLDVANFY--VSQLQT-------PIGVQAEALLRCSDIISYTFK   84 (85)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEGGGCEEEEEEEEECTTCCEEE--EEEECC-------TTCCEEEEEEEGGGEEEEEEC
T ss_pred             HHHHHHHHHHhCCCceEEEEeCCeEEEEEEEecCcccceeE--hhhcCC-------CcccchhhhhhcCCEEEEEec
Confidence            35999999999999999999999999999999887765322  112111       112445567888999988763

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=90.41  E-value=0.13  Score=53.99  Aligned_cols=54  Identities=19%  Similarity=0.040  Sum_probs=32.1

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++|..++||||+++++++..+.....+....|+....+.+++..+.|--++|
T Consensus       182 V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g~~v~l~DT~G  235 (364)
T 2qtf_A          182 IGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINNRKIMLVDTVG  235 (364)
T ss_dssp             EEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETTEEEEEEECCC
T ss_pred             EEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECCEEEEEEeCCC
Confidence            334444499999999999987664433344445677788999997776654444

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=90.32  E-value=0.1  Score=49.56  Aligned_cols=21  Identities=19%  Similarity=0.195  Sum_probs=16.2

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|+|++|||||||+++|...
T Consensus        15 i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           15 LVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            344455999999999999753

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=90.21  E-value=0.1  Score=53.19  Aligned_cols=22  Identities=27%  Similarity=0.135  Sum_probs=18.2

Q ss_pred             CccccCCCCCCCCHHHHHHHHH
Q psy3029         106 NCFEANWFWLGVGKTSMVVRYI  127 (617)
Q Consensus       106 ~~~~~i~G~~nVGKSSLinrl~  127 (617)
                      ...++++|++|||||||+|.|.
T Consensus       165 G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          165 GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3455666779999999999998

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=90.20  E-value=0.1  Score=47.96  Aligned_cols=20  Identities=15%  Similarity=-0.009  Sum_probs=15.5

Q ss_pred             ccCCCCCCCCHHHHHHHHHc
Q psy3029         109 EANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~  128 (617)
                      ++|+|++|+|||||++.|.+
T Consensus        11 i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A           11 YVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            34444499999999999865

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=90.15  E-value=0.083  Score=53.76  Aligned_cols=26  Identities=19%  Similarity=0.091  Sum_probs=20.6

Q ss_pred             CCccccCCCCCCCCHHHHHHHHHcCC
Q psy3029         105 PNCFEANWFWLGVGKTSMVVRYIGKM  130 (617)
Q Consensus       105 ~~~~~~i~G~~nVGKSSLinrl~~~~  130 (617)
                      ..-+++++|++|||||||+|.|.+..
T Consensus       168 ~geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          168 KGKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             cCCeEEEECCCCCcHHHHHHHhcccc
Confidence            34456777889999999999998743

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=90.09  E-value=0.1  Score=49.25  Aligned_cols=21  Identities=24%  Similarity=-0.040  Sum_probs=16.0

Q ss_pred             cccCCCCCCCCHHHHHHHHHc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~  128 (617)
                      +++|.|.+|+||||+.+.|..
T Consensus         6 ~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            6 LIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            344444599999999999965

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=90.07  E-value=0.033  Score=56.99  Aligned_cols=19  Identities=26%  Similarity=0.102  Sum_probs=14.9

Q ss_pred             CCCCCCCCHHHHHHHHHcC
Q psy3029         111 NWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~  129 (617)
                      |+|++|||||||+|.|.+.
T Consensus       178 lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          178 FAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             EEESHHHHHHHHHHHHCC-
T ss_pred             EECCCCCCHHHHHHHhccc
Confidence            3333999999999999864

>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E

Probab=89.98  E-value=0.65  Score=38.48  Aligned_cols=69  Identities=13%  Similarity=0.257  Sum_probs=52.7

Q ss_pred             hHHhHhhcCCEEEEEE----eCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEec
Q psy3029         453 MQAITLHIGDKVTVYT----VHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAK  525 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~----~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~  525 (617)
                      +-++..++|++|.|++    ++|..|.|+|.++..-+-++|.=|.......    ....-...++|.+..|+.|...
T Consensus        18 l~lL~~~l~~~v~V~l~~~~~~gr~~~G~L~gfD~~mNlvL~d~~E~~~~~----~~~~~lg~v~iRG~nV~~i~~~   90 (92)
T 3s6n_E           18 INLIFRYLQNRSRIQVWLYEQVNMRIEGCIIGFDEYMNLVLDDAEEIHSKT----KSRKQLGRIMLKGDNITLLQSV   90 (92)
T ss_dssp             HHHHHHHHHHTCEEEEEESSSCSSEEEEEEEEECTTCCEEEEEEEEECSSS----CCEEEEEEEEECGGGEEEEEEC
T ss_pred             HHHHHHHhCCCEEEEEEEEecCCEEEEEEEEEEcCcCcEEEeeeEEEecCC----CceeEcCeEEEeCCEEEEEEeC
Confidence            4678889999999999    9999999999999988899999888764211    1111223577888888877653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=89.88  E-value=0.098  Score=47.82  Aligned_cols=21  Identities=14%  Similarity=0.001  Sum_probs=16.3

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|+|++|+|||||.+.|.+.
T Consensus         7 i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            7 IFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            444455999999999999763

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=89.76  E-value=0.11  Score=50.99  Aligned_cols=22  Identities=23%  Similarity=0.292  Sum_probs=16.7

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3344444999999999999874

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=89.66  E-value=0.098  Score=50.82  Aligned_cols=22  Identities=18%  Similarity=-0.010  Sum_probs=16.9

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3444455999999999999864

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=89.63  E-value=0.26  Score=52.98  Aligned_cols=54  Identities=20%  Similarity=0.185  Sum_probs=32.6

Q ss_pred             CCCCCCHHHHHHHHHc------------------CCCC---CccCCCcceeEEEEEEEE---CCeEEEEEEEecCCcc
Q psy3029         113 FWLGVGKTSMVVRYIG------------------KMFS---HHISPTIGASFFTAKINV---GENKVKLQVWDTAGQE  166 (617)
Q Consensus       113 G~~nVGKSSLinrl~~------------------~~~~---~~~~~t~g~~~~~~~i~~---~~~~~~l~i~Dt~G~e  166 (617)
                      |..++|||+|+|.|++                  ..|.   .....|.|+-.....+.+   ++..+.+.++||.|..
T Consensus        74 G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vlllDTEG~~  151 (457)
T 4ido_A           74 GAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLLMDTQGTF  151 (457)
T ss_dssp             EBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEEEEECCBT
T ss_pred             CCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEEEeccCCC
Confidence            3399999999995541                  2231   122345565433222222   5667889999999964

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=89.61  E-value=0.11  Score=48.24  Aligned_cols=20  Identities=20%  Similarity=0.064  Sum_probs=15.3

Q ss_pred             ccCCCCCCCCHHHHHHHHHc
Q psy3029         109 EANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~  128 (617)
                      ++|.|.+|+||||+.++|..
T Consensus         6 I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            6 VFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            34444499999999998864

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=89.59  E-value=0.1  Score=48.71  Aligned_cols=21  Identities=33%  Similarity=0.488  Sum_probs=16.4

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|.|++|+|||||+++|+..
T Consensus         9 i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            9 LAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHh
Confidence            344455999999999999863

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=89.49  E-value=0.12  Score=51.63  Aligned_cols=22  Identities=14%  Similarity=-0.147  Sum_probs=17.7

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4555566999999999999874

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=89.45  E-value=0.11  Score=49.11  Aligned_cols=20  Identities=25%  Similarity=0.042  Sum_probs=15.9

Q ss_pred             ccCCCCCCCCHHHHHHHHHc
Q psy3029         109 EANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~  128 (617)
                      ++|+|++|+|||||++.+.+
T Consensus         4 i~i~G~nG~GKTTll~~l~g   23 (189)
T 2i3b_A            4 VFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHH
T ss_pred             EEEECCCCChHHHHHHHHHh
Confidence            34455599999999999875

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=89.44  E-value=0.12  Score=47.51  Aligned_cols=15  Identities=33%  Similarity=0.552  Sum_probs=13.6

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      .|+|||||++.+.+.
T Consensus        42 nGaGKTTLlr~l~g~   56 (158)
T 1htw_A           42 LGAGKTTLTRGMLQG   56 (158)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            999999999999764

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=89.42  E-value=0.12  Score=52.03  Aligned_cols=22  Identities=27%  Similarity=0.274  Sum_probs=17.7

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4555566999999999999873

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=89.38  E-value=0.13  Score=50.69  Aligned_cols=19  Identities=21%  Similarity=0.074  Sum_probs=15.4

Q ss_pred             CCCCCCCCHHHHHHHHHcC
Q psy3029         111 NWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~  129 (617)
                      |+|+.|+|||||++.+.+-
T Consensus        29 liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           29 LLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCCCHHHHHHHHhCC
Confidence            3333999999999999874

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=89.20  E-value=0.13  Score=50.86  Aligned_cols=22  Identities=14%  Similarity=-0.088  Sum_probs=17.0

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3444444999999999999874

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=89.19  E-value=0.11  Score=48.29  Aligned_cols=19  Identities=26%  Similarity=0.114  Sum_probs=15.6

Q ss_pred             cCCCCCCCCHHHHHHHHHc
Q psy3029         110 ANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~  128 (617)
                      +|+|++|+|||||++.|.+
T Consensus         6 ~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            6 IITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEECSTTSSHHHHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHhc
Confidence            4445599999999999975

>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_C 2y9b_C 2y9c_C 2y9d_C 3cw1_C 3pgw_Y* 3s6n_B

Probab=89.17  E-value=1.5  Score=38.05  Aligned_cols=75  Identities=13%  Similarity=0.263  Sum_probs=52.8

Q ss_pred             HhHHhHhhc--CCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCC-CCCC--------CCcccceeeeecCcee
Q psy3029         452 FMQAITLHI--GDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENP-QCID--------PNTVVDMKIFKLDDIV  520 (617)
Q Consensus       452 ~~~~~~~~i--G~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~-~~~~--------~~~~~~~l~~~~~d~v  520 (617)
                      =+-++..++  |+.|.|.+++|..|.|+|.++..-+-++|.=|........ .+..        ..-....++|.+..|+
T Consensus        28 Pl~lL~~~~~~~k~V~V~Lk~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~~r~lg~v~IRG~nVv  107 (118)
T 1b34_B           28 PLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVI  107 (118)
T ss_dssp             HHHHHHHHHHHTCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEEEEEEECGGGEE
T ss_pred             hHHHHHHHhcCCcEEEEEECCCcEEEEEEEEeCCceEEEEeCEEEEEecccccccccccccccccccCcCeEEEcCCEEE
Confidence            345677777  6999999999999999999999999999988876632211 0000        0112346888999998


Q ss_pred             EEEecc
Q psy3029         521 RIEAKN  526 (617)
Q Consensus       521 ~~~~~~  526 (617)
                      -|...+
T Consensus       108 ~I~~~~  113 (118)
T 1b34_B          108 VVLRNP  113 (118)
T ss_dssp             EEEECC
T ss_pred             EEEeCc
Confidence            887754

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=89.16  E-value=0.13  Score=49.58  Aligned_cols=22  Identities=18%  Similarity=0.022  Sum_probs=17.6

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4555555999999999999874

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=89.11  E-value=0.27  Score=45.27  Aligned_cols=44  Identities=20%  Similarity=0.064  Sum_probs=27.3

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE  376 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~  376 (617)
                      +++++|..++|||+++++++...+. .+.++.|..........+.
T Consensus        25 ~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~~   68 (195)
T 3pqc_A           25 EVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVNS   68 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEETT
T ss_pred             EEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEECC
Confidence            3444444499999999999987743 3456666555333333443

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=89.09  E-value=0.13  Score=51.07  Aligned_cols=22  Identities=18%  Similarity=0.049  Sum_probs=17.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4555555999999999999874

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=89.01  E-value=0.13  Score=51.30  Aligned_cols=22  Identities=14%  Similarity=-0.144  Sum_probs=17.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            4555555999999999999874

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=89.00  E-value=0.13  Score=51.39  Aligned_cols=23  Identities=22%  Similarity=0.076  Sum_probs=18.5

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      -+++|+|+.|+|||||++.+.+-
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcC
Confidence            35566666999999999999874

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=88.96  E-value=0.13  Score=50.01  Aligned_cols=22  Identities=32%  Similarity=0.324  Sum_probs=16.9

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3444444999999999999874

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=88.95  E-value=0.13  Score=50.66  Aligned_cols=20  Identities=20%  Similarity=-0.132  Sum_probs=15.7

Q ss_pred             cCCCCCCCCHHHHHHHHHcC
Q psy3029         110 ANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~  129 (617)
                      +|+|+.|+|||||++.+.+-
T Consensus        32 ~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           32 AFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEECCTTSSHHHHHHHHTTS
T ss_pred             EEECCCCCCHHHHHHHHhcC
Confidence            33333999999999999874

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=88.94  E-value=0.34  Score=48.08  Aligned_cols=56  Identities=20%  Similarity=0.085  Sum_probs=34.8

Q ss_pred             eeeeeeecccccccceeccccCccc--CccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFS--HHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~--~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      +++++|..++||||++++++...+.  ..+.++ ..+.....+..++..+.|--++|+.
T Consensus        41 ~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~-t~~~~~~~~~~~~~~l~iiDTpG~~   98 (270)
T 1h65_A           41 TILVMGKGGVGKSSTVNSIIGERVVSISPFQSE-GPRPVMVSRSRAGFTLNIIDTPGLI   98 (270)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCC-CSSCEEEEEEETTEEEEEEECCCSE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcccccCCCCc-ceeeEEEEEeeCCeEEEEEECCCCC
Confidence            4444445599999999999987753  222222 2333344556677777777677654

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=88.93  E-value=0.14  Score=50.36  Aligned_cols=22  Identities=23%  Similarity=0.096  Sum_probs=17.7

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4555566999999999999874

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=88.93  E-value=0.13  Score=51.42  Aligned_cols=22  Identities=18%  Similarity=-0.028  Sum_probs=17.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4555555999999999999874

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=88.92  E-value=0.091  Score=52.71  Aligned_cols=36  Identities=19%  Similarity=-0.096  Sum_probs=23.4

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASF  367 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df  367 (617)
                      +++++|.+++||||+++++++..+.....|++..+.
T Consensus         5 kI~lvG~~nvGKSTL~n~L~g~~~~v~~~pg~tv~~   40 (272)
T 3b1v_A            5 EIALIGNPNSGKTSLFNLITGHNQRVGNWPGVTVER   40 (272)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCCCCCCSSSCCCCSC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCcccCCCCCcEEE
Confidence            445555559999999999997653333335444443

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=88.88  E-value=0.23  Score=52.21  Aligned_cols=57  Identities=16%  Similarity=0.194  Sum_probs=41.4

Q ss_pred             hheeeeccCCCCCCCcceeeeeeecccccccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         315 TAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       315 ~~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      .+|++||.|                |||||++++.++...- ...| |....+-..-.+.+++..+.|--++|+-
T Consensus        73 a~V~ivG~P----------------NvGKSTL~n~Lt~~~~~v~~~-pftT~~~~~g~~~~~~~~i~l~D~pGl~  130 (376)
T 4a9a_A           73 ASVGFVGFP----------------SVGKSTLLSKLTGTESEAAEY-EFTTLVTVPGVIRYKGAKIQMLDLPGII  130 (376)
T ss_dssp             EEEEEECCC----------------CHHHHHHHHHHHSBCCCGGGT-CSSCCCEEEEEEEETTEEEEEEECGGGC
T ss_pred             CeEEEECCC----------------CCCHHHHHHHHhCCCCcccCC-CCceeeeeeEEEEeCCcEEEEEeCCCcc
Confidence            468888888                9999999999986432 2333 3333444456788999999998888873

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=88.84  E-value=0.15  Score=50.41  Aligned_cols=22  Identities=23%  Similarity=0.107  Sum_probs=17.6

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4455555999999999999884

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=88.83  E-value=0.14  Score=47.35  Aligned_cols=14  Identities=43%  Similarity=0.603  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++.+.+
T Consensus        47 ~G~GKTtL~~~i~~   60 (180)
T 3ec2_A           47 PGVGKTHLAVATLK   60 (180)
T ss_dssp             SSSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999875

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=88.81  E-value=0.13  Score=48.55  Aligned_cols=14  Identities=21%  Similarity=0.354  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||.+.|.+
T Consensus        34 sGsGKSTl~~~La~   47 (200)
T 3uie_A           34 SGSGKSTLACALNQ   47 (200)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999865

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=88.78  E-value=0.14  Score=50.95  Aligned_cols=22  Identities=18%  Similarity=-0.052  Sum_probs=16.7

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3344444999999999999874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=88.71  E-value=0.099  Score=50.61  Aligned_cols=21  Identities=19%  Similarity=0.112  Sum_probs=11.2

Q ss_pred             ccCCCCCCCCHHHHHHHHH-cC
Q psy3029         109 EANWFWLGVGKTSMVVRYI-GK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~-~~  129 (617)
                      ++|+|++|+|||||++.|. +.
T Consensus        30 i~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           30 LVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEECSCC----CHHHHHHC--
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            3344449999999999998 53

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=88.62  E-value=0.15  Score=50.84  Aligned_cols=22  Identities=23%  Similarity=0.221  Sum_probs=17.9

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4555555999999999999884

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=88.59  E-value=0.25  Score=46.72  Aligned_cols=14  Identities=21%  Similarity=0.264  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      .|+|||||++.|.+
T Consensus        15 ~GsGKSTl~~~l~~   28 (211)
T 3asz_A           15 TASGKTTLAQALAR   28 (211)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999876

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=88.49  E-value=0.15  Score=50.43  Aligned_cols=22  Identities=23%  Similarity=0.179  Sum_probs=16.9

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3444444999999999999874

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=88.43  E-value=0.15  Score=50.61  Aligned_cols=22  Identities=18%  Similarity=-0.130  Sum_probs=17.6

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4555555999999999999874

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=88.41  E-value=0.14  Score=52.45  Aligned_cols=14  Identities=21%  Similarity=0.302  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++.|.+
T Consensus        99 sGsGKSTL~~~L~g  112 (312)
T 3aez_A           99 VAVGKSTTARVLQA  112 (312)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHh
Confidence            99999999999876

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=88.38  E-value=0.14  Score=50.89  Aligned_cols=14  Identities=29%  Similarity=0.558  Sum_probs=13.2

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      .|+|||||++.+.+
T Consensus        34 ~GsGKSTll~~l~g   47 (261)
T 2eyu_A           34 TGSGKSTTIASMID   47 (261)
T ss_dssp             TTCSHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHH
Confidence            99999999999976

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=88.34  E-value=0.26  Score=46.81  Aligned_cols=14  Identities=21%  Similarity=0.347  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++.|.+
T Consensus        31 sGsGKSTl~~~l~~   44 (208)
T 3c8u_A           31 PGSGKSTLSNPLAA   44 (208)
T ss_dssp             TTSCTHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999875

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=88.33  E-value=0.082  Score=49.07  Aligned_cols=35  Identities=17%  Similarity=0.021  Sum_probs=19.3

Q ss_pred             eeeeeecccccccceeccccCcccC---ccCCccceee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSH---HISPTIGASF  367 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~---~~~pTIg~df  367 (617)
                      ++++|..++||||++++++...+..   .+.||++.+|
T Consensus        51 i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~~~   88 (193)
T 2ged_A           51 IIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY   88 (193)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSSCC------------CC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCcccccCCCceeeee
Confidence            3344444999999999999877654   3456665554

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=88.31  E-value=0.16  Score=51.22  Aligned_cols=22  Identities=18%  Similarity=0.001  Sum_probs=17.8

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4555566999999999999874

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=88.24  E-value=0.17  Score=47.01  Aligned_cols=20  Identities=25%  Similarity=0.099  Sum_probs=15.1

Q ss_pred             ccCCCCCCCCHHHHHHHHHc
Q psy3029         109 EANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~  128 (617)
                      +++.|.+|+||||+++.|..
T Consensus        16 i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A           16 VWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            33334499999999999864

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=88.20  E-value=0.16  Score=47.97  Aligned_cols=16  Identities=25%  Similarity=0.059  Sum_probs=13.7

Q ss_pred             CCCCCCHHHHHHHHHc
Q psy3029         113 FWLGVGKTSMVVRYIG  128 (617)
Q Consensus       113 G~~nVGKSSLinrl~~  128 (617)
                      |.+|+|||||.+.|..
T Consensus        25 G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           25 GVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             CSTTSCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHH
Confidence            4499999999999864

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=88.20  E-value=0.16  Score=51.93  Aligned_cols=14  Identities=21%  Similarity=0.264  Sum_probs=13.1

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++.|.+
T Consensus       135 sGsGKSTLl~lL~g  148 (305)
T 2v9p_A          135 PNTGKSMLCNSLIH  148 (305)
T ss_dssp             SSSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHhh
Confidence            99999999999876

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=88.15  E-value=0.14  Score=48.98  Aligned_cols=16  Identities=25%  Similarity=0.231  Sum_probs=14.1

Q ss_pred             CCCCCHHHHHHHHHcC
Q psy3029         114 WLGVGKTSMVVRYIGK  129 (617)
Q Consensus       114 ~~nVGKSSLinrl~~~  129 (617)
                      ++|+|||||++.+++.
T Consensus        33 ~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           33 EFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             STTSSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            3999999999999863

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=88.13  E-value=0.089  Score=50.00  Aligned_cols=37  Identities=16%  Similarity=-0.033  Sum_probs=27.9

Q ss_pred             ceeeeeeecccccccceeccccCcccC---ccCCccceee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSH---HISPTIGASF  367 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~---~~~pTIg~df  367 (617)
                      .+++++|..++|||++++++....|..   .+.||++.+|
T Consensus        13 ~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~   52 (218)
T 1nrj_B           13 PSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY   52 (218)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe
Confidence            344455555999999999999887765   4678887776

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=87.90  E-value=0.17  Score=50.15  Aligned_cols=22  Identities=23%  Similarity=0.199  Sum_probs=17.2

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3444455999999999999874

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=87.82  E-value=0.3  Score=45.78  Aligned_cols=21  Identities=24%  Similarity=0.028  Sum_probs=16.4

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|+|++|+|||||++.|.+.
T Consensus         9 i~l~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A            9 IVLSGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             EEEECSTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            344444999999999999764

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=87.82  E-value=0.12  Score=49.64  Aligned_cols=15  Identities=27%  Similarity=0.313  Sum_probs=13.8

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      .|+|||||++.+.+-
T Consensus        31 nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           31 AGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             TTSSTTHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhcC
Confidence            999999999999874

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=87.73  E-value=0.33  Score=51.81  Aligned_cols=57  Identities=18%  Similarity=0.040  Sum_probs=34.5

Q ss_pred             eeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCE-EEEEEeecCCCc
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGEN-KVKLQLRTGLKV  389 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~-~v~LqI~~~~~~  389 (617)
                      ++++|..++||||++++++...+. ....++++.++..+.+.+++. .+.|--++|+-+
T Consensus        37 I~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d   95 (423)
T 3qq5_A           37 IVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPIGPVTLVDTPGLDD   95 (423)
T ss_dssp             EEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTTEEEEEEECSSTTC
T ss_pred             EEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCCCeEEEEECcCCCc
Confidence            333344499999999999988773 334566667787888998875 777777777654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=87.72  E-value=0.18  Score=50.32  Aligned_cols=22  Identities=18%  Similarity=0.018  Sum_probs=17.1

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4444555999999999999874

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=87.62  E-value=0.17  Score=46.82  Aligned_cols=17  Identities=24%  Similarity=0.094  Sum_probs=14.0

Q ss_pred             CCCCCCCHHHHHHHHHc
Q psy3029         112 WFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~  128 (617)
                      .|.+|+||||+.+.|..
T Consensus        10 ~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A           10 LGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             ECCTTSCHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            34499999999999864

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=87.55  E-value=1  Score=42.03  Aligned_cols=85  Identities=7%  Similarity=-0.021  Sum_probs=56.1

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC--CCCCeEEEEEECCCCCCccccCHH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~--~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      +.+.|+|+++..  .......+..+|.+|+++..+. .+ ..+..++..+.+..  ...+++.+|.|++|....  . ..
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~-~~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~--~-~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSP-LD-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT--M-LN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCT-TT-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE--E-EH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCH-HH-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch--H-HH
Confidence            568899999865  3345566778999999998754 34 66666666665543  234678999999995322  1 23


Q ss_pred             HHHHHHHhcCCeEE
Q psy3029         233 EAFHYSKSIGGTYY  246 (617)
Q Consensus       233 e~~~~~~~~g~~~~  246 (617)
                      +..++.+.++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            34555566666554

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=87.15  E-value=0.24  Score=45.66  Aligned_cols=18  Identities=28%  Similarity=0.078  Sum_probs=14.5

Q ss_pred             CCCCCCCCHHHHHHHHHc
Q psy3029         111 NWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~  128 (617)
                      |.|.+|+||||+.+.|..
T Consensus        16 i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           16 LTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            334499999999999863

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=87.01  E-value=0.2  Score=49.06  Aligned_cols=14  Identities=14%  Similarity=0.344  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      .|+|||||++.|.+
T Consensus        34 ~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           34 TASGKSTVCEKIME   47 (245)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999875

>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens}

Probab=86.95  E-value=1.4  Score=35.32  Aligned_cols=62  Identities=13%  Similarity=0.212  Sum_probs=44.6

Q ss_pred             HhhcCCEEEEEEeCCc-EEEEEEeeecC-CceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         457 TLHIGDKVTVYTVHGK-QFEGYLKTFSK-QFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       457 ~~~iG~~v~v~~~~G~-~y~Gi~~~~s~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      ...||+.|.|..+++. +|+|++++.++ +-.|+|.-|  ...+.+      ..+.-.+|.++||-++.+-.
T Consensus         5 ~~~iGs~VSi~c~d~lGvYQG~i~~vd~~~~tItL~~~--f~NG~~------~~s~eVtls~~DI~~L~ii~   68 (84)
T 2vc8_A            5 TDWLGSIVSINCGDSLGVYQGRVSAVDQVSQTISLTRP--FHNGVK------CLVPEVTFRAGDITELKILE   68 (84)
T ss_dssp             CTTTTCEEEEECCTTTCEEEEEEEEEETTTTEEEEEEE--EETTEE------CSSSEEEEEGGGCSEEEEEE
T ss_pred             ccccCCEEEEEECCCceEEEEEEEEeccCCCeEEEehh--hhCCCC------CCCcEEEEEecChhheEEEe
Confidence            3579999999999999 99999999875 346766555  323221      11123788999998877744

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=86.94  E-value=0.22  Score=51.90  Aligned_cols=22  Identities=23%  Similarity=0.104  Sum_probs=17.8

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4555556999999999999874

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=86.87  E-value=0.2  Score=52.29  Aligned_cols=22  Identities=23%  Similarity=0.058  Sum_probs=18.0

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            5555666999999999999874

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=86.82  E-value=0.35  Score=45.56  Aligned_cols=17  Identities=18%  Similarity=0.303  Sum_probs=14.5

Q ss_pred             CCCCCCHHHHHHHHHcC
Q psy3029         113 FWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~  129 (617)
                      |++|||||||+++|+..
T Consensus         8 GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            8 GPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHh
Confidence            44999999999999754

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=86.73  E-value=0.24  Score=46.38  Aligned_cols=21  Identities=14%  Similarity=-0.095  Sum_probs=16.0

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|.|.+|+||||+.+.|...
T Consensus         7 I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            7 IVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             EEEECCTTSSHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            333444999999999999763

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=86.63  E-value=0.2  Score=49.90  Aligned_cols=22  Identities=23%  Similarity=0.013  Sum_probs=17.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4555555999999999999873

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=86.56  E-value=0.24  Score=51.84  Aligned_cols=23  Identities=13%  Similarity=-0.109  Sum_probs=18.7

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      -+++|+|++|+|||||++.+.+-
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHhcC
Confidence            45666666999999999999874

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=86.56  E-value=0.24  Score=51.74  Aligned_cols=22  Identities=32%  Similarity=0.258  Sum_probs=18.1

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHCC
Confidence            5556666999999999999874

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=86.48  E-value=0.26  Score=46.44  Aligned_cols=19  Identities=11%  Similarity=-0.172  Sum_probs=14.8

Q ss_pred             cCCCCCCCCHHHHHHHHHc
Q psy3029         110 ANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~  128 (617)
                      +|.|.+|+||||+.+.|..
T Consensus        14 ~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           14 VFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             EEEESTTSSHHHHHHHHHH
T ss_pred             EEEcCCCCCHHHHHHHHHH
Confidence            3334499999999999864

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=86.43  E-value=0.24  Score=51.74  Aligned_cols=22  Identities=27%  Similarity=0.246  Sum_probs=18.0

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            4555566999999999999874

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=86.43  E-value=0.39  Score=43.24  Aligned_cols=16  Identities=19%  Similarity=0.005  Sum_probs=13.5

Q ss_pred             CCCCCCCCHHHHHHHH
Q psy3029         111 NWFWLGVGKTSMVVRY  126 (617)
Q Consensus       111 i~G~~nVGKSSLinrl  126 (617)
                      |.|++|+||||+.+.|
T Consensus         6 l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            6 ITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EECCTTSCHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHH
Confidence            3344999999999999

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=86.27  E-value=0.17  Score=51.76  Aligned_cols=22  Identities=18%  Similarity=-0.047  Sum_probs=17.7

Q ss_pred             ccccCCCCCCCCHHHHHHHHHc
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~  128 (617)
                      -+++|+|+.|+|||||++.+.+
T Consensus        81 e~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTT
T ss_pred             CEEEEECCCCchHHHHHHHHHc
Confidence            3555666699999999998876

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=86.24  E-value=0.25  Score=51.96  Aligned_cols=23  Identities=22%  Similarity=0.111  Sum_probs=18.7

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      -+++|+|++|+|||||++.+.+-
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEEcCCCchHHHHHHHHHcC
Confidence            35566666999999999999874

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=86.22  E-value=0.22  Score=50.60  Aligned_cols=29  Identities=10%  Similarity=0.127  Sum_probs=18.3

Q ss_pred             ceeeeeeecccccccceeccccC-cccCcc
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGK-MFSHHI  359 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~-~f~~~~  359 (617)
                      ++++++|..++||||+++++... .++..+
T Consensus        19 ~~I~lvG~nG~GKSTLl~~L~g~~~~~~~g   48 (301)
T 2qnr_A           19 FTLMVVGESGLGKSTLINSLFLTDLYPERV   48 (301)
T ss_dssp             EEEEEEEETTSSHHHHHHHHHC--------
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCccCCCC
Confidence            56677778899999999997653 555443

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=86.20  E-value=0.43  Score=46.49  Aligned_cols=13  Identities=31%  Similarity=0.432  Sum_probs=12.6

Q ss_pred             CCCCHHHHHHHHH
Q psy3029         115 LGVGKTSMVVRYI  127 (617)
Q Consensus       115 ~nVGKSSLinrl~  127 (617)
                      +|+|||||++.|.
T Consensus        36 ~GsGKSTl~k~La   48 (246)
T 2bbw_A           36 PGSGKGTVCQRIA   48 (246)
T ss_dssp             TTSSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            9999999999998

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=86.12  E-value=0.26  Score=51.74  Aligned_cols=22  Identities=27%  Similarity=0.140  Sum_probs=18.2

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCcHHHHHHHHHHcC
Confidence            5566666999999999999874

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=86.12  E-value=0.26  Score=51.75  Aligned_cols=23  Identities=26%  Similarity=0.092  Sum_probs=18.9

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      -+++|+|++|+|||||++.+.+-
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHHcC
Confidence            45666677999999999999874

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=86.02  E-value=0.22  Score=50.35  Aligned_cols=21  Identities=33%  Similarity=0.308  Sum_probs=16.1

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|+|+.|+|||||++.+.+-
T Consensus        67 ~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           67 LAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCcHHHHHHHHhcC
Confidence            333444999999999999874

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=86.00  E-value=0.25  Score=50.32  Aligned_cols=68  Identities=13%  Similarity=0.083  Sum_probs=34.0

Q ss_pred             cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHH
Q psy3029         178 NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIE  257 (617)
Q Consensus       178 ~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~  257 (617)
                      ..+.++++.|........   ..+..+.+...   ..+|+.||.|.....    ..+..+....+.++.++.  +|++++
T Consensus       220 ~P~~~lLvLDa~t~~~~~---~~~~~~~~~~~---~t~iivTh~d~~a~g----g~~l~i~~~~~~pi~~ig--~Ge~~~  287 (304)
T 1rj9_A          220 EPKEVWLVLDAVTGQNGL---EQAKKFHEAVG---LTGVIVTKLDGTAKG----GVLIPIVRTLKVPIKFVG--VGEGPD  287 (304)
T ss_dssp             CCSEEEEEEETTBCTHHH---HHHHHHHHHHC---CSEEEEECTTSSCCC----TTHHHHHHHHCCCEEEEE--CSSSTT
T ss_pred             CCCeEEEEEcHHHHHHHH---HHHHHHHHHcC---CcEEEEECCcccccc----cHHHHHHHHHCCCeEEEe--CCCChh
Confidence            466677788866543221   22222222111   235777888753221    123455556677766665  344443

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=85.99  E-value=0.35  Score=45.84  Aligned_cols=22  Identities=14%  Similarity=-0.080  Sum_probs=16.8

Q ss_pred             eeeeecccccccceeccccCcc
Q psy3029         334 ANWFWLGVGKTSMVVRYIGKMF  355 (617)
Q Consensus       334 ~~~g~~~vGKssi~~~~~~~~f  355 (617)
                      +++|..++|||+++++++...+
T Consensus        33 ~v~G~~~~GKSslin~l~~~~~   54 (223)
T 4dhe_A           33 AFAGRSNAGKSTAINVLCNQKR   54 (223)
T ss_dssp             EEEESCHHHHHHHHHHHTTCSS
T ss_pred             EEEcCCCCCHHHHHHHHhCCCc
Confidence            3333449999999999998763

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=85.95  E-value=0.44  Score=45.20  Aligned_cols=14  Identities=29%  Similarity=0.377  Sum_probs=12.7

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+||||+.+.|..
T Consensus         9 ~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            9 PGAGKGTQAEQIIE   22 (216)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999954

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=85.89  E-value=0.89  Score=46.53  Aligned_cols=14  Identities=21%  Similarity=0.389  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++.+.+
T Consensus        45 ~G~GKTtl~~~la~   58 (354)
T 1sxj_E           45 NGTGKKTRCMALLE   58 (354)
T ss_dssp             TTSSHHHHHHTHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999998876

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	617
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	5e-37
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-06
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	6e-37
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	2e-06
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	4e-35
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	0.002
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-34
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-06
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	1e-33
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	3e-06
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-32
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	4e-04
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	8e-32
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	0.002
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	2e-31
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	0.004
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	1e-30
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	0.001
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-29
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-29
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	3e-04
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	8e-29
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	7e-28
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	2e-25
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	3e-24
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	4e-24
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	9e-24
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	5e-23
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-22
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	7e-04
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-21
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	2e-21
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	7e-21
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-20
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	1e-20
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	0.002
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	5e-20
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	1e-19
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-19
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	0.002
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-19
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	6e-19
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	7e-19
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	7e-19
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	2e-18
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-18
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	0.001
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	3e-18
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-18
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-17
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	3e-17
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	9e-17
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-16
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	9e-16
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	2e-15
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	2e-14
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-13
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-13
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	4e-13
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-13
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-12
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	5e-12
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	8e-12
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	3e-10
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	3e-10
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	5e-10
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	7e-10
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	3e-09
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-08
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	4e-08
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	5e-04

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  133 bits (336), Expect = 5e-37
 Identities = 52/150 (34%), Positives = 85/150 (56%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT ++ R+    F+     TIG  F    I +   ++KLQ+WDTAGQERFR++   Y
Sbjct: 16  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   SF  I+ W++ ++ +    +   ++GNK D+   R+V++E   
Sbjct: 76  YRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGE 135

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +   G  + ETSA  +  +E+ F  +++
Sbjct: 136 KLALDYGIKFMETSAKANINVENAFFTLAR 165

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.3 bits (109), Expect = 2e-06
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT ++ R+    F+     TIG  F    I +   ++KLQ+
Sbjct: 16  GVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQI 59

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  133 bits (335), Expect = 6e-37
 Identities = 57/150 (38%), Positives = 91/150 (60%), Gaps = 1/150 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+WDTAGQERFR++   Y
Sbjct: 12  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+DIT   +F  IK W K +  + ++   L +VGNK+D+E +R V  ++  
Sbjct: 72  YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGE 130

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +K +G  + E+SA  D  + ++F  ++K
Sbjct: 131 ALAKELGIPFIESSAKNDDNVNEIFFTLAK 160

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 46.3 bits (109), Expect = 2e-06
 Identities = 16/44 (36%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ ++VR++   F+     TIG  F    +++   KVKLQ+
Sbjct: 12  GVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQI 55

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  128 bits (322), Expect = 4e-35
 Identities = 59/151 (39%), Positives = 86/151 (56%), Gaps = 1/151 (0%)

Query: 116 GVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM 174
           GVGKT ++VR+    F +     T+G  F    ++V   KVKLQ+WDTAGQERFRS+   
Sbjct: 16  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHA 75

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
           YYR+A+A LL++D+T   SF  I+ W+ E+       + L ++GNK D    R V RE+ 
Sbjct: 76  YYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDG 135

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
              +K  G  + ETSA     ++  F  ++K
Sbjct: 136 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAK 166

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.5 bits (86), Expect = 0.002
 Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)

Query: 340 GVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT ++VR+    F +     T+G  F    ++V   KVKLQ+
Sbjct: 16  GVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQM 60

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  128 bits (321), Expect = 1e-34
 Identities = 58/175 (33%), Positives = 103/175 (58%), Gaps = 1/175 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++R+    +++    TIG  F    + +    VKLQ+WDTAGQERFR++   Y
Sbjct: 16  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR ++  ++V+D+T   SF  +K W++E+ R     ++  +VGNK DL+  R V  + A 
Sbjct: 76  YRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAK 135

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI-CLSQESLHTSSLRVYDSDNIT 289
            ++ +    + ETSAL    +ED FL +++ +   +SQ++L+ ++ +  D  N+ 
Sbjct: 136 EFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVN 190

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 47.2 bits (111), Expect = 1e-06
 Identities = 13/44 (29%), Positives = 24/44 (54%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ +++R+    +++    TIG  F    + +    VKLQ+
Sbjct: 16  GVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQI 59

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  124 bits (311), Expect = 1e-33
 Identities = 63/153 (41%), Positives = 94/153 (61%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKT +V R+   +F      TIG  F    + +   KVKLQ+WDTAGQERFRS+   Y
Sbjct: 15  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR+ANA +L +DIT   SF  +  W++E+++     ++  +VGNK DL   REV+++ A 
Sbjct: 75  YRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAE 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +S++    Y ETSA +   +E +FL+++  LI
Sbjct: 135 EFSEAQDMYYLETSAKESDNVEKLFLDLACRLI 167

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.6 bits (107), Expect = 3e-06
 Identities = 17/44 (38%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKT +V R+   +F      TIG  F    + +   KVKLQ+
Sbjct: 15  GVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQI 58

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  119 bits (300), Expect = 3e-32
 Identities = 51/150 (34%), Positives = 81/150 (54%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS + RY    F+     T+G  F    I   + ++KLQ+WDTAGQER+R++   Y
Sbjct: 15  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +L++DIT   SF A++ W  ++K    +   + +VGNK D+E  R V+ E   
Sbjct: 75  YRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGR 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +  +G  ++E SA  +  ++  F  +  
Sbjct: 135 QLADHLGFEFFEASAKDNINVKQTFERLVD 164

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 39.1 bits (90), Expect = 4e-04
 Identities = 15/44 (34%), Positives = 22/44 (50%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKTS + RY    F+     T+G  F    I   + ++KLQ+
Sbjct: 15  SVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQI 58

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  119 bits (298), Expect = 8e-32
 Identities = 58/150 (38%), Positives = 91/150 (60%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+WDTAGQER+R +   Y
Sbjct: 14  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAY 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DI ++ ++  ++ W+KEL+ + D  +V+ +VGNK+DL   R V  +EA 
Sbjct: 74  YRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEAR 133

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++    ++ ETSAL    +E+ F N+  
Sbjct: 134 AFAEKNNLSFIETSALDSTNVEEAFKNILT 163

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.2 bits (85), Expect = 0.002
 Identities = 15/44 (34%), Positives = 23/44 (52%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK++++ R+    F+     TIG  F T  I V    +K Q+
Sbjct: 14  GVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 57

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  118 bits (295), Expect = 2e-31
 Identities = 59/150 (39%), Positives = 91/150 (60%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ ++ ++  K F      TIG  F T  I V   K+KLQ+WDTAGQERFR++   Y
Sbjct: 14  GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSY 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  AL+V+DIT+  ++  + +W+ + +   +   V+ ++GNK DLE+ R+V  EEA 
Sbjct: 74  YRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAK 133

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            +++  G  + E SA   + +ED FL  +K
Sbjct: 134 QFAEENGLLFLEASAKTGENVEDAFLEAAK 163

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.4 bits (83), Expect = 0.004
 Identities = 17/44 (38%), Positives = 24/44 (54%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+ ++ ++  K F      TIG  F T  I V   K+KLQ+
Sbjct: 14  GVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQI 57

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (290), Expect = 1e-30
 Identities = 51/153 (33%), Positives = 86/153 (56%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+++R+    F   ++ TIG  F    I+V  NK KL +WDTAGQERFR++ P Y
Sbjct: 17  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSY 76

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A   +LV+D+T+  +F  +  W+ EL+       ++ ++      + +REV+R E  
Sbjct: 77  YRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGL 136

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + E SA    G++  F  + + +I
Sbjct: 137 KFARKHSMLFIEASAKTCDGVQCAFEELVEKII 169

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (88), Expect = 0.001
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGK+S+++R+    F   ++ TIG  F    I+V  NK KL +
Sbjct: 17  GVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 60

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  112 bits (281), Expect = 1e-29
 Identities = 55/152 (36%), Positives = 91/152 (59%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS++ R++   F +    TIG  F +  + + +  ++LQ+WDTAGQERFRS+ P Y
Sbjct: 10  SVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            R++ AA++V+DIT  +SF     W+ +++      +++ +VGNKTDL   R+V+ EE  
Sbjct: 70  IRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGE 129

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL 267
             +K +   + ETSA     ++ +F  V+  L
Sbjct: 130 RKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (283), Expect = 1e-29
 Identities = 56/161 (34%), Positives = 82/161 (50%), Gaps = 11/161 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE----------NKVKLQVWDTAGQ 165
           GVGKT+ + RY    F+     T+G  F   ++               KV LQ+WDTAGQ
Sbjct: 15  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ 74

Query: 166 ERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLE 224
           ERFRS+   ++R+A   LL+FD+T   SF  ++ W+ +L+ N       + ++GNK DL 
Sbjct: 75  ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLP 134

Query: 225 SSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             REVN  +A   +   G  Y+ETSA   Q +E     +  
Sbjct: 135 DQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLD 175

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.9 bits (92), Expect = 3e-04
 Identities = 14/57 (24%), Positives = 20/57 (35%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVSKIPVPT 396
           GVGKT+ + RY    F+     T+G  F   ++               KV      T
Sbjct: 15  GVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDT 71

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  110 bits (276), Expect = 8e-29
 Identities = 60/153 (39%), Positives = 94/153 (61%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GK+ ++ ++I K F    + TIG  F +  INVG   VKLQ+WDTAGQERFRS+   Y
Sbjct: 15  GTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT   ++ A+  W+ + +    + +V+ + GNK DL++ REV   EA 
Sbjct: 75  YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEAS 134

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            +++     + ETSAL  + +E+ F+  ++ ++
Sbjct: 135 RFAQENELMFLETSALTGENVEEAFVQCARKIL 167

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  108 bits (269), Expect = 7e-28
 Identities = 61/160 (38%), Positives = 100/160 (62%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+ +++++  K F      TIG  F    +N+   ++KLQ+WDTAGQE FRS+   Y
Sbjct: 13  GVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A  ALLV+DIT+  +F  + +W+++ +++    +V+ ++GNK+DLES R+V REE  
Sbjct: 73  YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGE 132

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESL 275
            +++  G  + ETSA     +E+ F+N +K +    Q+ L
Sbjct: 133 AFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 172

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  100 bits (250), Expect = 2e-25
 Identities = 64/150 (42%), Positives = 95/150 (63%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F      TIGA+F T  + + +  VK ++WDTAGQER+ S+APMY
Sbjct: 16  AVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A AA++V+DIT   SFA  K WVKEL+R     +V+ + GNK DL + R V+ +EA 
Sbjct: 76  YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQ 135

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            Y+      + ETSA     + ++F+ ++K
Sbjct: 136 SYADDNSLLFMETSAKTSMNVNEIFMAIAK 165

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 97.3 bits (241), Expect = 3e-24
 Identities = 76/153 (49%), Positives = 110/153 (71%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKTS+V+RY    F+     T+GASF T K+N+G  +V L +WDTAGQERF ++ P+Y
Sbjct: 13  CVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR++N A+LV+DIT   SF  +K WVKEL++ +   + LC+VGNK DLE  R V+ +EA 
Sbjct: 73  YRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAE 132

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
            Y++S+G  +Y TSA Q++GIE++FL++ K +I
Sbjct: 133 SYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 165

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 97.0 bits (240), Expect = 4e-24
 Identities = 67/153 (43%), Positives = 102/153 (66%), Gaps = 3/153 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+V+R++   F+ +  PTIGA+F T ++ + E+ VK ++WDTAGQERF S+APMY
Sbjct: 13  AVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL---ESSREVNRE 232
           YRNA AAL+V+D+T+  SF   + WVKEL     + +++ +VGNK D+      R+V RE
Sbjct: 73  YRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVARE 132

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           E    ++  G  ++ETSA   + + DVFL + +
Sbjct: 133 EGEKLAEEKGLLFFETSAKTGENVNDVFLGIGE 165

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 96.1 bits (238), Expect = 9e-24
 Identities = 48/151 (31%), Positives = 80/151 (52%), Gaps = 2/151 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++   F     PTI   F+  +I V  +   L++ DTAG E+F SM  +Y
Sbjct: 13  GVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNREEA 234
            +N    +LV+ +    SF  IK    ++ R      + + +VGNK DLES REV+  E 
Sbjct: 72  IKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEG 131

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
              ++  G  + ETSA     ++++F  + +
Sbjct: 132 RALAEEWGCPFMETSAKSKTMVDELFAEIVR 162

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 93.9 bits (232), Expect = 5e-23
 Identities = 64/150 (42%), Positives = 98/150 (65%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ R++   F  +I+PTIGASF T  +       K  +WDTAG ERFR++APMY
Sbjct: 14  GVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMY 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR + AA++V+DIT+  +F+ +K WV+EL+++    +V+ + GNK DL   REV   +A 
Sbjct: 74  YRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAK 133

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            Y+ SI   + ETSA     I ++F+ +S+
Sbjct: 134 DYADSIHAIFVETSAKNAININELFIEISR 163

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 93.1 bits (230), Expect = 2e-22
 Identities = 38/166 (22%), Positives = 65/166 (39%), Gaps = 14/166 (8%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    +  GE    L ++DTAGQE +  + P+ 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPY-TLGLFDTAGQEDYDRLRPLS 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR---- 231
           Y   +  L+ F +    SF  +K        +        +VG + DL            
Sbjct: 72  YPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAK 131

Query: 232 --------EEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI 268
                   E A   ++ +    Y E SAL  +G+++VF       +
Sbjct: 132 NKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.8 bits (89), Expect = 7e-04
 Identities = 10/38 (26%), Positives = 17/38 (44%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGEN 377
            VGKT +++ Y    F     PT+  ++    +  GE 
Sbjct: 13  AVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEP 50

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 90.0 bits (222), Expect = 1e-21
 Identities = 47/151 (31%), Positives = 85/151 (56%), Gaps = 2/151 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++++   F     PT   S+   K+ +   +V++ + DTAGQE + ++   Y
Sbjct: 14  GVGKSALTLQFMYDEFVEDYEPTKADSYRK-KVVLDGEEVQIDILDTAGQEDYAAIRDNY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNREEA 234
           +R+    L VF IT+  SFAA   + +++ R  ++  +   +VGNK+DLE  R+V+ EEA
Sbjct: 73  FRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEA 132

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
            + +      Y ETSA     ++ VF ++ +
Sbjct: 133 KNRADQWNVNYVETSAKTRANVDKVFFDLMR 163

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 90.0 bits (222), Expect = 2e-21
 Identities = 53/158 (33%), Positives = 80/158 (50%), Gaps = 6/158 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S++ RY+   F   +  TIG  F    + V  + V +Q+WDTAGQERFRS+   +
Sbjct: 16  GVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF 75

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP----LVLCVVGNKTDLESSREVNR 231
           YR ++  LL F +    SF  +  W KE     D          ++GNK D+   R+V+ 
Sbjct: 76  YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVST 134

Query: 232 EEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI 268
           EEA  + +  G   Y+ETSA     +   F    + ++
Sbjct: 135 EEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL 172

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 87.8 bits (216), Expect = 7e-21
 Identities = 46/151 (30%), Positives = 76/151 (50%), Gaps = 2/151 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++I   F     PTI    +T +  + +   +L + DTAGQE F +M   Y
Sbjct: 15  GVGKSALTIQFIQSYFVTDYDPTIED-SYTKQCVIDDRAARLDILDTAGQEEFGAMREQY 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLESSREVNREEA 234
            R     LLVF +T   SF  I  + +++ R  D      + +GNK DL+  R+V +EE 
Sbjct: 74  MRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEG 133

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
              ++ +  TY E SA     ++  F  + +
Sbjct: 134 QQLARQLKVTYMEASAKIRMNVDQAFHELVR 164

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 87.8 bits (216), Expect = 1e-20
 Identities = 41/167 (24%), Positives = 73/167 (43%), Gaps = 14/167 (8%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+  ++    +  G+    L +WDTAGQE +  + P+ 
Sbjct: 15  AVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPV-NLGLWDTAGQEDYDRLRPLS 73

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE--- 232
           Y   + +L+ F +    SF  ++       R+      + +VG K DL   ++   +   
Sbjct: 74  YPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKE 133

Query: 233 ---------EAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLIC 269
                    +    +K IG   Y E SAL  +G++ VF    + ++C
Sbjct: 134 KKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 180

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 87.4 bits (215), Expect = 1e-20
 Identities = 51/153 (33%), Positives = 85/153 (55%), Gaps = 5/153 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF-RSMAPM 174
            VGKT +  R+    F      TIG  F    +++   ++K+Q+WDTAGQERF +SM   
Sbjct: 12  NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQH 71

Query: 175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNREE 233
           YYRN +A + V+D+T   SF ++  W++E K+++    +   +VGNK DL S+ +V  + 
Sbjct: 72  YYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDL 131

Query: 234 AFHYSKSIGGTYYETSALQDQ---GIEDVFLNV 263
           A  ++ +     +ETSA        +E +F+ +
Sbjct: 132 AQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.9 bits (84), Expect = 0.002
 Identities = 13/44 (29%), Positives = 21/44 (47%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
            VGKT +  R+    F      TIG  F    +++   ++K+QL
Sbjct: 12  NVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQL 55

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 85.8 bits (211), Expect = 5e-20
 Identities = 39/163 (23%), Positives = 67/163 (41%), Gaps = 14/163 (8%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGKT +++ Y    F     PT+    +   + VG  +  L ++DTAGQE +  + P+ 
Sbjct: 19  AVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLS 77

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE------- 228
           Y   +  L+ F +    SF  +K       +     +   ++G + DL    +       
Sbjct: 78  YPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLND 137

Query: 229 -----VNREEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
                +  E+    +K IG   Y E SAL  +G++ VF     
Sbjct: 138 MKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAII 180

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 84.3 bits (207), Expect = 1e-19
 Identities = 49/150 (32%), Positives = 72/150 (48%), Gaps = 1/150 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ ++ I   F     PTI  S+    +  GE    L + DTAGQE + +M   Y
Sbjct: 13  GVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETC-LLDILDTAGQEEYSAMRDQY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
            R     L VF I    SF  I  + +++KR  D   V  V+       ++R V   +A 
Sbjct: 72  MRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQ 131

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             ++S G  Y ETSA   QG+ED F  + +
Sbjct: 132 DLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 83.9 bits (206), Expect = 2e-19
 Identities = 42/163 (25%), Positives = 67/163 (41%), Gaps = 14/163 (8%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT +++      F     PT+    + A I V   +V+L +WDTAG E +  + P+ 
Sbjct: 12  ACGKTCLLIVNSKDQFPEVYVPTVFE-NYVADIEVDGKQVELALWDTAGLEDYDRLRPLS 70

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR---- 231
           Y + +  L+ F I    S   I        ++    + + +VGNK DL +     R    
Sbjct: 71  YPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAK 130

Query: 232 --------EEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
                   EE    +  IG   Y E SA    G+ +VF   ++
Sbjct: 131 MKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATR 173

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (85), Expect = 0.002
 Identities = 6/29 (20%), Positives = 12/29 (41%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFF 368
             GKT +++      F     PT+  ++ 
Sbjct: 12  ACGKTCLLIVNSKDQFPEVYVPTVFENYV 40

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 83.5 bits (205), Expect = 2e-19
 Identities = 42/152 (27%), Positives = 80/152 (52%), Gaps = 3/152 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ V+++  +F     PTI    +  ++ V   +  L++ DTAG E+F +M  +Y
Sbjct: 13  GVGKSALTVQFVQGIFVEKYDPTIED-SYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLESSREVNREEA 234
            +N     LV+ IT   +F  ++   +++ R  D   V  + VGNK DLE  R V +E+ 
Sbjct: 72  MKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQG 131

Query: 235 FHYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
            + ++      + E+SA     + ++F ++ +
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 82.7 bits (203), Expect = 6e-19
 Identities = 36/149 (24%), Positives = 59/149 (39%), Gaps = 9/149 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+++ R           PTIG +  T    +    +KL VWD  GQ   R     Y
Sbjct: 27  GAGKTTILYRLQIGEVVTTK-PTIGFNVET----LSYKNLKLNVWDLGGQTSIRPYWRCY 81

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLE---SSREVNR 231
           Y +  A + V D T     +     +  + +  +      +   NK D     S+ EV++
Sbjct: 82  YADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSK 141

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           E      K    +   +SA++ +GI +  
Sbjct: 142 ELNLVELKDRSWSIVASSAIKGEGITEGL 170

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 82.4 bits (202), Expect = 7e-19
 Identities = 39/159 (24%), Positives = 78/159 (49%), Gaps = 15/159 (9%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++  +    F  +  PT+    +TA   +   +++L +WDT+G   + ++ P+ 
Sbjct: 12  QCGKTALLHVFAKDCFPENYVPTVFE-NYTASFEIDTQRIELSLWDTSGSPYYDNVRPLS 70

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS--------- 226
           Y +++A L+ FDI++  +  ++    K   +       + +VG K+DL +          
Sbjct: 71  YPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSN 130

Query: 227 ---REVNREEAFHYSKSIGG-TYYETSALQDQ-GIEDVF 260
                V+ ++  + +K IG  TY E SALQ +  + D+F
Sbjct: 131 HRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 169

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 82.1 bits (201), Expect = 7e-19
 Identities = 54/150 (36%), Positives = 81/150 (54%), Gaps = 1/150 (0%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+SM+ RY   +F+     TIG  F   +I V +  V+L +WDTAGQE F ++   Y
Sbjct: 12  AVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAY 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           YR A A +LVF  T   SF AI +W +++   V +     +V NK DL     +  EEA 
Sbjct: 72  YRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPT-ALVQNKIDLLDDSCIKNEEAE 130

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +K +   +Y TS  +D  + +VF  +++
Sbjct: 131 GLAKRLKLRFYRTSVKEDLNVSEVFKYLAE 160

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 81.3 bits (199), Expect = 2e-18
 Identities = 57/157 (36%), Positives = 89/157 (56%), Gaps = 7/157 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINV-GENKVKLQVWDTAGQERFRSMAPM 174
           GVGKTS++ RY+   +S     TIGA F T ++ V G+    +QVWDTAGQERF+S+   
Sbjct: 12  GVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVA 71

Query: 175 YYRNANAALLVFDITQYHSFAAIKTW----VKELKRNVDEPLVLCVVGNKTDLESSREVN 230
           +YR A+  +LV+D+T   SF  IK+W    +     N  E     ++GNK D E S+++ 
Sbjct: 72  FYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIV 131

Query: 231 REEAF-HYSKSIGG-TYYETSALQDQGIEDVFLNVSK 265
            E++    +KS+G    + TSA     ++  F  +++
Sbjct: 132 SEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIAR 168

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 81.3 bits (199), Expect = 2e-18
 Identities = 55/157 (35%), Positives = 86/157 (54%), Gaps = 4/157 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+WDTAGQERF+S+   +
Sbjct: 12  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAF 71

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD----EPLVLCVVGNKTDLESSREVNR 231
           YR A+  +LVFD+T  ++F  + +W  E          E     V+GNK DLE+ +   +
Sbjct: 72  YRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATK 131

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLI 268
                        Y+ETSA +   +E  F  +++  +
Sbjct: 132 RAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNAL 168

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.5 bits (88), Expect = 0.001
 Identities = 19/44 (43%), Positives = 29/44 (65%)

Query: 340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQL 383
           GVGKTS++ +Y+ K FS+    TIGA F T ++ V +  V +Q+
Sbjct: 12  GVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 55

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 80.5 bits (197), Expect = 3e-18
 Identities = 51/151 (33%), Positives = 74/151 (49%), Gaps = 2/151 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++I   F     PTI    +T   +V     +L + DTAGQE F +M   Y
Sbjct: 16  GVGKSALTIQFIQSYFVSDYDPTIED-SYTKICSVDGIPARLDILDTAGQEEFGAMREQY 74

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLESSREVNREEA 234
            R  +  LLVF I    SF  +     ++ R  D      V VGNK DLES R+V R EA
Sbjct: 75  MRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEA 134

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
             +  S    Y+E SA     +++ F  + +
Sbjct: 135 SAFGASHHVAYFEASAKLRLNVDEAFEQLVR 165

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 80.1 bits (196), Expect = 3e-18
 Identities = 21/149 (14%), Positives = 48/149 (32%), Gaps = 9/149 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++ +            T   +       V    +   VWD  GQ++ R +   Y
Sbjct: 10  AAGKTTILYKLKLGEIV-----TTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHY 64

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVV----GNKTDLESSREVNR 231
           ++N    + V D          +  +  +    +    + +V     +  +  ++ E+  
Sbjct: 65  FQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITD 124

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           +   H  +        T A    G+ +  
Sbjct: 125 KLGLHSLRHRNWYIQATCATSGDGLYEGL 153

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 78.8 bits (193), Expect = 1e-17
 Identities = 27/149 (18%), Positives = 50/149 (33%), Gaps = 9/149 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++ +         I PT+G +  T         VK  VWD  GQ++ R +   Y
Sbjct: 22  AAGKTTILYKLKLGQSVTTI-PTVGFNVETVTYK----NVKFNVWDVGGQDKIRPLWRHY 76

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLE---SSREVNR 231
           Y      + V D          +  +  +  + +     + +  NK DL       E+  
Sbjct: 77  YTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQE 136

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           +      +        + A    G+ +  
Sbjct: 137 KLGLTRIRDRNWYVQPSCATSGDGLYEGL 165

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 77.4 bits (189), Expect = 3e-17
 Identities = 43/152 (28%), Positives = 72/152 (47%), Gaps = 3/152 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++ +++  K+F     PTI  S+      +      L V DTAGQE F +M   Y
Sbjct: 14  GVGKSALTIQFFQKIFVPDYDPTIEDSYLK-HTEIDNQWAILDVLDTAGQEEFSAMREQY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPL-VLCVVGNKTDLESSREVNREEA 234
            R  +  L+V+ +T   SF  +  + + + R  D     + +V NK DL   R+V R++ 
Sbjct: 73  MRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQG 132

Query: 235 FHYSKSIGGTYYETSAL-QDQGIEDVFLNVSK 265
              +      Y ETSA      ++  F ++ +
Sbjct: 133 KEMATKYNIPYIETSAKDPPLNVDKTFHDLVR 164

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 76.2 bits (186), Expect = 9e-17
 Identities = 41/150 (27%), Positives = 73/150 (48%), Gaps = 3/150 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+S+V+R++   F     PT+  ++             LQ+ DT G  +F +M  + 
Sbjct: 12  GVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSIC-TLQITDTTGSHQFPAMQRLS 70

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD--EPLVLCVVGNKTDLESSREVNREE 233
               +A +LV+ IT   S   +K   +++       E + + +VGNK D   SREV   E
Sbjct: 71  ISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSE 130

Query: 234 AFHYSKSIGGTYYETSALQDQGIEDVFLNV 263
           A   +++    + ETSA  +  ++++F  +
Sbjct: 131 AEALARTWKCAFMETSAKLNHNVKELFQEL 160

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 75.0 bits (183), Expect = 2e-16
 Identities = 27/149 (18%), Positives = 53/149 (35%), Gaps = 9/149 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++ ++      H           +    +  N  +  +WD  GQE  RS    Y
Sbjct: 25  NAGKTTILYQFSMNEVVHTSPT-----IGSNVEEIVINNTRFLMWDIGGQESLRSSWNTY 79

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLE---SSREVNR 231
           Y N    ++V D T     +  +  + ++  + D      +   NK D++   +  E+++
Sbjct: 80  YTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQ 139

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
                  K          AL  +G+    
Sbjct: 140 FLKLTSIKDHQWHIQACCALTGEGLCQGL 168

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 73.1 bits (178), Expect = 9e-16
 Identities = 45/161 (27%), Positives = 78/161 (48%), Gaps = 5/161 (3%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+ V R++   F      T+G        +     +K  VWDTAGQE+F  +   Y
Sbjct: 13  GTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAF 235
           Y  A  A+++FD+T   ++  +  W ++L R  +    + + GNK D++  +   +   F
Sbjct: 73  YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENI-PIVLCGNKVDIKDRKVKAKSIVF 131

Query: 236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLH 276
           H  K++   YY+ SA  +   E  FL +++ L  +   +L 
Sbjct: 132 HRKKNLQ--YYDISAKSNYNFEKPFLWLARKL--IGDPNLE 168

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 72.4 bits (176), Expect = 2e-15
 Identities = 46/152 (30%), Positives = 78/152 (51%), Gaps = 4/152 (2%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++VVR++ K F     PT+ +++   +  + +  V +++ DTAGQE        +
Sbjct: 12  GVGKSALVVRFLTKRFIWEYDPTLESTYRH-QATIDDEVVSMEILDTAGQEDTIQR-EGH 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNREEA 234
            R     +LV+DIT   SF  +      L        + L +VGNK DL+ SR+V+ EE 
Sbjct: 70  MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEG 129

Query: 235 FHYSKSIGGTYYETSALQDQG-IEDVFLNVSK 265
              +  +   +YE SA   +G I ++F  + +
Sbjct: 130 EKLATELACAFYECSACTGEGNITEIFYELCR 161

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 69.4 bits (168), Expect = 2e-14
 Identities = 46/146 (31%), Positives = 72/146 (49%), Gaps = 2/146 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
            VGK+S+ ++++   F     PTI  +F    I V   +  LQ+ DTAGQ+ +      Y
Sbjct: 14  SVGKSSLTIQFVEGQFVDSYDPTIENTFTK-LITVNGQEYHLQLVDTAGQDEYSIFPQTY 72

Query: 176 YRNANAALLVFDITQYHSFAAIKTWV-KELKRNVDEPLVLCVVGNKTDLESSREVNREEA 234
             + N  +LV+ +T   SF  IK    K L       + + +VGNK DL   R ++ EE 
Sbjct: 73  SIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEG 132

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVF 260
              ++S    + E+SA ++Q   DVF
Sbjct: 133 KALAESWNAAFLESSAKENQTAVDVF 158

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 66.9 bits (162), Expect = 1e-13
 Identities = 34/149 (22%), Positives = 58/149 (38%), Gaps = 9/149 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++ +   +  SH  +PT G +  + +        KL VWD  GQ + R     Y
Sbjct: 26  NAGKTTLLKQLASEDISHI-TPTQGFNIKSVQSQ----GFKLNVWDIGGQRKIRPYWRSY 80

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSR---EVNR 231
           + N +  + V D      F      + EL        + + +  NK DL ++    E+  
Sbjct: 81  FENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAE 140

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
               H  +         SAL  +G++D  
Sbjct: 141 GLNLHTIRDRVWQIQSCSALTGEGVQDGM 169

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 66.3 bits (160), Expect = 2e-13
 Identities = 37/151 (24%), Positives = 63/151 (41%), Gaps = 3/151 (1%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           GVGK+++   + G               +   I V   +  L V+D   Q+  R +    
Sbjct: 11  GVGKSALARIFGGVEDGPEA--EAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHC 68

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCV-VGNKTDLESSREVNREEA 234
               +A ++V+ +T   SF        +L+R      V  + VGNK+DL  SREV+ +E 
Sbjct: 69  MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEG 128

Query: 235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
              +      + ETSA     ++ +F  V +
Sbjct: 129 RACAVVFDCKFIETSAALHHNVQALFEGVVR 159

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 65.5 bits (158), Expect = 4e-13
 Identities = 35/149 (23%), Positives = 60/149 (40%), Gaps = 8/149 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+ V       F+  + PT+G +       + +  V +++WD  GQ RFRSM   Y
Sbjct: 12  YSGKTTFVNVIASGQFNEDMIPTVGFNMR----KITKGNVTIKLWDIGGQPRFRSMWERY 67

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESS---REVNR 231
            R  +A + + D        A K  +  L      + + + V+GNK DL  +   +E+  
Sbjct: 68  CRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIE 127

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
           +      +      Y  S  +   I+   
Sbjct: 128 KMNLSAIQDREICCYSISCKEKDNIDITL 156

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 65.1 bits (157), Expect = 5e-13
 Identities = 27/149 (18%), Positives = 50/149 (33%), Gaps = 9/149 (6%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++ ++ G+        TI  +       +     KL +WD  GQ+  RS    Y
Sbjct: 12  NAGKTTILKKFNGEDVD-----TISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNY 66

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVN---R 231
           + + +  + V D          +  ++ L          L +  NK DL  +   N    
Sbjct: 67  FESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQE 126

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
                  +S        SA+  + +    
Sbjct: 127 ALELDSIRSHHWRIQGCSAVTGEDLLPGI 155

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 62.4 bits (150), Expect = 4e-12
 Identities = 34/154 (22%), Positives = 57/154 (37%), Gaps = 9/154 (5%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
           G GKT+++ R            T   +       V    +K QVWD  G    R     Y
Sbjct: 15  GAGKTTILYRLQVGEVV-----TTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCY 69

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLE---SSREVNR 231
           Y N +A + V D          K+ +  +    +    +L V  NK D+E   +S E+  
Sbjct: 70  YSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMAN 129

Query: 232 EEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
                  K      ++TSA +  G+++    + +
Sbjct: 130 SLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVE 163

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 62.4 bits (150), Expect = 5e-12
 Identities = 20/156 (12%), Positives = 47/156 (30%), Gaps = 16/156 (10%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++        +     T+  ++      +    +K   +D  G  + R +   Y
Sbjct: 10  NAGKTTLLHMLKNDRLA-----TLQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDY 64

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNR--- 231
           +   N  + + D      F   +  +  L    +   +   ++GNK D  ++        
Sbjct: 65  FPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRS 124

Query: 232 -------EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
                    +           +  S +   G  + F
Sbjct: 125 ALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAF 160

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 61.9 bits (149), Expect = 8e-12
 Identities = 28/165 (16%), Positives = 61/165 (36%), Gaps = 13/165 (7%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GK+S++ R++   +         +  +  ++ V      + + +        +    +
Sbjct: 15  RSGKSSLIHRFLTGSYQVL--EKTESEQYKKEMLVDGQTHLVLIRE-----EAGAPDAKF 67

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKR-----NVDEPLVLCVVGNKTDLESSREVN 230
              A+A + VF +   +SF A+     +L            L L    ++    S R V 
Sbjct: 68  SGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVG 127

Query: 231 REEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLICLSQES 274
              A      +   +YYET A     ++ VF  V++ ++ L ++ 
Sbjct: 128 DARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQ 172

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 58.6 bits (141), Expect = 3e-10
 Identities = 26/162 (16%), Positives = 50/162 (30%), Gaps = 20/162 (12%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GK+++V +        H+  T G   F  K  V   KV   ++D  GQ   R      
Sbjct: 16  ESGKSTIVKQM----RILHVVLTSG--IFETKFQVD--KVNFHMFDVGGQRDERRKWIQC 67

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDE-----------PLVLCVVGNKTDLE 224
           + +  A + V   + Y+           L+  ++             + + +  NK DL 
Sbjct: 68  FNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL 127

Query: 225 SSREVNREEAF-HYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           + + +  +     Y            A  + G +        
Sbjct: 128 AEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKY 169

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 57.6 bits (138), Expect = 3e-10
 Identities = 24/190 (12%), Positives = 53/190 (27%), Gaps = 43/190 (22%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GK++ + +      S    PT G   +          V  ++ D  GQ   R      
Sbjct: 12  ESGKSTFIKQMRIIHGSG--VPTTGIIEYP----FDLQSVIFRMVDVGGQRSERRKWIHC 65

Query: 176 YRNANAALLVFDITQY-----------HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE 224
           + N  + + +  +++Y               +   +   +     +   + +  NK DL 
Sbjct: 66  FENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL 125

Query: 225 SSREVNREEAFHYSKSIGGT--------------------------YYETSALQDQGIED 258
             + +      ++ +  G                             + T A   + I  
Sbjct: 126 EEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRF 185

Query: 259 VFLNVSKGLI 268
           VF  V   ++
Sbjct: 186 VFAAVKDTIL 195

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 57.2 bits (137), Expect = 5e-10
 Identities = 23/184 (12%), Positives = 57/184 (30%), Gaps = 23/184 (12%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GK++ + +       H   PT G   +          V  ++ D  GQ   R      
Sbjct: 12  ESGKSTFLKQM---RIIHGQDPTKGIHEYD----FEIKNVPFKMVDVGGQRSERKRWFEC 64

Query: 176 YRNANAALLVFDITQYHSFAAIKTWV-------KELKRNVDEPL----VLCVVGNKTDLE 224
           + +  + L +   +++                    +  V+  +     + +  NKTDL 
Sbjct: 65  FDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLL 124

Query: 225 SSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYD 284
             +        ++ +  G  +      +   + + F    +           T+++   +
Sbjct: 125 EEKVQVVSIKDYFLEFEGDPHCLRDVQKF--LVECFRGKRRDQQQRPLYHHFTTAI---N 179

Query: 285 SDNI 288
           ++NI
Sbjct: 180 TENI 183

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.3 bits (134), Expect = 7e-10
 Identities = 33/153 (21%), Positives = 63/153 (41%), Gaps = 3/153 (1%)

Query: 116 GVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDTA-GQERFRSMAP 173
           GVGK+++   + G   S       +G   +   + V      + + D    +     +  
Sbjct: 13  GVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHD 72

Query: 174 MYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEP-LVLCVVGNKTDLESSREVNRE 232
              +  +A L+V+ IT   SF        +L+R      + + +VGNK+DL   REV+  
Sbjct: 73  HCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVS 132

Query: 233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK 265
           E    +      + ETSA     ++++F  + +
Sbjct: 133 EGRACAVVFDCKFIETSAAVQHNVKELFEGIVR 165

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 55.0 bits (131), Expect = 3e-09
 Identities = 19/120 (15%), Positives = 36/120 (30%), Gaps = 5/120 (4%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT + VR +   +      +I  S    K+N         +     +     +   +
Sbjct: 10  DSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRF 68

Query: 176 YRNANAALLVFDITQYHSF----AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR 231
             +A A + V D   +       A     V      +     L +  NK D+  ++    
Sbjct: 69  KSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKL 128

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 52.4 bits (124), Expect = 2e-08
 Identities = 23/161 (14%), Positives = 45/161 (27%), Gaps = 21/161 (13%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKT+++          H+              +    +    +D  G  + R +   Y
Sbjct: 23  NAGKTTLLHMLKDDRLGQHVPT-----LHPTSEELTIAGMTFTTFDLGGHIQARRVWKNY 77

Query: 176 YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVV-GNKTDLESSREVNR--- 231
               N  + + D   +      K  +  L  +     V  ++ GNK D   +    R   
Sbjct: 78  LPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLRE 137

Query: 232 ------------EEAFHYSKSIGGTYYETSALQDQGIEDVF 260
                         +     +     +  S L+ QG  + F
Sbjct: 138 MFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGF 178

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 51.5 bits (122), Expect = 4e-08
 Identities = 23/190 (12%), Positives = 47/190 (24%), Gaps = 46/190 (24%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GK+++V +              G        +     +  +++D  GQ   R      
Sbjct: 12  ESGKSTIVKQMKIIHE-----AGTGIVE----THFTFKDLHFKMFDVGGQRSERKKWIHC 62

Query: 176 YRNANAALLVFDITQYHSFAAIKT-----------WVKELKRNVDEPLVLCVVGNKTDLE 224
           +    A +    ++ Y    A              +             + +  NK DL 
Sbjct: 63  FEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF 122

Query: 225 SSREVNREEAFHYSKSIGGT--------------------------YYETSALQDQGIED 258
             +         Y +  G                             + T A   + ++ 
Sbjct: 123 EEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQF 182

Query: 259 VFLNVSKGLI 268
           VF  V+  +I
Sbjct: 183 VFDAVTDVII 192

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.6 bits (91), Expect = 5e-04
 Identities = 16/162 (9%), Positives = 43/162 (26%), Gaps = 23/162 (14%)

Query: 116 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY 175
             GKTS++           +      S          +   + + D  G  + R     Y
Sbjct: 13  NSGKTSLLTLLTTDSVRPTVVSQEPLSAAD------YDGSGVTLVDFPGHVKLRYKLSDY 66

Query: 176 Y-----RNANAALLVFDITQYHSFAAIKTWVKELKRNVDE----PLVLCVVGNKTDLESS 226
                        +V              ++ ++    +      + + +  NK++L ++
Sbjct: 67  LKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA 126

Query: 227 REVNRE--------EAFHYSKSIGGTYYETSALQDQGIEDVF 260
           R  ++         +     +       E    ++   E+  
Sbjct: 127 RPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTL 168

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	617
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.97
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.97
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.96
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.96
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.96
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.96
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.96
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.96
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.95
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.95
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.95
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.95
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.94
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.94
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.94
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.93
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.91
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.91
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.9
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.9
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.88
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.82
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.82
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.81
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.8
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.8
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.8
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.79
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.76
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.76
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.74
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.74
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.72
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.72
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.7
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.69
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.67
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.64
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.64
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.62
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.6
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.57
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.56
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.49
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.48
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.41
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.36
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.36
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.32
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	99.15
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.13
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.09
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	99.07
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.06
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.02
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.0
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	98.96
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.93
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.84
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.81
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.79
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.57
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.52
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.52
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.47
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.44
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.28
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.02
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	97.99
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	97.98
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	97.98
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	97.92
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	97.91
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.87
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	97.82
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	97.81
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	97.79
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	97.78
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	97.78
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.76
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	97.74
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.72
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.71
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	97.7
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	97.69
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.68
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	97.66
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.66
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	97.65
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	97.63
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	97.61
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	97.61
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	97.6
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	97.56
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	97.55
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.53
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	97.51
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	97.46
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.45
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.29
d2vxfa1	80	LSM14 homolog A (Lsm14a) {Zebrafish (Danio rerio)	97.29
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	97.25
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	97.25
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	97.24
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	97.23
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	97.22
d1d3ba_	72	D3 core SNRNP protein {Human (Homo sapiens) [TaxId	97.19
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	97.12
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	97.07
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	97.05
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	96.92
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.91
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.72
d1b34a_	80	D1 core SNRNP protein {Human (Homo sapiens) [TaxId	96.71
d1i4k1_	72	Archaeal homoheptameric Sm protein {Archaeon Archa	96.67
d1th7a1	76	Archaeal homoheptameric Sm protein {Sulfolobus sol	96.67
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	96.65
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	96.65
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.63
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.62
d1okkd2	207	GTPase domain of the signal recognition particle r	96.51
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.51
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.45
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.41
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.39
d1mgqa_	74	Archaeal homoheptameric Sm protein {Archaeon Metha	96.32
d1d3bb_	81	B core SNRNP protein {Human (Homo sapiens) [TaxId:	96.3
d1h641_	71	Archaeal homoheptameric Sm protein {Archaeon Pyroc	96.28
d1i8fa_	71	Archaeal homoheptameric Sm protein {Archaeon Pyrob	96.16
d1m5q1_	127	Sm-Like archaeal protein Smap3 {Archaeon Pyrobacul	96.15
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.79
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.77
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	95.6
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.52
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	95.5
d1ljoa_	75	Archaeal homoheptameric Sm protein {Archaeon Archa	95.5
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	95.47
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.24
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.13
d1n9ra_	68	Small nuclear ribonucleoprotein F, Smf {Baker's ye	94.85
d2fwka1	92	U6 snRNA-associated sm-like protein LSM5 {Cryptosp	94.59
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	94.49
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.46
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.39
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.26
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.22
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.0
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.59
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	93.4
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	93.32
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	93.27
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	93.26
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.1
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	93.02
d2fh5b1	207	Signal recognition particle receptor beta-subunit	92.95
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	92.53
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	92.32
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	91.2
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	91.11
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	90.92
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	90.87
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	90.76
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	90.76
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	90.73
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	90.73
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.7
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.34
d2awna2	232	Maltose transport protein MalK, N-terminal domain	90.3
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	90.26
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	90.19
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	90.14
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.07
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	89.96
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	89.88
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	89.85
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	89.82
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	89.77
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	89.75
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	89.74
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	89.66
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	89.66
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.62
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	89.59
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	89.55
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	89.4
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	89.34
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	89.29
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	89.28
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	89.19
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	89.16
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	89.13
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.01
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	88.94
d1g2912	240	Maltose transport protein MalK, N-terminal domain	88.74
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	88.59
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	88.44
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	88.41
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	88.06
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	87.95
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	87.75
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	87.68
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	87.43
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	87.13
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	86.32
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	86.26
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	86.23
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	86.21
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	86.18
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	85.89
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	85.83
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	85.69
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	85.57
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	85.24
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	85.24
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	85.12
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	85.04
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	84.99
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	83.96
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	83.81
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	83.59
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	83.33
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	82.94
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	82.52
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	82.36
d1b34b_	93	D2 core SNRNP protein {Human (Homo sapiens) [TaxId	82.01
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	81.47
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	81.44
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	81.18
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	81.02
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	80.99
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	80.89
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	80.79
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	80.13

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.97  E-value=1.8e-30  Score=242.89  Aligned_cols=162  Identities=35%  Similarity=0.589  Sum_probs=152.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||++||+++.+...+.+|++.++..+.....+..+.+.+||++
T Consensus         2 ~iKv~liG~----------------------~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~   59 (164)
T d1z2aa1           2 AIKMVVVGN----------------------GAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTA   59 (164)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCT
T ss_pred             eEEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccC
Confidence            478999999                      9999999999999999999999999999999999999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..+...+++++|++++|||++++.||+.+..|+..+.+..+ ++|++|||||+|+..++++..+++.++++.+++
T Consensus        60 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~  138 (164)
T d1z2aa1          60 GQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKL  138 (164)
T ss_dssp             TGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHC-SCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTC
T ss_pred             CccchhhhhhhhhccCceEEEEEeccchhhhhhcccccccccccCC-CceEEEeeccCCcccceeeeehhhHHHHHHcCC
Confidence            9999999999999999999999999999999999999999987665 479999999999988888999999999999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +|+++||++|.||+++|+.|++++.
T Consensus       139 ~~~e~Sak~g~~v~e~f~~l~~~~l  163 (164)
T d1z2aa1         139 RFYRTSVKEDLNVSEVFKYLAEKHL  163 (164)
T ss_dssp             EEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             EEEEeccCCCcCHHHHHHHHHHHHh
Confidence            9999999999999999999998775

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=4.7e-30  Score=240.73  Aligned_cols=163  Identities=49%  Similarity=0.864  Sum_probs=146.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||++||+++.|...+.||.+.++..+.+..++..+.+.+||++
T Consensus         3 ~fKivlvG~----------------------~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~   60 (167)
T d1z08a1           3 SFKVVLLGE----------------------GCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTA   60 (167)
T ss_dssp             EEEEEEECC----------------------TTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECC
T ss_pred             eEEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccC
Confidence            479999999                      9999999999999999999999999999999999999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..+++.+++++|++|+|||+++++||+.+..|+..+........|++|||||+|+..+++++.+++.++++++++
T Consensus        61 g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~  140 (167)
T d1z08a1          61 GQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGA  140 (167)
T ss_dssp             CC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTC
T ss_pred             CcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999888776656679999999999988889999999999999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +|++|||++|.||+++|.+|++.+.
T Consensus       141 ~~~e~Sak~~~~v~e~F~~l~~~i~  165 (167)
T d1z08a1         141 KHYHTSAKQNKGIEELFLDLCKRMI  165 (167)
T ss_dssp             EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             eEEEEecCCCcCHHHHHHHHHHHHh
Confidence            9999999999999999999998875

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.5e-29  Score=238.15  Aligned_cols=165  Identities=39%  Similarity=0.678  Sum_probs=154.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|+++.|...+.++++.++..+.+.+.+..+++.+|||+
T Consensus         5 ~~Ki~lvG~----------------------~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~   62 (171)
T d2ew1a1           5 LFKIVLIGN----------------------AGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTA   62 (171)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEEC
T ss_pred             EEEEEEECC----------------------CCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECC
Confidence            379999999                      9999999999999999999999999999999999999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |+++|..+++.++++++++++|||++++.+|..+.+|+..+.+.....+|++|||||+|+...+++..+++..+++.+++
T Consensus        63 G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~  142 (171)
T d2ew1a1          63 GQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDM  142 (171)
T ss_dssp             CSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTC
T ss_pred             CchhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999998887767789999999999988788889999999999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++++|||++|.||+++|.+|++++...
T Consensus       143 ~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         143 YYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             EEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999999887653

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.97  E-value=1.7e-29  Score=237.36  Aligned_cols=163  Identities=32%  Similarity=0.580  Sum_probs=153.0

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+++|+++++...+.++.+.++..+.+......+.+++|||+|
T Consensus         6 ~Ki~vvG~----------------------~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G   63 (169)
T d3raba_           6 FKILIIGN----------------------SSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAG   63 (169)
T ss_dssp             EEEEEECS----------------------TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECC
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCC
Confidence            69999999                      99999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++++..+++.+++++|++|+|||++++.++..+.+|+..+........|++||+||+|+...+.+..+++..+++.++++
T Consensus        64 ~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~  143 (169)
T d3raba_          64 QERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFE  143 (169)
T ss_dssp             SGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCE
T ss_pred             chhhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCE
Confidence            99999999999999999999999999999999999998887777677899999999999888888899999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++|||++|.||+++|++|++.+.+
T Consensus       144 ~~e~Sak~g~gv~e~f~~l~~~i~e  168 (169)
T d3raba_         144 FFEASAKDNINVKQTFERLVDVICE  168 (169)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHT
T ss_pred             EEEecCCCCcCHHHHHHHHHHHHhh
Confidence            9999999999999999999988754

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.97  E-value=2.6e-29  Score=235.59  Aligned_cols=163  Identities=42%  Similarity=0.769  Sum_probs=153.5

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +.+||+++|+                      +|||||||++||+.++|...+.+|.+.++.......+.....+.+||+
T Consensus         3 k~~Ki~lvG~----------------------~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~   60 (167)
T d1z0ja1           3 RELKVCLLGD----------------------TGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDT   60 (167)
T ss_dssp             EEEEEEEECC----------------------TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEE
T ss_pred             ceeEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeec
Confidence            3578888888                      999999999999999999999999999998888888999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++.++++|+|||++++++|..+..|+..+........|++|||||+|+..++.+..+++.++++.++
T Consensus        61 ~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~  140 (167)
T d1z0ja1          61 AGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIH  140 (167)
T ss_dssp             CCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTT
T ss_pred             CCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999998888777788999999999998888899999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++|++|||++|.||+++|..|+++|
T Consensus       141 ~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         141 AIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             CEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             CEEEEEecCCCCCHHHHHHHHHHhC
Confidence            9999999999999999999998876

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.6e-29  Score=236.95  Aligned_cols=163  Identities=30%  Similarity=0.439  Sum_probs=150.1

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +.+||+|+|+                      +|||||||+++|+++.|...+.||++.++ .+.+.+++..+.+.+||+
T Consensus         3 k~~Kv~liG~----------------------~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~   59 (167)
T d1xtqa1           3 KSRKIAILGY----------------------RSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDT   59 (167)
T ss_dssp             EEEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEEC
T ss_pred             cceEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeeccc
Confidence            4579999999                      99999999999999999999999999874 567888999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|.+++..++..+++++|++|+|||++++.||+.+.+|+..+.+.. ...+|++|||||+|+..++.++.+++.++++++
T Consensus        60 ~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~  139 (167)
T d1xtqa1          60 AGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESW  139 (167)
T ss_dssp             CCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHH
T ss_pred             ccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999887654 456899999999999888889999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +++|++|||++|.||+++|+.|+..+.
T Consensus       140 ~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1         140 NAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             TCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            999999999999999999999988764

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2.6e-29  Score=237.20  Aligned_cols=168  Identities=30%  Similarity=0.470  Sum_probs=152.4

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      +.+.+||+++|+                      +|||||||++||+++.|...+.++.+ +...+.+.+++..+.+.+|
T Consensus         3 ~~~~~Kv~lvG~----------------------~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~   59 (173)
T d2fn4a1           3 PSETHKLVVVGG----------------------GGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDIL   59 (173)
T ss_dssp             SSCEEEEEEEEC----------------------TTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEE
T ss_pred             CCCeEEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeecc
Confidence            445689999999                      99999999999999999888888865 5567788899999999999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK  239 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~  239 (617)
                      |++|++++..++..+++++|++|+|||++++.||..+.+|+..+.+.. ...+|++|||||+|+...+.+..+++..+++
T Consensus        60 d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~  139 (173)
T d2fn4a1          60 DTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGA  139 (173)
T ss_dssp             ECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHH
T ss_pred             ccccccccccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHH
Confidence            999999999999999999999999999999999999999999886643 4568999999999998888888899999999


Q ss_pred             hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         240 SIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       240 ~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      .++++|++|||++|.||+++|+.|++.+.+..
T Consensus       140 ~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~  171 (173)
T d2fn4a1         140 SHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ  171 (173)
T ss_dssp             HTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             hcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999886643

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.9e-29  Score=235.48  Aligned_cols=153  Identities=36%  Similarity=0.662  Sum_probs=144.7

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||++||+++++...+.++++.+........++..+.+.+||++|++++..+++.++.++|++++|||++++.+|
T Consensus         9 ~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   88 (164)
T d1yzqa1           9 QSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSF   88 (164)
T ss_dssp             TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeeccccccch
Confidence            99999999999999999999999999998888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+.+|+..+.......+|++|||||+|+.+.+.+..+++.++++.++++|++|||++|.||+++|++|++.|
T Consensus        89 ~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l  161 (164)
T d1yzqa1          89 QQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL  161 (164)
T ss_dssp             HTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHS
T ss_pred             hhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhh
Confidence            9999999998877766789999999999988888888999999999999999999999999999999999876

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.96  E-value=2.2e-29  Score=236.86  Aligned_cols=154  Identities=28%  Similarity=0.457  Sum_probs=142.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.+...+.+|.+.. +.+.+.+++..+.+.+||++|++++..+++.+++++|++++|||++++.||
T Consensus        13 ~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf   91 (169)
T d1x1ra1          13 GGVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASF   91 (169)
T ss_dssp             TTSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccCcceeec-cccccccccccccccccccccccccccchhhhhhhccEEEEecccccchhh
Confidence            9999999999999999998999998865 466778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCC-CHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQ-GIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~-gI~eLf~~I~~~l~~  269 (617)
                      ..+.+|+..+.+.. ...+|+||||||+|+...+.++.+++.++++.++++|++|||+++. ||+++|..|++.+.+
T Consensus        92 ~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~~  168 (169)
T d1x1ra1          92 EHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  168 (169)
T ss_dssp             HTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             hccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHHHHHHHh
Confidence            99999999987654 4568999999999999888899999999999999999999999875 999999999998764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=4.5e-29  Score=233.73  Aligned_cols=161  Identities=38%  Similarity=0.676  Sum_probs=152.5

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||++||+++++...+.++.+.++....+.+++..+.+.+||++|
T Consensus         5 ~KivlvG~----------------------~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g   62 (166)
T d1z0fa1           5 FKYIIIGD----------------------MGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAG   62 (166)
T ss_dssp             EEEEEECS----------------------TTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTT
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCC
Confidence            79999999                      99999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++++..++..+++++|++|+|||+++++||..+..|+..+.+......|+++||||+|+.....+..+++..+++.++++
T Consensus        63 ~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~  142 (166)
T d1z0fa1          63 QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLL  142 (166)
T ss_dssp             GGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCE
T ss_pred             chhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCE
Confidence            99999999999999999999999999999999999999998877777899999999999888888888999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++|||++|.||+++|+.|++.+
T Consensus       143 ~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         143 FLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999998875

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.96  E-value=2.9e-29  Score=235.86  Aligned_cols=154  Identities=32%  Similarity=0.528  Sum_probs=139.3

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+.++|...+.||++.++ .+.+.+++..+.+.+||++|++++..+++.+++++|++|+|||++++.+|
T Consensus        13 ~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   91 (168)
T d1u8za_          13 GGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESF   91 (168)
T ss_dssp             TTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeEEEeeccchhhh
Confidence            99999999999999999999999999775 56677899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+..|+..+.+.. ..++|++|||||+|+...+++..+++..+++.++++|++|||++|.||+++|++|++.+..
T Consensus        92 ~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_          92 AATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHC
Confidence            99999999987754 3568999999999998888899999999999999999999999999999999999988753

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=6.7e-29  Score=233.23  Aligned_cols=155  Identities=24%  Similarity=0.311  Sum_probs=126.1

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|.+..+. .+.++.+.. +.+.+.+++..+.+.+||++|++++..+++.+++++|++|+|||++++.||
T Consensus        10 ~~vGKTsLi~~~~~~~~~-~~~~~~~~~-~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~   87 (168)
T d2gjsa1          10 PGVGKSALARIFGGVEDG-PEAEAAGHT-YDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSF   87 (168)
T ss_dssp             TTSSHHHHHHHHHTC----------CEE-EEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHhCCccC-CcCCeeeee-ecceeeccccccceeeeecccccccceecccchhhhhhhceeccccccccc
Confidence            999999999999988753 344555544 567788899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +.+..|+..+.... ...+|++|||||+|+...+++..+++.++++.++++|++|||++|.||+++|+.|++.+..+.
T Consensus        88 ~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~  165 (168)
T d2gjsa1          88 EKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRR  165 (168)
T ss_dssp             HHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            99999999987754 356899999999999888889999999999999999999999999999999999998886543

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2.3e-29  Score=236.57  Aligned_cols=161  Identities=27%  Similarity=0.422  Sum_probs=145.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||++||+++.|...+.||++..+ .....+++..+.+.+||++
T Consensus         2 ~~Ki~viG~----------------------~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~   58 (171)
T d2erxa1           2 DYRVAVFGA----------------------GGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTT   58 (171)
T ss_dssp             EEEEEEECC----------------------TTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECC
T ss_pred             CeEEEEECC----------------------CCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceecccccc
Confidence            579999999                      99999999999999999999999999664 5566788999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC--CCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV--DEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~--~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      |++++...+..+++++|++|+|||++++++|..+..|+..+.+..  ...+|++|||||+|+..++++..+++.++++.+
T Consensus        59 g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~  138 (171)
T d2erxa1          59 GSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTW  138 (171)
T ss_dssp             SCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHH
T ss_pred             ccccccccccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHc
Confidence            999999999999999999999999999999999999998876543  356899999999999888889999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++|++|||++|.||+++|+.|++.+
T Consensus       139 ~~~~~e~Sak~~~~v~e~f~~l~~~~  164 (171)
T d2erxa1         139 KCAFMETSAKLNHNVKELFQELLNLE  164 (171)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             CCeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            99999999999999999999988754

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.4e-28  Score=232.13  Aligned_cols=167  Identities=37%  Similarity=0.665  Sum_probs=151.7

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||++||+++++...+.++.+.+.........+..+.+.+||++|
T Consensus         4 ~KivvvG~----------------------~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g   61 (173)
T d2a5ja1           4 FKYIIIGD----------------------TGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG   61 (173)
T ss_dssp             EEEEEESS----------------------TTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTT
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccC
Confidence            68999999                      99999999999999999989999998888888888899999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++.+..+++.+++.+|++|+|||++++.+|+.+.+|+..+.+....++|++||+||+|+...+.+..+++..+++.++++
T Consensus        62 ~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~  141 (173)
T d2a5ja1          62 QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLI  141 (173)
T ss_dssp             GGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCE
T ss_pred             ccchhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCE
Confidence            99999999999999999999999999999999999999998877778999999999999888888889999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHHhhhc
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLICLSQE  273 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~~~~~  273 (617)
                      |++|||++|.||+++|..|++.+.++.++
T Consensus       142 ~~e~Sa~tg~~V~e~f~~i~~~i~~~~~~  170 (173)
T d2a5ja1         142 FMETSAKTACNVEEAFINTAKEIYRKIQQ  170 (173)
T ss_dssp             EEEECTTTCTTHHHHHHHHHHHHHHHHHT
T ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999998876543

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=8.8e-29  Score=232.85  Aligned_cols=165  Identities=28%  Similarity=0.500  Sum_probs=146.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +++||+++|+                      +|||||||++||+++.|...+.||.+. ...+.+.+++..+.+.+||+
T Consensus         4 ~~~Ki~lvG~----------------------~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~~~d~   60 (171)
T d2erya1           4 EKYRLVVVGG----------------------GGVGKSALTIQFIQSYFVTDYDPTIED-SYTKQCVIDDRAARLDILDT   60 (171)
T ss_dssp             CEEEEEEEEC----------------------TTSSHHHHHHHHHHSCCCSSCCTTCCE-EEEEEEEETTEEEEEEEEEC
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHHhCCCCcccCccccc-ceeeeeeecccccccccccc
Confidence            4589999999                      999999999999999999899999875 46778889999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhc
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSI  241 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~  241 (617)
                      +|.+++..++..+++.+|++++|||++++.||..+..|+..+.+.. ...+|+|||+||+|+..++.+..+++.++++.+
T Consensus        61 ~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~  140 (171)
T d2erya1          61 AGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQL  140 (171)
T ss_dssp             C----CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHT
T ss_pred             cccccccccccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999998876543 356899999999999888889999999999999


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +++|++|||++|.||+++|..|++.+.+.
T Consensus       141 ~~~~~e~Sak~~~~i~e~f~~l~~~i~k~  169 (171)
T d2erya1         141 KVTYMEASAKIRMNVDQAFHELVRVIRKF  169 (171)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            99999999999999999999999987543

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.5e-28  Score=231.80  Aligned_cols=167  Identities=37%  Similarity=0.631  Sum_probs=155.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|+.+++...+.++.+.++....+..++..+.+.+|||+
T Consensus         5 ~~KI~lvG~----------------------~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~   62 (174)
T d2bmea1           5 LFKFLVIGN----------------------AGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTA   62 (174)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEEC
T ss_pred             EEEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECC
Confidence            379999999                      9999999999999999999999999999888888889999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..+++.+++++|++|+|||++++.+|..+..|+..+.+....++|++||+||+|+..+.++..+.+..+++.+++
T Consensus        63 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~  142 (174)
T d2bmea1          63 GQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENEL  142 (174)
T ss_dssp             CSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTC
T ss_pred             CchhhhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999887777799999999999988888888888999999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHhhh
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICLSQ  272 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~~~  272 (617)
                      +|++|||++|.||+++|.+|++.+....+
T Consensus       143 ~~~e~Sak~~~gi~e~f~~l~~~i~~~~~  171 (174)
T d2bmea1         143 MFLETSALTGENVEEAFVQCARKILNKIE  171 (174)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             EEEEeeCCCCcCHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999876543

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.5e-28  Score=231.08  Aligned_cols=153  Identities=42%  Similarity=0.749  Sum_probs=145.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++++|...+.++.+.++...........+.+.+||++|++++..+++.+++++|++|+|||++++.+|
T Consensus        15 ~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   94 (170)
T d1r2qa_          15 SAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESF   94 (170)
T ss_dssp             TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             CCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHH
Confidence            99999999999999999999999999999888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       195 ~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+..|+..+.+....++|++||+||+|+..++.++.+++..+++.++++|++|||++|.||+++|+.|++.|
T Consensus        95 ~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~~i  167 (170)
T d1r2qa_          95 ARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             HHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             HHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHHHHH
Confidence            9999999998877777799999999999988888999999999999999999999999999999999998765

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=8.1e-29  Score=232.04  Aligned_cols=162  Identities=32%  Similarity=0.527  Sum_probs=147.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||++||+++.|...+.++++. .+.+...+++..+.+.+||++
T Consensus         3 ~~Ki~lvG~----------------------~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~~~d~~   59 (167)
T d1kaoa_           3 EYKVVVLGS----------------------GGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTA   59 (167)
T ss_dssp             EEEEEEECC----------------------TTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECC
T ss_pred             eeEEEEECC----------------------CCcCHHHHHHHHHhCCCCCccCCceee-eeeeeeecCcceEeeccccCC
Confidence            468888888                      999999999999999999999999884 467778889999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      |++.+..++..+++++|++++|||++++.+|..+.+|+..+.... ..++|++|||||+|+...+.+..+++..+++.++
T Consensus        60 g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~  139 (167)
T d1kaoa_          60 GTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWG  139 (167)
T ss_dssp             CTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHT
T ss_pred             CccccccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcC
Confidence            999999999999999999999999999999999999998887654 3568999999999998888888899999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++|++|||++|.||+++|+.|++++.
T Consensus       140 ~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         140 CPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             SCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            99999999999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=3.3e-28  Score=229.85  Aligned_cols=165  Identities=38%  Similarity=0.661  Sum_probs=151.4

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||++||+++++...+.++.+.+...+.+.+++..+.+.+||++|
T Consensus         5 ~Ki~vvG~----------------------~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g   62 (175)
T d2f9la1           5 FKVVLIGD----------------------SGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAG   62 (175)
T ss_dssp             EEEEEESS----------------------TTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSS
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCC
Confidence            69999999                      99999999999999999999999999888888899999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      +++|..++..+++.+|++|+|||++++.||..+.+|+..+.++...++|++|||||+|+.+.+....+....++..++.+
T Consensus        63 ~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~  142 (175)
T d2f9la1          63 QERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLS  142 (175)
T ss_dssp             GGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCE
T ss_pred             cHHHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCce
Confidence            99999999999999999999999999999999999999998888778999999999999877777777788889999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++|||++|.||+++|++|++.+.+..
T Consensus       143 ~~e~Sa~~g~~i~e~f~~l~~~i~~~~  169 (175)
T d2f9la1         143 FIETSALDSTNVEEAFKNILTEIYRIV  169 (175)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999887654

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2.1e-28  Score=231.49  Aligned_cols=162  Identities=27%  Similarity=0.450  Sum_probs=141.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      +.||+|+|+                      +|||||||+++|+.+.|...+.||++. ...+...+++..+.+.+||++
T Consensus         2 r~KivvvG~----------------------~~vGKTsLi~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~   58 (177)
T d1kmqa_           2 RKKLVIVGD----------------------GACGKTCLLIVNSKDQFPEVYVPTVFE-NYVADIEVDGKQVELALWDTA   58 (177)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEEETTEEEEEEEEEEC
T ss_pred             cEEEEEECC----------------------CCcCHHHHHHHHHhCCCCCCcCCceee-eccccccccccceeeeccccC
Confidence            468999999                      999999999999999999999999884 456677888999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc------------cccCH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS------------REVNR  231 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v~~  231 (617)
                      |++.|..+++.|++++|++|+|||++++.||+.+.+|+..+......++|++|||||+|+...            +.+..
T Consensus        59 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~  138 (177)
T d1kmqa_          59 GLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKP  138 (177)
T ss_dssp             CSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCH
T ss_pred             ccchhcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccH
Confidence            999999999999999999999999999999999876544443333456899999999999643            45778


Q ss_pred             HHHHHHHHhcCC-eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSIGG-TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       232 ~e~~~~~~~~g~-~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +++..++++++. +|+||||++|.||+++|+.|++.++
T Consensus       139 ~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         139 EEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             HHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            889999999985 8999999999999999999988764

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.9e-28  Score=233.88  Aligned_cols=161  Identities=29%  Similarity=0.529  Sum_probs=142.1

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      -+||+++|+                      +|||||||++||+.+.|...+.+|++.. ..+.+...+..+.+.+||++
T Consensus         9 ~~Ki~lvG~----------------------~~vGKTsLi~r~~~~~f~~~~~~Ti~~~-~~~~~~~~~~~~~l~i~D~~   65 (185)
T d2atxa1           9 MLKCVVVGD----------------------GAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTA   65 (185)
T ss_dssp             EEEEEEEEC----------------------TTSSHHHHHHHHHHSSCCCSCCCSSCCC-EEEEEESSSCEEEEEEECCC
T ss_pred             EEEEEEECC----------------------CCCCHHHHHHHHhhCCCCCcCCCceeee-eeEEEeeCCceEEeeccccc
Confidence            479999999                      9999999999999999999999999854 56677788889999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHH-HHHHHHhcCCCCCeEEEEEECCCCCC------------ccccC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLES------------SREVN  230 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~-~l~~i~~~~~~~iPvIlVgNK~DL~~------------~~~v~  230 (617)
                      |++++..++..+++++|++|+|||+++++||+.+.. |+..+.... .++|++||+||+|+.+            .+.++
T Consensus        66 g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~  144 (185)
T d2atxa1          66 GQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPIC  144 (185)
T ss_dssp             CSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCC
T ss_pred             ccchhhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcC-CCCCeeEeeeccccccchhhhhhhhhccccccc
Confidence            999999999999999999999999999999998765 555555544 4689999999999864            35678


Q ss_pred             HHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         231 REEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       231 ~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      .+++.++++.++ +.|+||||++|.||+++|+.+++.++
T Consensus       145 ~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         145 VEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             HHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHc
Confidence            899999999988 69999999999999999999988774

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=1.9e-28  Score=230.01  Aligned_cols=163  Identities=28%  Similarity=0.468  Sum_probs=144.0

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||++||+++.|...+.||++.++. ..+..++..+.+.+||++
T Consensus         2 eiKi~lvG~----------------------~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~   58 (168)
T d2atva1           2 EVKLAIFGR----------------------AGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTA   58 (168)
T ss_dssp             CEEEEEECC----------------------TTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECC
T ss_pred             cEEEEEECC----------------------CCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecc
Confidence            479999999                      999999999999999999999999998864 445678889999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      |.+.+. .+..++++++++++|||++++.+|..+..|+..+... ...++|++|||||+|+..++.++.+++.+++++++
T Consensus        59 g~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~  137 (168)
T d2atva1          59 GQEDTI-QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELA  137 (168)
T ss_dssp             CCCCCH-HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHT
T ss_pred             cccccc-cchhhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhC
Confidence            998774 5677899999999999999999999999887665443 33568999999999998888899999999999999


Q ss_pred             CeEEEEcCCCCC-CHHHHHHHHHHHHHHh
Q psy3029         243 GTYYETSALQDQ-GIEDVFLNVSKGLICL  270 (617)
Q Consensus       243 ~~~~evSAktg~-gI~eLf~~I~~~l~~~  270 (617)
                      ++|++|||++|. ||+++|..|++.+.++
T Consensus       138 ~~~~e~Saktg~gnV~e~F~~l~~~i~~~  166 (168)
T d2atva1         138 CAFYECSACTGEGNITEIFYELCREVRRR  166 (168)
T ss_dssp             SEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEccccCCcCHHHHHHHHHHHHHHh
Confidence            999999999998 5999999999988654

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=2.4e-28  Score=229.49  Aligned_cols=162  Identities=44%  Similarity=0.803  Sum_probs=150.1

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|++++|...+.+|+|.++..+.+...+..+.+.+||++
T Consensus         3 ~iKi~vvG~----------------------~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~   60 (170)
T d1ek0a_           3 SIKLVLLGE----------------------AAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTA   60 (170)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEEC
T ss_pred             EEEEEEECC----------------------CCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccC
Confidence            478999999                      9999999999999999999999999999999999999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC---ccccCHHHHHHHHHh
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES---SREVNREEAFHYSKS  240 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~---~~~v~~~e~~~~~~~  240 (617)
                      |++++..+++.++..+|++|+|||++++.||+.+..|+..+........|+++|+||+|+..   .+.+..+++.++++.
T Consensus        61 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~  140 (170)
T d1ek0a_          61 GQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEE  140 (170)
T ss_dssp             CSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHH
Confidence            99999999999999999999999999999999999999887777666789999999999853   367888999999999


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ++++|++|||++|.||+++|..|+++|
T Consensus       141 ~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         141 KGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             cCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            999999999999999999999987754

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=3.4e-28  Score=227.91  Aligned_cols=161  Identities=27%  Similarity=0.519  Sum_probs=145.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||++||+.++|...+.++++..+ .+.+..++..+.+.+||++
T Consensus         3 ~~KivvvG~----------------------~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~   59 (167)
T d1c1ya_           3 EYKLVVLGS----------------------GGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTA   59 (167)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEEC
T ss_pred             eeEEEEECC----------------------CCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEecccccc
Confidence            468888888                      99999999999999999999999998765 5566778899999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhc-
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSI-  241 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~-  241 (617)
                      |++.+..+++.+++++|++|+|||++++.||+.+..|+..+.+.. ...+|++|||||+|+...+.+..+++..+++++ 
T Consensus        60 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~  139 (167)
T d1c1ya_          60 GTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWC  139 (167)
T ss_dssp             SSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTT
T ss_pred             CcccccccccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhC
Confidence            999999999999999999999999999999999999999887643 456899999999999888888888888998874 


Q ss_pred             CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         242 GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       242 g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +++|++|||++|.||+++|++|++.+
T Consensus       140 ~~~~~e~Sak~g~gv~e~F~~l~~~i  165 (167)
T d1c1ya_         140 NCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             SCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCcCHHHHHHHHHHHh
Confidence            68999999999999999999999876

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=9.7e-28  Score=230.64  Aligned_cols=164  Identities=34%  Similarity=0.642  Sum_probs=154.6

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+|+|+                      +|||||||+++|+++.+...+.+|.+.++....+.+.+..+.+.+|||+|
T Consensus         7 ~KivvvG~----------------------~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G   64 (194)
T d2bcgy1           7 FKLLLIGN----------------------SGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAG   64 (194)
T ss_dssp             EEEEEEES----------------------TTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTT
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCC
Confidence            68999999                      99999999999999999999999999999888999999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++++..++..++++++++|+|||++++.+|..+..|+..+.+.....+|++||+||+|+.+...+..++...+++..++.
T Consensus        65 ~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~  144 (194)
T d2bcgy1          65 QERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMP  144 (194)
T ss_dssp             TTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCC
T ss_pred             chhhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcc
Confidence            99999999999999999999999999999999999988888777777899999999999988889999999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      |+++||++|.||+++|+.|++.+...
T Consensus       145 ~~e~SAk~g~gi~e~f~~l~~~i~~~  170 (194)
T d2bcgy1         145 FLETSALDSTNVEDAFLTMARQIKES  170 (194)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             eEEEecCcCccHHHHHHHHHHHHHHH
Confidence            99999999999999999999888754

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.96  E-value=1.8e-28  Score=231.28  Aligned_cols=165  Identities=33%  Similarity=0.630  Sum_probs=125.3

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+++|+++.+...+.++++.++..+.+.+++..+.+.+|||+|
T Consensus         7 ~Ki~vvG~----------------------~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G   64 (173)
T d2fu5c1           7 FKLLLIGD----------------------SGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAG   64 (173)
T ss_dssp             EEEEEECC----------------------CCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC--
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCC
Confidence            68999999                      99999999999999998888889999999999999999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      ++.+..+++.+++.+|++|+|||++++.||..+..|+..+.......+|+++|+||+|+...+....+++..++...+++
T Consensus        65 ~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~  144 (173)
T d2fu5c1          65 QERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIK  144 (173)
T ss_dssp             -------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCE
T ss_pred             chhhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCE
Confidence            99999999999999999999999999999999999999988777777899999999999888888888888999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      |++|||++|.||+++|++|++.+..+.
T Consensus       145 ~~e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         145 FMETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             EEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            999999999999999999999887654

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2.8e-29  Score=236.35  Aligned_cols=161  Identities=28%  Similarity=0.534  Sum_probs=141.8

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      ++||+++|+                      +|||||||+++|+++.|...+.||+|.++..+.+..++..+.+.+||++
T Consensus         3 ~~Ki~vvG~----------------------~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~   60 (170)
T d1i2ma_           3 QFKLVLVGD----------------------GGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTA   60 (170)
T ss_dssp             EEEEEEEEC----------------------TTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECT
T ss_pred             eEEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccc
Confidence            368999999                      9999999999999999999999999999999998889999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      |++++..+++.+++++|++++|||++++.||+.+.+|+..+.+... ++|++|||||+|+...+..  ++...++...++
T Consensus        61 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~-~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~  137 (170)
T d1i2ma_          61 GQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNL  137 (170)
T ss_dssp             THHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHC-SCCEEEEEECCCCSCSCCT--TTSHHHHSSCSS
T ss_pred             cccccceecchhcccccchhhccccccccccchhHHHHHHHhhccC-CCceeeecchhhhhhhhhh--hHHHHHHHHcCC
Confidence            9999999999999999999999999999999999999999887654 5899999999999765433  345578889999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +|++|||++|.||+++|++|++.+..
T Consensus       138 ~~~e~Sak~~~~v~e~f~~l~~~l~~  163 (170)
T d1i2ma_         138 QYYDISAKSNYNFEKPFLWLARKLIG  163 (170)
T ss_dssp             EEEEEBTTTTBTTTHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            99999999999999999999998864

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.1e-27  Score=225.15  Aligned_cols=163  Identities=39%  Similarity=0.630  Sum_probs=142.4

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCC-ccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~-~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      .+||+++|+                      +|||||||+++|+++++.. .+.++++.++....+...+..+.+.||||
T Consensus         6 ~fKi~vvG~----------------------~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt   63 (170)
T d2g6ba1           6 AFKVMLVGD----------------------SGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDT   63 (170)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEEC
T ss_pred             EEEEEEECC----------------------CCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEEC
Confidence            478999999                      9999999999999988754 45677888988888999999999999999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      +|++++..++..+++++|++++|||++++.++..+..|+..+........|++||+||+|+.....+..+++..+++.++
T Consensus        64 ~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~  143 (170)
T d2g6ba1          64 AGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYG  143 (170)
T ss_dssp             CCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHT
T ss_pred             CCchhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999988877776678999999999999888899999999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ++|++|||++|.||+++|++|++.|.
T Consensus       144 ~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         144 LPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             CCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            99999999999999999999998774

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=4.9e-28  Score=230.73  Aligned_cols=167  Identities=37%  Similarity=0.592  Sum_probs=149.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECC----------e
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE----------N  153 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~----------~  153 (617)
                      .+||+++|+                      +|||||||+++|+++++...+.++.+.++..+.+..++          .
T Consensus         5 ~~Ki~ivG~----------------------~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~   62 (186)
T d2f7sa1           5 LIKLLALGD----------------------SGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAF   62 (186)
T ss_dssp             EEEEEEESC----------------------TTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEE
T ss_pred             EEEEEEECC----------------------CCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccc
Confidence            378999999                      99999999999999999999999998888777766533          3


Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHH
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      .+.+.+|||+|+++|..+++.+++++|++|+|||++++.+|+.+..|+..+.... ...+|++||+||+|+...+++..+
T Consensus        63 ~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~  142 (186)
T d2f7sa1          63 KVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNER  142 (186)
T ss_dssp             EEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHH
T ss_pred             eEEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHH
Confidence            5789999999999999999999999999999999999999999999998876543 355799999999999888899999


Q ss_pred             HHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhhh
Q psy3029         233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLSQ  272 (617)
Q Consensus       233 e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~~  272 (617)
                      ++.++++.++++|++|||++|.||+++|++|++.+.++.+
T Consensus       143 e~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~~  182 (186)
T d2f7sa1         143 QARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRME  182 (186)
T ss_dssp             HHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999998876553

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.95  E-value=1.8e-27  Score=222.49  Aligned_cols=162  Identities=37%  Similarity=0.691  Sum_probs=144.0

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+++|+++++...+.+|++.++..+.+.+++..+.+.+|||+|
T Consensus         3 ~Ki~vvG~----------------------~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G   60 (166)
T d1g16a_           3 MKILLIGD----------------------SGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAG   60 (166)
T ss_dssp             EEEEEEES----------------------TTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTT
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCC
Confidence            68999999                      99999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCe
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGT  244 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~  244 (617)
                      +++|..+++.+++++|++|+|||++++.+|+.+..|+..+........|++++++|.|+.. +....+++..+++.++++
T Consensus        61 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~  139 (166)
T d1g16a_          61 QERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIP  139 (166)
T ss_dssp             GGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCC
T ss_pred             chhhHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCe
Confidence            9999999999999999999999999999999999998888887777789999999999854 556778899999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         245 YYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       245 ~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++|||++|.||+++|++|++.+.+
T Consensus       140 ~~~~Sa~~~~~v~e~f~~l~~~i~~  164 (166)
T d1g16a_         140 FIESSAKNDDNVNEIFFTLAKLIQE  164 (166)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999999988765

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.4e-27  Score=228.92  Aligned_cols=163  Identities=25%  Similarity=0.407  Sum_probs=141.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||++||+.+.|...+.||++.. .......++..+.+.+||++
T Consensus         3 ~iKvvllG~----------------------~~vGKTSli~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D~~   59 (191)
T d2ngra_           3 TIKCVVVGD----------------------GAVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIGGEPYTLGLFDTA   59 (191)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSSCCCCSEEE-EEEEEEETTEEEEEEEEEEC
T ss_pred             ceEEEEECC----------------------CCcCHHHHHHHHHhCCCCCCcCCceeee-cceeEeeCCceeeeeccccc
Confidence            579999999                      9999999999999999999999999855 56667788899999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc------------cccCH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS------------REVNR  231 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~v~~  231 (617)
                      |+++|..+++.+++++|++++|||+++++||+.+.+|+..+......++|+++|+||+|+...            +.+..
T Consensus        60 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~  139 (191)
T d2ngra_          60 GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITP  139 (191)
T ss_dssp             CSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCH
T ss_pred             cchhhhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccH
Confidence            999999999999999999999999999999999986544444434456899999999998532            45788


Q ss_pred             HHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       232 ~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      +++.+++..++ ++|+||||++|.||+++|+.|+..+.+
T Consensus       140 ~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~~  178 (191)
T d2ngra_         140 ETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALE  178 (191)
T ss_dssp             HHHHHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHhc
Confidence            89999998865 699999999999999999999887654

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.2e-27  Score=227.55  Aligned_cols=163  Identities=28%  Similarity=0.556  Sum_probs=141.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ++.+||+|+|+                      +|||||||++||+.+.|...+.+|++.. ..+.+..++..+.+.+||
T Consensus         3 p~~iKivviG~----------------------~~vGKTsli~~~~~~~f~~~~~~ti~~~-~~~~~~~~~~~~~~~~~d   59 (183)
T d1mh1a_           3 PQAIKCVVVGD----------------------GAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWD   59 (183)
T ss_dssp             CEEEEEEEECS----------------------TTSSHHHHHHHHHHSSCCSSCCCCSCCE-EEEEEEETTEEEEEEEEC
T ss_pred             ceeEEEEEECC----------------------CCCCHHHHHHHHHhCCCCcccccceeec-eeeeeeccCcceEEEeec
Confidence            45689999999                      9999999999999999999999999854 566777899999999999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHH-HHHHHHhcCCCCCeEEEEEECCCCCCc------------cc
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKT-WVKELKRNVDEPLVLCVVGNKTDLESS------------RE  228 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~-~l~~i~~~~~~~iPvIlVgNK~DL~~~------------~~  228 (617)
                      ++|++.+..++..+++++|++|+|||++++.||+.+.. |+..+..+. .++|++||+||+|+..+            +.
T Consensus        60 ~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~  138 (183)
T d1mh1a_          60 TAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTP  138 (183)
T ss_dssp             CCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCC
T ss_pred             ccccccchhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHhC-CCCcEEEEeecccchhhhhhhhhhhhccccc
Confidence            99999999999999999999999999999999999976 555555544 45899999999998543            23


Q ss_pred             cCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         229 VNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       229 v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +...++..+++.++ ++|+||||++|.||+++|+.|++.++
T Consensus       139 ~~~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         139 ITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             CCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             hhhHHHHHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHc
Confidence            45667888888887 69999999999999999999998774

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=2.2e-27  Score=222.12  Aligned_cols=160  Identities=33%  Similarity=0.532  Sum_probs=144.9

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||++||+++.+...+.++++.++. ..+...+..+.+.+||++|
T Consensus         4 ~Ki~viG~----------------------~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~   60 (166)
T d1ctqa_           4 YKLVVVGA----------------------GGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAG   60 (166)
T ss_dssp             EEEEEEES----------------------TTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECC
T ss_pred             eEEEEECC----------------------CCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccC
Confidence            68888888                      999999999999999999999999998754 4566788899999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      ++.+...++.+++.++++++|||++++.+|+.+.+|+..+.+... ..+|++||+||+|+. .+.+..+++.++++.+++
T Consensus        61 ~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~  139 (166)
T d1ctqa_          61 QEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGI  139 (166)
T ss_dssp             CGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCS-CCCSCHHHHHHHHHHHTC
T ss_pred             ccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccc-cccccHHHHHHHHHHhCC
Confidence            999999999999999999999999999999999999999877543 458999999999985 466778899999999999


Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +|++|||++|.||+++|..|++.+.
T Consensus       140 ~~~e~Sak~g~gi~e~f~~i~~~i~  164 (166)
T d1ctqa_         140 PYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             eEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            9999999999999999999998774

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=2.9e-27  Score=222.85  Aligned_cols=162  Identities=23%  Similarity=0.351  Sum_probs=140.1

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC-CccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~-~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      +||+++|+                      +|||||||+++|++..+. ....++.+.+++.+.+.+++..+.+.+||++
T Consensus         4 ~Kv~lvG~----------------------~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~   61 (172)
T d2g3ya1           4 YRVVLIGE----------------------QGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMW   61 (172)
T ss_dssp             EEEEEECC----------------------TTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCT
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccc
Confidence            68999999                      999999999999987654 3455778888889999999999999999976


Q ss_pred             ---CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHH
Q psy3029         164 ---GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSK  239 (617)
Q Consensus       164 ---G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~  239 (617)
                         |+++|  +...+++++|++|+|||++++.||+.+.+|+..+.... ..++|++||+||+|+..+++++.+++.++++
T Consensus        62 ~~~g~e~~--~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~  139 (172)
T d2g3ya1          62 ENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAV  139 (172)
T ss_dssp             TTTHHHHH--HHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHH
T ss_pred             cccccccc--cccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHH
Confidence               45555  56778999999999999999999999999999887643 3568999999999998888899999999999


Q ss_pred             hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         240 SIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       240 ~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      .++++|++|||++|.||+++|+.|++.+...
T Consensus       140 ~~~~~~~e~Sak~g~~i~~~f~~l~~~i~~r  170 (172)
T d2g3ya1         140 VFDCKFIETSAAVQHNVKELFEGIVRQVRLR  170 (172)
T ss_dssp             HHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HcCCeEEEEeCCCCcCHHHHHHHHHHHHHHc
Confidence            9999999999999999999999999988653

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.95  E-value=4.3e-27  Score=223.30  Aligned_cols=163  Identities=26%  Similarity=0.476  Sum_probs=141.2

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      ++||+++|+                      +|||||||++||+.+.|...+.||++.. ..+.+.+++..+.+.+||++
T Consensus         2 ~~KivliG~----------------------~~vGKTsli~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~~~i~D~~   58 (179)
T d1m7ba_           2 KCKIVVVGD----------------------SQCGKTALLHVFAKDCFPENYVPTVFEN-YTASFEIDTQRIELSLWDTS   58 (179)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHHSCCCSSCCCCSEEE-EEEEEECSSCEEEEEEEEEC
T ss_pred             ceEEEEECC----------------------CCcCHHHHHHHHHhCCCCCccCCceeec-ccccccccceEEeecccccc
Confidence            468889998                      9999999999999999999999998754 55667788899999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCC------------ccccCH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLES------------SREVNR  231 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~------------~~~v~~  231 (617)
                      |++.+..+++.+++++|++|+|||+++++||+.+..|+..+......++|++|||||+|+..            .+.++.
T Consensus        59 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~  138 (179)
T d1m7ba_          59 GSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSY  138 (179)
T ss_dssp             CSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCH
T ss_pred             ccccccccccchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchH
Confidence            99999999999999999999999999999999988755554443344689999999999853            355788


Q ss_pred             HHHHHHHHhcCC-eEEEEcCCCCCC-HHHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSIGG-TYYETSALQDQG-IEDVFLNVSKGLIC  269 (617)
Q Consensus       232 ~e~~~~~~~~g~-~~~evSAktg~g-I~eLf~~I~~~l~~  269 (617)
                      +++..++++++. .|+||||++|.+ |+++|+.++..+.+
T Consensus       139 ~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         139 DQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             HHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            899999999875 899999999984 99999999988754

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=1.7e-26  Score=218.40  Aligned_cols=164  Identities=36%  Similarity=0.684  Sum_probs=150.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|+++++...+.++.+.++..+.+.+++..+.+.+|||+
T Consensus         7 ~iKi~vvG~----------------------~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~   64 (177)
T d1x3sa1           7 TLKILIIGE----------------------SGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTA   64 (177)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEEC
T ss_pred             eeEEEEECC----------------------CCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECC
Confidence            479999999                      9999999999999999999999999998888889999999999999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCC-CCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVD-EPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~-~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      |++++..+++.+++++|++|+|||++++.++..+..|+..+.+... ...|+++++||.|+. ++.+..+++.++++.++
T Consensus        65 G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~-~~~v~~~~~~~~~~~~~  143 (177)
T d1x3sa1          65 GQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHS  143 (177)
T ss_dssp             SSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTT
T ss_pred             CchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccc-cccccHHHHHHHHHHCC
Confidence            9999999999999999999999999999999999999999877543 457999999999974 46788889999999999


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      ++++++||++|.||+++|++|++.+.+.
T Consensus       144 ~~~~e~Sa~tg~gv~e~f~~l~~~l~~~  171 (177)
T d1x3sa1         144 MLFIEASAKTCDGVQCAFEELVEKIIQT  171 (177)
T ss_dssp             CEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            9999999999999999999999988753

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.94  E-value=7.9e-27  Score=217.64  Aligned_cols=157  Identities=34%  Similarity=0.640  Sum_probs=143.3

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||++||+.+++...+.++.+..+..+...+......+.+||++|
T Consensus         3 ~Kv~liG~----------------------~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   60 (165)
T d1z06a1           3 FKIIVIGD----------------------SNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAG   60 (165)
T ss_dssp             EEEEEECC----------------------TTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCC
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccC
Confidence            68999999                      99999999999999999999999999998888999999999999999999


Q ss_pred             cccccc-cchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC
Q psy3029         165 QERFRS-MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG  242 (617)
Q Consensus       165 ~e~~~~-~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g  242 (617)
                      ...+.. .++.|++++|++|+|||++++.||+.+..|+..+.+.. ..++|++|||||+|+..+++++.+++.++++.++
T Consensus        61 ~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~  140 (165)
T d1z06a1          61 QERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHS  140 (165)
T ss_dssp             SHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTT
T ss_pred             chhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCC
Confidence            877654 56789999999999999999999999999999987754 3568999999999998888899999999999999


Q ss_pred             CeEEEEcCCC---CCCHHHHHHHH
Q psy3029         243 GTYYETSALQ---DQGIEDVFLNV  263 (617)
Q Consensus       243 ~~~~evSAkt---g~gI~eLf~~I  263 (617)
                      ++|++|||++   +.||+++|++|
T Consensus       141 ~~~~e~SAkt~~~~~~V~e~F~~l  164 (165)
T d1z06a1         141 MPLFETSAKNPNDNDHVEAIFMTL  164 (165)
T ss_dssp             CCEEECCSSSGGGGSCHHHHHHHH
T ss_pred             CEEEEEecccCCcCcCHHHHHHHh
Confidence            9999999997   56999999887

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.8e-26  Score=217.48  Aligned_cols=153  Identities=35%  Similarity=0.649  Sum_probs=136.0

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|++++|...+.+|++..+..+.+...+..+.+.+||++|..++......++..++++++|||++++.||
T Consensus        15 ~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~   94 (174)
T d1wmsa_          15 GGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSF   94 (174)
T ss_dssp             TTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeeccccc
Confidence            99999999999999999999999999998888888999999999999999999988999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcC----CCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV----DEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~----~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+..|+..+.+..    ...+|++|||||+|+. ++.+..+++.+++++.+ ++|++|||++|.||+++|++|++.+.
T Consensus        95 ~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~-~~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~il  172 (174)
T d1wmsa_          95 QNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL  172 (174)
T ss_dssp             HTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             chhhhHHHHHHHHhccccCCCceEEEeccccchh-hccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHHHHh
Confidence            99999998876542    2458999999999985 46788899999998865 79999999999999999999998875

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.94  E-value=7.1e-27  Score=220.08  Aligned_cols=164  Identities=37%  Similarity=0.645  Sum_probs=130.9

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEEC-CeEEEEEEEecC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVG-ENKVKLQVWDTA  163 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~-~~~~~l~i~Dt~  163 (617)
                      +||+++|+                      +|||||||+++|+++++...+.++.+.+......... ...+.+.+|||+
T Consensus         3 ~Ki~~vG~----------------------~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~   60 (175)
T d1ky3a_           3 LKVIILGD----------------------SGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTA   60 (175)
T ss_dssp             EEEEEECC----------------------TTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccC
Confidence            68999999                      9999999999999999998999998887766665543 345789999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC----CCCCeEEEEEECCCCCCcc-ccCHHHHHHHH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV----DEPLVLCVVGNKTDLESSR-EVNREEAFHYS  238 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~----~~~iPvIlVgNK~DL~~~~-~v~~~e~~~~~  238 (617)
                      |++++..++..+++.++++++|||++++.||..+..|+..+....    ...+|++||+||+|+...+ .+..+++.+++
T Consensus        61 g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~  140 (175)
T d1ky3a_          61 GQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELA  140 (175)
T ss_dssp             ----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHH
T ss_pred             CchhhhhHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHH
Confidence            999999999999999999999999999999999999999886532    3468999999999997654 36778888999


Q ss_pred             HhcC-CeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         239 KSIG-GTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       239 ~~~g-~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      +.++ ++|++|||++|.||+++|++|++.+.+.
T Consensus       141 ~~~~~~~~~e~SA~~g~gv~e~f~~l~~~~l~~  173 (175)
T d1ky3a_         141 KSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ  173 (175)
T ss_dssp             HHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHcCCCeEEEEeCCCCcCHHHHHHHHHHHHHhc
Confidence            9886 6899999999999999999999888654

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.94  E-value=1.3e-26  Score=220.38  Aligned_cols=164  Identities=38%  Similarity=0.656  Sum_probs=146.2

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+++|++++|...+.+|++.++..+.+...+..+.+.+||++|
T Consensus         3 ~Kv~vvG~----------------------~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g   60 (184)
T d1vg8a_           3 LKVIILGD----------------------SGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAG   60 (184)
T ss_dssp             EEEEEECC----------------------TTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECS
T ss_pred             EEEEEECC----------------------CCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCC
Confidence            58888888                      99999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC----CCCCeEEEEEECCCCCCccccCHHHHHHHHH-
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV----DEPLVLCVVGNKTDLESSREVNREEAFHYSK-  239 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~----~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~-  239 (617)
                      ...+..++..++..+|++++|||++++.+|..+.+|+..+....    ...+|++||+||+|+.. +.+..++...++. 
T Consensus        61 ~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~  139 (184)
T d1vg8a_          61 QERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYS  139 (184)
T ss_dssp             SGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHH
T ss_pred             cccccccccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHH
Confidence            99999999999999999999999999999999999998886643    24589999999999865 4566666777764 


Q ss_pred             hcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         240 SIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       240 ~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ..++++++|||++|.||+++|++|++.+.+..
T Consensus       140 ~~~~~~~e~Sak~~~gI~e~f~~l~~~i~~~~  171 (184)
T d1vg8a_         140 KNNIPYFETSAKEAINVEQAFQTIARNALKQE  171 (184)
T ss_dssp             TTSCCEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hcCCeEEEEcCCCCcCHHHHHHHHHHHHHhcc
Confidence            45789999999999999999999999887654

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=2.8e-25  Score=210.10  Aligned_cols=151  Identities=22%  Similarity=0.342  Sum_probs=127.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+++|+++.|. .+.++.+.. +.+.+.+++..+.+.+|||+|++++     .|++.+|++|+|||++++.||
T Consensus        14 ~~vGKTsLi~~~~~~~f~-~~~~t~~~~-~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilVfd~~~~~Sf   86 (175)
T d2bmja1          14 ARSGKSSLIHRFLTGSYQ-VLEKTESEQ-YKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSF   86 (175)
T ss_dssp             TTTTHHHHHHHHHHSCCC-CCCCSSCEE-EEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEEEETTCHHHH
T ss_pred             CCCCHHHHHHHHHhCCCC-CcCCcccee-EEEEeecCceEEEEEEeeccccccc-----ccccccceeEEEeecccchhh
Confidence            999999999999999875 455666655 4677889999999999999998764     478999999999999999999


Q ss_pred             HHHHHHHHHHHhcC---CCCCeEEEEEECCCCC--CccccCHHHHHHHHHh-cCCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         195 AAIKTWVKELKRNV---DEPLVLCVVGNKTDLE--SSREVNREEAFHYSKS-IGGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       195 ~~l~~~l~~i~~~~---~~~iPvIlVgNK~DL~--~~~~v~~~e~~~~~~~-~g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.+..|+..+....   ...+|++||+||.|+.  ..+.+..+++..++.+ .+++|++|||++|.||+++|..|++.+.
T Consensus        87 ~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~  166 (175)
T d2bmja1          87 QAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVV  166 (175)
T ss_dssp             HHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHHHHH
Confidence            99999988876543   3568999999998875  3466778888888655 5679999999999999999999999887


Q ss_pred             Hhhh
Q psy3029         269 CLSQ  272 (617)
Q Consensus       269 ~~~~  272 (617)
                      ....
T Consensus       167 ~~~~  170 (175)
T d2bmja1         167 TLRK  170 (175)
T ss_dssp             HHHH
T ss_pred             Hhhh
Confidence            6553

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.92  E-value=4.1e-25  Score=206.00  Aligned_cols=155  Identities=24%  Similarity=0.338  Sum_probs=127.2

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|.++++...+.||+|.++..  +..  ..+.+.+||++
T Consensus         2 e~ki~i~G~----------------------~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~--~~~--~~~~~~i~D~~   55 (164)
T d1zd9a1           2 EMELTLVGL----------------------QYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITK--GNVTIKLWDIG   55 (164)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEE--TTEEEEEEEEC
T ss_pred             eEEEEEECC----------------------CCCCHHHHHHHHHcCCCCCcccccceeeeee--eee--eeEEEEEeecc
Confidence            478899998                      9999999999999999988899999876543  333  45789999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHH-----HH
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAF-----HY  237 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~-----~~  237 (617)
                      |++.+...+..++.+++++++|||++++.+|..+..|+..+.+.. ...+|++||+||+|+.....  ..+..     .+
T Consensus        56 G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~  133 (164)
T d1zd9a1          56 GQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD--EKELIEKMNLSA  133 (164)
T ss_dssp             CSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGG
T ss_pred             ccccccccccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhh--HHHHHHHHHHHH
Confidence            999999999999999999999999999999999988888775543 35689999999999864322  22222     22


Q ss_pred             HHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         238 SKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       238 ~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      +...+++++++||++|+||+++|++|++.
T Consensus       134 ~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1         134 IQDREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             CCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             HHhCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence            33445689999999999999999999874

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.91  E-value=8.9e-24  Score=196.69  Aligned_cols=157  Identities=20%  Similarity=0.264  Sum_probs=123.5

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      +|||||||+++|.+..+ ..+.||.|.....  +..  ..+.+.+||++
T Consensus         2 ~~ki~ivG~----------------------~~~GKTsLi~~l~~~~~-~~~~~t~~~~~~~--~~~--~~~~~~~~D~~   54 (165)
T d1ksha_           2 ELRLLMLGL----------------------DNAGKTTILKKFNGEDV-DTISPTLGFNIKT--LEH--RGFKLNIWDVG   54 (165)
T ss_dssp             CEEEEEECS----------------------TTSSHHHHHHHHTTCCC-SSCCCCSSEEEEE--EEE--TTEEEEEEEEC
T ss_pred             cEEEEEECC----------------------CCCCHHHHHHHHcCCCC-CcccceEeeeeee--ccc--cccceeeeecC
Confidence            478888888                      99999999999998875 5677888865433  333  45789999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHh-cCCCCCeEEEEEECCCCCCccccCHHHHHHHH----
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEAFHYS----  238 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~-~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~----  238 (617)
                      |++.+...++.+++.++++++|||+++..++..+..|+..+.. ....++|++||+||+|+.....+  ++.....    
T Consensus        55 G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~  132 (165)
T d1ksha_          55 GQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC--NAIQEALELDS  132 (165)
T ss_dssp             CSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH--HHHHHHTTGGG
T ss_pred             cchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCH--HHHHHHHHhhh
Confidence            9999999999999999999999999999999888776655443 33356899999999999654432  2222221    


Q ss_pred             -HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         239 -KSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       239 -~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                       +..++++++|||++|+||+++|++|++.+..
T Consensus       133 ~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         133 IRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS  164 (165)
T ss_dssp             CCSSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhcCCCEEEEEECCCCCCHHHHHHHHHHHHHc
Confidence             2224589999999999999999999988753

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.91  E-value=1e-24  Score=206.65  Aligned_cols=161  Identities=22%  Similarity=0.263  Sum_probs=125.0

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ..+.+||+++|+                      +|||||||+++|..+.+ ....||.+........    ..+.+.+|
T Consensus        14 ~~k~~KI~lvG~----------------------~~vGKTsLi~~l~~~~~-~~~~~t~~~~~~~~~~----~~~~~~i~   66 (182)
T d1moza_          14 SNKELRILILGL----------------------DGAGKTTILYRLQIGEV-VTTKPTIGFNVETLSY----KNLKLNVW   66 (182)
T ss_dssp             CSSCEEEEEEEE----------------------TTSSHHHHHHHTCCSEE-EEECSSTTCCEEEEEE----TTEEEEEE
T ss_pred             CCceEEEEEECC----------------------CCCCHHHHHHHHhcCCC-CccccccceEEEEEee----CCEEEEEE
Confidence            345689999999                      99999999999998775 4556888876544332    45789999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHHH---
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAFH---  236 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~~---  236 (617)
                      |++|++.+..+++.++.+++++++|||++++.++..+.+|+..+... ...++|++||+||+|+....  ..++...   
T Consensus        67 D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~  144 (182)
T d1moza_          67 DLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL--SASEVSKELN  144 (182)
T ss_dssp             EEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC--CHHHHHHHTT
T ss_pred             ecccccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc--CHHHHHHHHH
Confidence            99999999999999999999999999999999999998888776543 34568999999999996432  2233222   


Q ss_pred             --HHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         237 --YSKSIGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       237 --~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                        .+...++++++|||++|+||+++|++|++.+.++
T Consensus       145 ~~~~~~~~~~~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         145 LVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             TTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             HHHHhhCCCEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence              2334456899999999999999999999988654

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.90  E-value=2.7e-24  Score=202.30  Aligned_cols=157  Identities=24%  Similarity=0.327  Sum_probs=124.6

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      +.+.+||+++|+                      +|||||||+++|+++.+. .+.++.|.++.  .+..  ..+.+.+|
T Consensus        13 ~~~~~kI~vvG~----------------------~~vGKSsLi~~l~~~~~~-~~~~~~~~~~~--~i~~--~~~~~~i~   65 (176)
T d1fzqa_          13 PDQEVRILLLGL----------------------DNAGKTTLLKQLASEDIS-HITPTQGFNIK--SVQS--QGFKLNVW   65 (176)
T ss_dssp             CSSCEEEEEEES----------------------TTSSHHHHHHHHCCSCCE-EEEEETTEEEE--EEEE--TTEEEEEE
T ss_pred             CCCEEEEEEECC----------------------CCCCHHHHHHHHhcCCCC-cceeeeeeeEE--Eecc--CCeeEeEe
Confidence            345689999999                      999999999999998874 44566775543  3333  34789999


Q ss_pred             ecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHH---
Q psy3029         161 DTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFH---  236 (617)
Q Consensus       161 Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~---  236 (617)
                      |++|.+.+...++.+++.+|++|+|||++++.++..+..|+..+.... ...+|++||+||+|+.....  ..+..+   
T Consensus        66 d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~  143 (176)
T d1fzqa_          66 DIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLN  143 (176)
T ss_dssp             ECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTT
T ss_pred             eccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccccccc--HHHHHHHHH
Confidence            999999999999999999999999999999999999988877765533 35689999999999975432  222221   


Q ss_pred             --HHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         237 --YSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       237 --~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                        +++...+++++|||++|+||+++|++|++.
T Consensus       144 ~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         144 LHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             GGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             HHHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence              223345689999999999999999999874

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.90  E-value=4e-24  Score=201.03  Aligned_cols=157  Identities=17%  Similarity=0.270  Sum_probs=123.7

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      .+.+||+++|+                      +|||||||++||+.+.+. ...+|.+..+....    ...+.+.+||
T Consensus        10 ~k~~kIvlvG~----------------------~~vGKTSli~rl~~~~~~-~~~~t~~~~~~~~~----~~~~~~~i~D   62 (173)
T d1e0sa_          10 NKEMRILMLGL----------------------DAAGKTTILYKLKLGQSV-TTIPTVGFNVETVT----YKNVKFNVWD   62 (173)
T ss_dssp             TCCEEEEEEEE----------------------TTSSHHHHHHHTTCCCCE-EEEEETTEEEEEEE----ETTEEEEEEE
T ss_pred             CCeEEEEEECC----------------------CCCCHHHHHHHHhcCCCC-CccceeeeeEEEee----ccceeeEEec
Confidence            34589999999                      999999999999988754 44567776543322    2457899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhc-CCCCCeEEEEEECCCCCCccccCHHHHH-----
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRN-VDEPLVLCVVGNKTDLESSREVNREEAF-----  235 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~-~~~~iPvIlVgNK~DL~~~~~v~~~e~~-----  235 (617)
                      ++|++.+...+..+++.++++|+|||+++..++..+.+|+..+.+. ....+|++||+||+|+.....  ..++.     
T Consensus        63 ~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~--~~~i~~~~~~  140 (173)
T d1e0sa_          63 VGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMK--PHEIQEKLGL  140 (173)
T ss_dssp             ESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTG
T ss_pred             CCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccccc--HHHHHHHHHH
Confidence            9999999999999999999999999999999999998887776543 345689999999999964322  22221     


Q ss_pred             HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       236 ~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ..+...++.+++|||++|+||+++|++|.+.+
T Consensus       141 ~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         141 TRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             GGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHhCCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            22333456799999999999999999998754

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.88  E-value=8.6e-23  Score=187.57  Aligned_cols=156  Identities=18%  Similarity=0.230  Sum_probs=121.9

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCC
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAG  164 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G  164 (617)
                      +||+++|+                      +|||||||+++|+++++...+..+...     ....+...+.+.+||++|
T Consensus         1 ikivlvG~----------------------~~vGKSsLi~~l~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~d~~g   53 (160)
T d1r8sa_           1 MRILMVGL----------------------DAAGKTTILYKLKLGEIVTTIPTIGFN-----VETVEYKNISFTVWDVGG   53 (160)
T ss_dssp             CEEEEECS----------------------TTSSHHHHHHHHHHHCSSCCCCCSSCC-----EEEEECSSCEEEEEECCC
T ss_pred             CEEEEECC----------------------CCCCHHHHHHHHhcCCCCccccceeeE-----EEEEeeeeEEEEEecCCC
Confidence            58888888                      999999999999988876554443322     122344668899999999


Q ss_pred             cccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccc---cCHHHHHHHHHh
Q psy3029         165 QERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSRE---VNREEAFHYSKS  240 (617)
Q Consensus       165 ~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~---v~~~e~~~~~~~  240 (617)
                      ...+......++..+++++++||++++.++..+..|+..+.... ...+|+++|+||.|+.....   +.......+++.
T Consensus        54 ~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~  133 (160)
T d1r8sa_          54 QDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRH  133 (160)
T ss_dssp             CGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSS
T ss_pred             cccchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999888877765533 35579999999999865322   111222234445


Q ss_pred             cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         241 IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       241 ~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .++++++|||++|+||+++|++|.+++
T Consensus       134 ~~~~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         134 RNWYIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             CCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHhcC
Confidence            577999999999999999999998753

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.82  E-value=3.2e-20  Score=173.69  Aligned_cols=157  Identities=22%  Similarity=0.287  Sum_probs=116.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      .+.+||+++|+                      +|||||||++||.++++. ...++.+.......  .  ..+.+.+||
T Consensus        13 ~k~~kI~vvG~----------------------~~~GKSsLi~rl~~~~~~-~~~~~~~~~~~~~~--~--~~~~~~~~d   65 (177)
T d1zj6a1          13 HQEHKVIIVGL----------------------DNAGKTTILYQFSMNEVV-HTSPTIGSNVEEIV--I--NNTRFLMWD   65 (177)
T ss_dssp             TSCEEEEEEES----------------------TTSSHHHHHHHHHTTSCE-EEECCSCSSCEEEE--E--TTEEEEEEE
T ss_pred             CCeEEEEEECC----------------------CCCCHHHHHHHHhcCCCC-ccccccceeEEEEe--e--cceEEEEec
Confidence            34579999999                      999999999999998864 34455555433322  2  347899999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH--
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS--  238 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~--  238 (617)
                      +++.+.+......++..++++++|+|.++..++.....++....... ....|++||+||+|+.....  .++.....  
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~  143 (177)
T d1zj6a1          66 IGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT--VAEISQFLKL  143 (177)
T ss_dssp             CCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTG
T ss_pred             cccccccccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc--HHHHHHHHHH
Confidence            99999999999999999999999999999999988766555443332 35689999999999865432  22222222  


Q ss_pred             ---HhcCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         239 ---KSIGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       239 ---~~~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                         ...++++++|||++|+||++++++|.+++
T Consensus       144 ~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         144 TSIKDHQWHIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             GGCCSSCEEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence               23345899999999999999999999875

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.82  E-value=8.2e-20  Score=168.51  Aligned_cols=160  Identities=23%  Similarity=0.317  Sum_probs=121.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEec
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +.+||+++|+                      +|||||||+++|+++.+.. ..++.+.....  ..  .+.+.+.+||.
T Consensus         4 ke~kI~ivG~----------------------~~vGKSSLi~~~~~~~~~~-~~~~~~~~~~~--~~--~~~~~~~~~~~   56 (169)
T d1upta_           4 REMRILILGL----------------------DGAGKTTILYRLQVGEVVT-TIPTIGFNVET--VT--YKNLKFQVWDL   56 (169)
T ss_dssp             SCEEEEEECS----------------------TTSSHHHHHHHHHHSSCCC-CCCCSSEEEEE--EE--ETTEEEEEEEE
T ss_pred             cceEEEEECC----------------------CCCCHHHHHHHHhCCCCcc-eecccceeeee--ec--cCceEEEEeec
Confidence            3478999999                      9999999999999998754 44666644332  22  24568899999


Q ss_pred             CCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHH-hcCCCCCeEEEEEECCCCCCccc---cCHHHHHHHH
Q psy3029         163 AGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELK-RNVDEPLVLCVVGNKTDLESSRE---VNREEAFHYS  238 (617)
Q Consensus       163 ~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~-~~~~~~iPvIlVgNK~DL~~~~~---v~~~e~~~~~  238 (617)
                      +|.+.+......++..++++++++|+.+..++.....++.... .......|+++|+||.|+.....   +..+....++
T Consensus        57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~  136 (169)
T d1upta_          57 GGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPAL  136 (169)
T ss_dssp             CCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGC
T ss_pred             cccccccccchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHH
Confidence            9999999989999999999999999999888887766544443 33345579999999999975432   1112222344


Q ss_pred             HhcCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         239 KSIGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       239 ~~~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ...+++|++|||++|.||+++|++|++.+.+
T Consensus       137 ~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~~  167 (169)
T d1upta_         137 KDRKWQIFKTSATKGTGLDEAMEWLVETLKS  167 (169)
T ss_dssp             TTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hcCCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            4556799999999999999999999987743

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.81  E-value=1.4e-20  Score=179.21  Aligned_cols=159  Identities=17%  Similarity=0.125  Sum_probs=124.0

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      .|||||||++||..+.+  .+.||+|.++...    ....+.+++||++
T Consensus         2 e~Kiv~lG~----------------------~~vGKTsll~r~~~~~~--~~~pTiG~~~~~~----~~~~~~~~~~d~~   53 (200)
T d2bcjq2           2 ELKLLLLGT----------------------GESGKSTFIKQMRIIHG--SGVPTTGIIEYPF----DLQSVIFRMVDVG   53 (200)
T ss_dssp             EEEEEEEES----------------------TTSSHHHHHHHHHHHTS--SCCCCCSCEEEEE----ECSSCEEEEEECC
T ss_pred             eeEEEEECC----------------------CCCCHHHHHHHHhCCCC--CCCceeeEEEEEE----eccceeeeecccc
Confidence            479999999                      99999999999998876  4679999875443    3356789999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChh-----------hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc-----
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYH-----------SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR-----  227 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~-----------S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~-----  227 (617)
                      |++.+...+..++..++++++|||.++..           .++.+..|...+......++|+++|+||+|+...+     
T Consensus        54 g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~  133 (200)
T d2bcjq2          54 GQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSH  133 (200)
T ss_dssp             CSTTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSC
T ss_pred             ccccccccccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchH
Confidence            99999999999999999999999998764           34566778887777666678999999999984221     


Q ss_pred             -----------ccCHHHHHHHHH----h------cCCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         228 -----------EVNREEAFHYSK----S------IGGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       228 -----------~v~~~e~~~~~~----~------~g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                                 ....+....+..    .      ..+.++++||++|.||+++|+.|.+.|.+.
T Consensus       134 ~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         134 LVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             HHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence                       112222222221    1      123578999999999999999998887653

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.80  E-value=5.2e-20  Score=173.32  Aligned_cols=147  Identities=19%  Similarity=0.193  Sum_probs=97.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccc--------cchhhhccCCEEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRS--------MAPMYYRNANAALLVF  186 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~--------~~~~~~~~ad~iIlV~  186 (617)
                      +|||||||+|+|++.+.. ......+.+..............+.+|||+|......        ....++.++|++|+|+
T Consensus        14 ~~~GKSSLin~l~~~~~~-~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~   92 (178)
T d1wf3a1          14 PNVGKSTLLNNLLGVKVA-PISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVV   92 (178)
T ss_dssp             TTSSHHHHHHHHHTSCCS-CCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEE
T ss_pred             CCCCHHHHHHHHhCCCce-eecccCCcccccccceeeeeeeeeeecccccccccccccchhcccccccccccccceeeee
Confidence            999999999999987642 2222222222222222222335789999999754322        2334577999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-CeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         187 DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-GTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       187 Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      |++++..... ..|+..+.... .++|+++|+||+|+....   .+....+...++ ..++++||++|.||++|++.|++
T Consensus        93 D~~~~~~~~~-~~i~~~l~~~~-~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~~  167 (178)
T d1wf3a1          93 DLRHPPTPED-ELVARALKPLV-GKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDERQVAELKADLLA  167 (178)
T ss_dssp             ETTSCCCHHH-HHHHHHHGGGT-TTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHT
T ss_pred             chhhhhcccc-cchhhheeccc-cchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCCCHHHHHHHHHH
Confidence            9988654332 23444444433 457999999999986532   222334444444 47899999999999999999977


Q ss_pred             HH
Q psy3029         266 GL  267 (617)
Q Consensus       266 ~l  267 (617)
                      .+
T Consensus       168 ~l  169 (178)
T d1wf3a1         168 LM  169 (178)
T ss_dssp             TC
T ss_pred             hC
Confidence            54

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.80  E-value=1.6e-19  Score=171.19  Aligned_cols=155  Identities=17%  Similarity=0.156  Sum_probs=113.9

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      .+||+++|+                      .|||||||++||..+.+     +|.|..  ..  .+....+.+++||++
T Consensus         2 e~KivllG~----------------------~~vGKTsl~~r~~~~~~-----~t~~~~--~~--~~~~~~~~~~i~D~~   50 (195)
T d1svsa1           2 EVKLLLLGA----------------------GESGKSTIVKQMKIIHE-----AGTGIV--ET--HFTFKDLHFKMFDVG   50 (195)
T ss_dssp             EEEEEEECS----------------------TTSSHHHHHHHHHHHHS-----CCCSEE--EE--EEEETTEEEEEEEEC
T ss_pred             ceEEEEECC----------------------CCCCHHHHHHHHhhCCC-----CCccEE--EE--EEEeeeeeeeeeccc
Confidence            579999999                      99999999999987655     444532  22  233355789999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhHH-----------HHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc-----
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSFA-----------AIKTWVKELKRNVDEPLVLCVVGNKTDLESSR-----  227 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~-----------~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~-----  227 (617)
                      |++++..++..|++.++++++|||+++..+|.           .+..|...+........|+++|+||+|+...+     
T Consensus        51 Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~  130 (195)
T d1svsa1          51 GQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSP  130 (195)
T ss_dssp             CSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSC
T ss_pred             cccccccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchH
Confidence            99999999999999999999999999887652           23445555555555668999999999973211     


Q ss_pred             ----------ccCHHHHH-----HHHHh------cCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         228 ----------EVNREEAF-----HYSKS------IGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       228 ----------~v~~~e~~-----~~~~~------~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                                .....++.     .+...      ..+.++++||+++.||+++|+.+.+.+.+
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         131 LTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             GGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence                      11112221     11111      13467799999999999999999887754

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.80  E-value=5.1e-19  Score=161.96  Aligned_cols=144  Identities=16%  Similarity=0.215  Sum_probs=111.9

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhH
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSF  194 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~  194 (617)
                      +|||||||+|+|+++++. .+.||.+.....    .....+.+.+||+.|...+....+.++..++++++++|.++..++
T Consensus         9 ~nvGKSSLln~l~~~~~~-~~~~t~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~   83 (166)
T d2qtvb1           9 DNAGKTTLLHMLKNDRLA-TLQPTWHPTSEE----LAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERF   83 (166)
T ss_dssp             TTSSHHHHHHHHHHSCCC-CCCCCCSCEEEE----ECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGH
T ss_pred             CCCCHHHHHHHHhCCCCC-eeeceeeEeEEE----eccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhh
Confidence            999999999999998864 567888765433    333456788999999999999999999999999999999999998


Q ss_pred             HHHHHHHHHHHhcC-CCCCeEEEEEECCCCCCccccCHHHHHHHH------------HhcCCeEEEEcCCCCCCHHHHHH
Q psy3029         195 AAIKTWVKELKRNV-DEPLVLCVVGNKTDLESSREVNREEAFHYS------------KSIGGTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       195 ~~l~~~l~~i~~~~-~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~------------~~~g~~~~evSAktg~gI~eLf~  261 (617)
                      .....|+..+.... ..+.|+++++||.|+....  ...+..+..            ...++++++|||++|+||+|+|+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~  161 (166)
T d2qtvb1          84 DEARVELDALFNIAELKDVPFVILGNKIDAPNAV--SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQ  161 (166)
T ss_dssp             HHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC--CHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHHHHHH
T ss_pred             hhhhHHHHhhhhhhccCCceEEEEeccccccccC--CHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHH
Confidence            88877766665533 3568999999999986432  223222221            12234799999999999999999


Q ss_pred             HHHH
Q psy3029         262 NVSK  265 (617)
Q Consensus       262 ~I~~  265 (617)
                      +|.+
T Consensus       162 ~l~~  165 (166)
T d2qtvb1         162 WLSQ  165 (166)
T ss_dssp             HHTT
T ss_pred             HHhC
Confidence            9864

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.79  E-value=2.3e-20  Score=172.32  Aligned_cols=149  Identities=21%  Similarity=0.266  Sum_probs=106.5

Q ss_pred             eEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeE--EEEEEEECCeEEEEEEEec
Q psy3029          85 IKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVWDT  162 (617)
Q Consensus        85 ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~--~~~~i~~~~~~~~l~i~Dt  162 (617)
                      +||+++|+                      +|||||||+|+|++.+.. ......+.+.  ....+...  ...+.+||+
T Consensus         2 ~kI~lvG~----------------------~nvGKSsLin~l~~~~~~-~~~~~~~~~~~~~~~~~~~~--~~~~~~~d~   56 (161)
T d2gj8a1           2 MKVVIAGR----------------------PNAGKSSLLNALAGREAA-IVTDIAGTTRDVLREHIHID--GMPLHIIDT   56 (161)
T ss_dssp             EEEEEEES----------------------TTSSHHHHHHHHHTSCCS-CCCSSTTCCCSCEEEEEEET--TEEEEEEEC
T ss_pred             CEEEEECC----------------------CCCCHHHHHHHHhCCCce-EeecccccccceEeeeeecc--Cceeeeccc
Confidence            68888888                      999999999999987643 2222233332  23333334  356889999


Q ss_pred             CCcccccc--------cchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         163 AGQERFRS--------MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       163 ~G~e~~~~--------~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      +|..+...        ....++..+|++++++|..+..++.....|...+.... ..+|++||+||+|+..+...     
T Consensus        57 ~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~iilv~NK~Dl~~~~~~-----  130 (161)
T d2gj8a1          57 AGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKADITGETLG-----  130 (161)
T ss_dssp             CCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSC-TTCCEEEEEECHHHHCCCCE-----
T ss_pred             cccccccccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhhhhcc-cccceeeccchhhhhhhHHH-----
Confidence            99744322        23455779999999999998887777666655555543 45799999999998543321     


Q ss_pred             HHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         235 FHYSKSIGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       235 ~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                        +.+..+.+++++||++|.||++|+++|.+.
T Consensus       131 --~~~~~~~~~~~iSAk~~~gi~~L~~~l~~~  160 (161)
T d2gj8a1         131 --MSEVNGHALIRLSARTGEGVDVLRNHLKQS  160 (161)
T ss_dssp             --EEEETTEEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             --HHHhCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence              122345689999999999999999999875

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.76  E-value=1.8e-18  Score=162.83  Aligned_cols=154  Identities=14%  Similarity=0.031  Sum_probs=100.2

Q ss_pred             CCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc----ccc---chhhhccCCEEEE
Q psy3029         112 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF----RSM---APMYYRNANAALL  184 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~----~~~---~~~~~~~ad~iIl  184 (617)
                      +|.+|||||||+|+|++........+..+.+. ............+.+|||+|....    ..+   ....+..++++++
T Consensus         7 vG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (180)
T d1udxa2           7 VGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSP-NLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLY   85 (180)
T ss_dssp             ECCGGGCHHHHHHHHCSSCCEECCCTTCSSCC-EEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEE
T ss_pred             ECCCCCCHHHHHHHHhCCCCceeccCCCceee-eeceeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhh
Confidence            33399999999999997664322222222221 222233334456889999995321    112   2234668999999


Q ss_pred             EEeCCChh--hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHH
Q psy3029         185 VFDITQYH--SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLN  262 (617)
Q Consensus       185 V~Dis~~~--S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~  262 (617)
                      ++|.....  .+.....|+....... ..+|+++|+||+|+..++.  .++..+.+...+.+++++||++|.||++|++.
T Consensus        86 ~~d~~~~~~~~~~~~~~~~~~~~~~~-~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~L~~~  162 (180)
T d1udxa2          86 VLDAADEPLKTLETLRKEVGAYDPAL-LRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLPALKEA  162 (180)
T ss_dssp             EEETTSCHHHHHHHHHHHHHHHCHHH-HHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHHHHHHH
T ss_pred             hcccccccccchhhhhhhhhcccccc-chhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHHHHHH
Confidence            99986643  3333344444332211 2369999999999976543  23445556667889999999999999999999


Q ss_pred             HHHHHHH
Q psy3029         263 VSKGLIC  269 (617)
Q Consensus       263 I~~~l~~  269 (617)
                      |.+.+..
T Consensus       163 i~~~l~~  169 (180)
T d1udxa2         163 LHALVRS  169 (180)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhh
Confidence            9887743

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.76  E-value=5e-18  Score=158.81  Aligned_cols=157  Identities=16%  Similarity=0.177  Sum_probs=111.9

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      .+..||+++|+                      +|||||||+++|+++.+.. ..++.+.+....  ...+  ..+.+||
T Consensus        11 ~k~~kI~lvG~----------------------~~vGKTsLl~~l~~~~~~~-~~~~~~~~~~~~--~~~~--~~~~~~~   63 (186)
T d1f6ba_          11 KKTGKLVFLGL----------------------DNAGKTTLLHMLKDDRLGQ-HVPTLHPTSEEL--TIAG--MTFTTFD   63 (186)
T ss_dssp             TCCEEEEEEEE----------------------TTSSHHHHHHHHSCC-------CCCCCSCEEE--EETT--EEEEEEE
T ss_pred             CCCCEEEEECC----------------------CCCCHHHHHHHHhCCCCcc-eecccccceeEE--Eecc--ccccccc
Confidence            45679999999                      9999999999999988653 446666654443  3333  5688999


Q ss_pred             cCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHh-cCCCCCeEEEEEECCCCCCccccCHHHHHHHHHh
Q psy3029         162 TAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKR-NVDEPLVLCVVGNKTDLESSREVNREEAFHYSKS  240 (617)
Q Consensus       162 t~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~-~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~  240 (617)
                      +.+...+......++...+++++++|+++...+.....++..... ....++|++|++||.|+...  +...+..+....
T Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~  141 (186)
T d1f6ba_          64 LGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEERLREMFGL  141 (186)
T ss_dssp             ECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHHHHHHHHTC
T ss_pred             ccchhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc--CCHHHHHHHHhh
Confidence            999999999999999999999999999999888776654444333 33356899999999998643  233333333221


Q ss_pred             -----------------cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         241 -----------------IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       241 -----------------~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                                       .++++++|||++|+||+|+|++|.+++
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         142 YGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             TTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             cccchhhhhhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence                             234699999999999999999998653

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.74  E-value=1.8e-18  Score=161.40  Aligned_cols=149  Identities=17%  Similarity=0.107  Sum_probs=93.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc---------ccccchhhhccCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER---------FRSMAPMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~---------~~~~~~~~~~~ad~iIlV  185 (617)
                      +|||||||+|+|++... .......+.+.......+......+.+||++|...         +......++..+|+++++
T Consensus         9 ~n~GKSsLi~~L~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~   87 (171)
T d1mkya1           9 PNVGKSTLFNKLVKKKK-AIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFV   87 (171)
T ss_dssp             TTSSHHHHHHHHHC---------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCc-ceecccCceeeccccccccccccccccccccceeeeeccccccccccccccccccCcEEEEe
Confidence            99999999999998653 22333333333333333333456789999998522         122334456789999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         186 FDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       186 ~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      .|.+....... ..|+..+..   .++|+|+|+||+|+..+.  ..+...++.+....+++++||++|.||++|+++|.+
T Consensus        88 ~~~~~~~~~~~-~~~~~~l~~---~~~pviiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~i~iSAk~g~gid~L~~~i~~  161 (171)
T d1mkya1          88 VDGKRGITKED-ESLADFLRK---STVDTILVANKAENLREF--EREVKPELYSLGFGEPIPVSAEHNINLDTMLETIIK  161 (171)
T ss_dssp             EETTTCCCHHH-HHHHHHHHH---HTCCEEEEEESCCSHHHH--HHHTHHHHGGGSSCSCEECBTTTTBSHHHHHHHHHH
T ss_pred             ecccccccccc-ccccccccc---ccccccccchhhhhhhhh--hhHHHHHHHhcCCCCeEEEecCCCCCHHHHHHHHHH
Confidence            99877654432 334444443   236999999999986422  122223344333447899999999999999999999


Q ss_pred             HHHHh
Q psy3029         266 GLICL  270 (617)
Q Consensus       266 ~l~~~  270 (617)
                      .+.++
T Consensus       162 ~l~e~  166 (171)
T d1mkya1         162 KLEEK  166 (171)
T ss_dssp             HHHHT
T ss_pred             hCCCC
Confidence            88654

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=3e-18  Score=163.32  Aligned_cols=158  Identities=17%  Similarity=0.185  Sum_probs=108.2

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      -+||+++|+                      +|||||||++||.   +...+.||+|.....  +.  ...+.+.+||++
T Consensus         2 ~iKivllG~----------------------~~vGKTsll~r~~---f~~~~~pTiG~~~~~--~~--~~~~~~~~~D~~   52 (200)
T d1zcba2           2 LVKILLLGA----------------------GESGKSTFLKQMR---IIHGQDPTKGIHEYD--FE--IKNVPFKMVDVG   52 (200)
T ss_dssp             CEEEEEECS----------------------TTSSHHHHHHHHH---HHHSCCCCSSEEEEE--EE--ETTEEEEEEEEC
T ss_pred             eEEEEEECC----------------------CCCCHHHHHHHHh---cCCCCCCeeeeEEEE--Ee--eeeeeeeeeccc
Confidence            379999999                      9999999999993   456788999976443  22  255789999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhhH----------HHHHHHHHHHH-hcCCCCCeEEEEEECCCCCCcc-----
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHSF----------AAIKTWVKELK-RNVDEPLVLCVVGNKTDLESSR-----  227 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~----------~~l~~~l~~i~-~~~~~~iPvIlVgNK~DL~~~~-----  227 (617)
                      |++.+...+..+++.+++++++||.++..++          .....|+..+. .....++|++||+||+|+..+.     
T Consensus        53 gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~  132 (200)
T d1zcba2          53 GQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVS  132 (200)
T ss_dssp             C-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCC
T ss_pred             ceeeecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccH
Confidence            9999999999999999999999999886433          33333444433 2334568999999999984211     


Q ss_pred             -----------ccCHHHHHHHHHh----c-------CCeEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         228 -----------EVNREEAFHYSKS----I-------GGTYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       228 -----------~v~~~e~~~~~~~----~-------g~~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                                 .-..+.+.++...    .       .+.++++||+++.||+++|+.+.+.+...
T Consensus       133 ~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         133 IKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             GGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence                       0112233332221    1       23567899999999999999988877543

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.72  E-value=2.9e-18  Score=157.74  Aligned_cols=142  Identities=18%  Similarity=0.167  Sum_probs=91.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc---------ccchhhhccCCEEEEE
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR---------SMAPMYYRNANAALLV  185 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~---------~~~~~~~~~ad~iIlV  185 (617)
                      +|||||||+|+|++.+. ....+.++.+.......+......+.+|||+|.....         ......+.++|++++|
T Consensus         9 ~n~GKSSLin~l~g~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v   87 (160)
T d1xzpa2           9 PNVGKSTLLNRLLNEDR-AIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFV   87 (160)
T ss_dssp             HHHHTCHHHHHHHHHTB-CCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEE
T ss_pred             CCCCHHHHHHHHhCCCc-eeeeccccccccceeEEEEeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEE
Confidence            99999999999997653 2222333333222222222234678899999952110         1122346789999999


Q ss_pred             EeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHH
Q psy3029         186 FDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDVFLNVSK  265 (617)
Q Consensus       186 ~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~  265 (617)
                      +|++++.......-+ ..+     ...++++++||+|+.+...  .++... ....+.+++++||++|.||++|++.|.+
T Consensus        88 ~d~~~~~~~~~~~~~-~~~-----~~~~~i~~~~k~d~~~~~~--~~~~~~-~~~~~~~~~~vSA~~g~gi~~L~~~I~k  158 (160)
T d1xzpa2          88 LDASSPLDEEDRKIL-ERI-----KNKRYLVVINKVDVVEKIN--EEEIKN-KLGTDRHMVKISALKGEGLEKLEESIYR  158 (160)
T ss_dssp             EETTSCCCHHHHHHH-HHH-----TTSSEEEEEEECSSCCCCC--HHHHHH-HHTCSTTEEEEEGGGTCCHHHHHHHHHH
T ss_pred             EeCCCCcchhhhhhh-hhc-----ccccceeeeeeccccchhh--hHHHHH-HhCCCCcEEEEECCCCCCHHHHHHHHHh
Confidence            999988765543222 121     2258899999999875432  333322 2233468999999999999999999876


Q ss_pred             H
Q psy3029         266 G  266 (617)
Q Consensus       266 ~  266 (617)
                      +
T Consensus       159 e  159 (160)
T d1xzpa2         159 E  159 (160)
T ss_dssp             H
T ss_pred             c
Confidence            3

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.72  E-value=8.3e-18  Score=158.51  Aligned_cols=151  Identities=15%  Similarity=0.072  Sum_probs=96.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCC-----CcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISP-----TIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDIT  189 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~-----t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis  189 (617)
                      +|+|||||+|+|++.........     ..|.++......+......+.++|++|+.+|.......+..+|++++|+|++
T Consensus        14 ~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~   93 (179)
T d1wb1a4          14 IDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAK   93 (179)
T ss_dssp             TTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETT
T ss_pred             CCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhccccccccccc
Confidence            99999999999996432211111     1111111111111223457889999999998888888999999999999998


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--HHHHHHHHh----cCCeEEEEcCCCCCCHHHHHHHH
Q psy3029         190 QYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--EEAFHYSKS----IGGTYYETSALQDQGIEDVFLNV  263 (617)
Q Consensus       190 ~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--~e~~~~~~~----~g~~~~evSAktg~gI~eLf~~I  263 (617)
                      +....+...- +..+..   .++|+++|+||+|+........  +....+.+.    .+.++++|||++|.|+++|++.|
T Consensus        94 ~g~~~~~~~~-~~~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I  169 (179)
T d1wb1a4          94 EGPKTQTGEH-MLILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLI  169 (179)
T ss_dssp             TCSCHHHHHH-HHHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHH
T ss_pred             cccchhhhhh-hhhhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHH
Confidence            8654333221 222222   3479999999999975432211  111122221    13589999999999999999999


Q ss_pred             HHHHHH
Q psy3029         264 SKGLIC  269 (617)
Q Consensus       264 ~~~l~~  269 (617)
                      .+.+.+
T Consensus       170 ~~~l~~  175 (179)
T d1wb1a4         170 ITTLNN  175 (179)
T ss_dssp             HHHHHH
T ss_pred             HhcCCc
Confidence            887754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.70  E-value=3.5e-17  Score=153.83  Aligned_cols=143  Identities=17%  Similarity=0.113  Sum_probs=91.8

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccc---------------ccccchhhhccC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQER---------------FRSMAPMYYRNA  179 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~---------------~~~~~~~~~~~a  179 (617)
                      +|||||||+|+|++.+..  ....+|.+.....+...    .+.+|||||...               +.......++.+
T Consensus         9 ~nvGKSsLin~l~~~~~~--~~~~~g~T~~~~~~~~~----~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (184)
T d2cxxa1           9 SNVGKSTLIYRLTGKKVR--RGKRPGVTRKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNI   82 (184)
T ss_dssp             TTSSHHHHHHHHHSCCCS--SSSSTTCTTSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGC
T ss_pred             CCCCHHHHHHHHhCCCce--eeCCCCEeecccccccc----cceecccCCceeccccccccccccchhhhhhhhhccccc
Confidence            999999999999987653  33444544443333333    367899999521               112233456789


Q ss_pred             CEEEEEEeCCChhhHHHH---------H-HHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC-------
Q psy3029         180 NAALLVFDITQYHSFAAI---------K-TWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG-------  242 (617)
Q Consensus       180 d~iIlV~Dis~~~S~~~l---------~-~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g-------  242 (617)
                      |++++|+|.+........         + +++..+..   ..+|+++|+||+|+....+..   ...+...+.       
T Consensus        83 d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~~p~iiv~NK~D~~~~~~~~---~~~~~~~~~~~~~~~~  156 (184)
T d2cxxa1          83 DVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIKNVQEV---INFLAEKFEVPLSEID  156 (184)
T ss_dssp             CEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCSCHHHH---HHHHHHHHTCCGGGHH
T ss_pred             chheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cCCCEEEEEeeeehhhhHHHH---HHHHHHHhcccccccC
Confidence            999999998765432211         1 12222322   347999999999986543211   112222222       


Q ss_pred             CeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         243 GTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       243 ~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..++++||++|.||++|++.|.+.+.+
T Consensus       157 ~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         157 KVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             HHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            258899999999999999999987754

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.69  E-value=7.5e-17  Score=151.99  Aligned_cols=157  Identities=22%  Similarity=0.160  Sum_probs=101.0

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCC--CccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS--HHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~--~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ..+||+++|.                      +|||||||+|+|++.+..  ..+..+. .......+..++  ..+.++
T Consensus         7 ~~~kV~iiG~----------------------~~~GKSTLin~l~~~~~~~~~~~~~t~-~~~~~~~~~~~~--~~~~~~   61 (186)
T d1mkya2           7 DAIKVAIVGR----------------------PNVGKSTLFNAILNKERALVSPIPGTT-RDPVDDEVFIDG--RKYVFV   61 (186)
T ss_dssp             SCEEEEEECS----------------------TTSSHHHHHHHHHTSTTEEECCCC-------CCEEEEETT--EEEEES
T ss_pred             CCCEEEEECC----------------------CCCCHHHHHHHHHCCCcceeecccccc-cccceeeeccCC--ceeeee
Confidence            4589999999                      999999999999986531  1121111 111122333444  457888


Q ss_pred             ecCCccc------------ccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc
Q psy3029         161 DTAGQER------------FRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE  228 (617)
Q Consensus       161 Dt~G~e~------------~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~  228 (617)
                      |++|...            .......+++.+|++++|+|+..+.... ...++..+..   .++|+|+|+||+|+....+
T Consensus        62 d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~~~~~~-~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~  137 (186)
T d1mkya2          62 DTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQ-DQRMAGLMER---RGRASVVVFNKWDLVVHRE  137 (186)
T ss_dssp             SCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHH-HHHHHHHHHH---TTCEEEEEEECGGGSTTGG
T ss_pred             ccCCccccccccccccccchhHHHHHHHhcCCEEEEeecccccchhh-HHHHHHHHHH---cCCceeeeccchhhhcchh
Confidence            9998632            2223344567899999999997754322 2334444443   3469999999999875554


Q ss_pred             cCHHHHHHHHHh----c-CCeEEEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         229 VNREEAFHYSKS----I-GGTYYETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       229 v~~~e~~~~~~~----~-g~~~~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      ...++..+..++    . ..+++++||++|.||++|++.|.+.+.
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~  182 (186)
T d1mkya2         138 KRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYA  182 (186)
T ss_dssp             GCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            444444333332    2 248999999999999999999976553

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=4.2e-16  Score=149.69  Aligned_cols=110  Identities=20%  Similarity=0.314  Sum_probs=83.4

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCccccc-ccchhhhccCCEEEEEEeCCChhh
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFR-SMAPMYYRNANAALLVFDITQYHS  193 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~-~~~~~~~~~ad~iIlV~Dis~~~S  193 (617)
                      +|||||||+++|+++++.. ..++++.++....+. ....+.+.+||++|++++. ..+..++..++++++|+|+++..+
T Consensus         9 ~~~GKTsLl~~l~~~~~~~-~~~t~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~   86 (207)
T d2fh5b1           9 CDSGKTLLFVRLLTGQYRD-TQTSITDSSAIYKVN-NNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQR   86 (207)
T ss_dssp             TTSSHHHHHHHHHHSCCCC-BCCCCSCEEEEEECS-STTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHH
T ss_pred             CCCCHHHHHHHHHcCCCCc-ccCCeeEEEEEEEEe-eeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccc
Confidence            9999999999999988754 457777765544332 4456789999999998875 567788899999999999999765


Q ss_pred             -HHHHHHHHHHHHh---cCCCCCeEEEEEECCCCCCc
Q psy3029         194 -FAAIKTWVKELKR---NVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       194 -~~~l~~~l~~i~~---~~~~~iPvIlVgNK~DL~~~  226 (617)
                       +....+|+..+..   .....+|++||+||+|+...
T Consensus        87 ~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          87 EVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             cHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence             4555555544422   23355799999999999754

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.64  E-value=9.8e-16  Score=145.62  Aligned_cols=152  Identities=16%  Similarity=0.136  Sum_probs=90.9

Q ss_pred             EEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCc
Q psy3029          86 KVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQ  165 (617)
Q Consensus        86 kV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~  165 (617)
                      +|+|+|.                      +|||||||+|+|++.+.........+.+..........   .+.+.|+.+.
T Consensus        25 ~I~lvG~----------------------~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~   79 (195)
T d1svia_          25 EIALAGR----------------------SNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGY   79 (195)
T ss_dssp             EEEEEEB----------------------TTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCB
T ss_pred             EEEEECC----------------------CCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEee
Confidence            7999999                      99999999999998765444444444433333333332   3445666653


Q ss_pred             cc----------ccccc---hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHH
Q psy3029         166 ER----------FRSMA---PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNRE  232 (617)
Q Consensus       166 e~----------~~~~~---~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~  232 (617)
                      ..          ...+.   ...+..+|++++|+|++++..-.. .+++..+..   ..+|+++|+||+|+..+.+.. +
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~viD~~~~~~~~~-~~~~~~l~~---~~~piivv~NK~D~~~~~~~~-~  154 (195)
T d1svia_          80 GFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDD-VQMYEFLKY---YGIPVIVIATKADKIPKGKWD-K  154 (195)
T ss_dssp             CCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSCGGGHH-H
T ss_pred             ccccccccccchhhhHHhhhhccccchhhhhhhhhccccccccc-ccccccccc---ccCcceechhhccccCHHHHH-H
Confidence            11          11112   223446799999999987643221 234444444   346999999999986544322 2


Q ss_pred             HHHHHHHh----cCCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         233 EAFHYSKS----IGGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       233 e~~~~~~~----~g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      ....+.+.    ...+++.+||++|.|+++++++|.+.+
T Consensus       155 ~~~~~~~~l~~~~~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         155 HAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             HHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccCCCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            22222222    334899999999999999999998765

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.64  E-value=2.1e-16  Score=153.91  Aligned_cols=157  Identities=18%  Similarity=0.164  Sum_probs=111.6

Q ss_pred             ceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecC
Q psy3029          84 KIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTA  163 (617)
Q Consensus        84 ~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~  163 (617)
                      ..||+++|+                      .|||||||++||..+.    ..||+|.....  +.+  +.+.+++||++
T Consensus         6 ~~KilllG~----------------------~~vGKTsll~~~~~~~----~~pTiG~~~~~--~~~--~~~~~~~~D~~   55 (221)
T d1azta2           6 THRLLLLGA----------------------GESGKSTIVKQMRILH----VVLTSGIFETK--FQV--DKVNFHMFDVG   55 (221)
T ss_dssp             SEEEEEECS----------------------TTSSHHHHHHHHHHHH----CCCCCSCEEEE--EEE--TTEEEEEEECC
T ss_pred             cCEEEEECC----------------------CCCCHHHHHHHHhcCC----cCCCCCeEEEE--EEE--CcEEEEEEecC
Confidence            468999999                      9999999999997654    45899976433  334  34789999999


Q ss_pred             CcccccccchhhhccCCEEEEEEeCCChhh----------H-HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccc----
Q psy3029         164 GQERFRSMAPMYYRNANAALLVFDITQYHS----------F-AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSRE----  228 (617)
Q Consensus       164 G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S----------~-~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~----  228 (617)
                      |++.+...+..++++++++++|+|+++...          + +.+..|...+......++|++|++||+|+..++.    
T Consensus        56 Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~  135 (221)
T d1azta2          56 GQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGK  135 (221)
T ss_dssp             CSTTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCS
T ss_pred             ccceeccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCc
Confidence            999999999999999999999999986432          2 2223343344333345689999999999853321    


Q ss_pred             c--------------------------CHHHHHHHH-----Hhc--------CCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         229 V--------------------------NREEAFHYS-----KSI--------GGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       229 v--------------------------~~~e~~~~~-----~~~--------g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      .                          ..+++..+.     ...        .+-++++||+++.+|+.+|+.+.+.|..
T Consensus       136 ~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~  215 (221)
T d1azta2         136 SKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQR  215 (221)
T ss_dssp             SCHHHHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHH
T ss_pred             ccHHHhCccccccCCcccccccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHH
Confidence            0                          012222221     111        1235689999999999999988777665


Q ss_pred             h
Q psy3029         270 L  270 (617)
Q Consensus       270 ~  270 (617)
                      .
T Consensus       216 ~  216 (221)
T d1azta2         216 M  216 (221)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.62  E-value=1.6e-16  Score=149.81  Aligned_cols=153  Identities=11%  Similarity=0.057  Sum_probs=90.9

Q ss_pred             CCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccc----cccch---hhhccCCEEE
Q psy3029         111 NWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERF----RSMAP---MYYRNANAAL  183 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~----~~~~~---~~~~~ad~iI  183 (617)
                      |+|++|||||||+|+|++.+......+....+......... ....+.+|||||..+.    ..+..   ..+..++.++
T Consensus         6 iiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~   84 (185)
T d1lnza2           6 LVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETD-DGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIV   84 (185)
T ss_dssp             EESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECS-SSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEE
T ss_pred             EECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEec-CCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhh
Confidence            33339999999999998766421111111111111122222 2235789999996321    12222   2345789999


Q ss_pred             EEEeCCChhhHHHHH--HHHHHHHh---cCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhc--CCeEEEEcCCCCCCH
Q psy3029         184 LVFDITQYHSFAAIK--TWVKELKR---NVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSI--GGTYYETSALQDQGI  256 (617)
Q Consensus       184 lV~Dis~~~S~~~l~--~~l~~i~~---~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~--g~~~~evSAktg~gI  256 (617)
                      ++++...........  .+......   ....++|+++|+||+|+....    +....+.+.+  +.+++.+||++|.||
T Consensus        85 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~~g~Gi  160 (185)
T d1lnza2          85 HVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTREGL  160 (185)
T ss_dssp             EEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTT
T ss_pred             heeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECCCCCCH
Confidence            998876654322222  11111111   112347999999999996532    2223343333  568999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy3029         257 EDVFLNVSKGLI  268 (617)
Q Consensus       257 ~eLf~~I~~~l~  268 (617)
                      ++|++.|.+.+.
T Consensus       161 ~~L~~~i~~~L~  172 (185)
T d1lnza2         161 RELLFEVANQLE  172 (185)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhh
Confidence            999999988773

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.60  E-value=7.4e-16  Score=150.68  Aligned_cols=157  Identities=17%  Similarity=0.105  Sum_probs=96.5

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCCCccCC--CcceeEEEEE--------------EEECCeEEEEEEEecCCcccccccc
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFSHHISP--TIGASFFTAK--------------INVGENKVKLQVWDTAGQERFRSMA  172 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~~~~~~--t~g~~~~~~~--------------i~~~~~~~~l~i~Dt~G~e~~~~~~  172 (617)
                      +||+|.+++|||||+++|++.........  +.........              ..+......+.++||||++.|....
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   87 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLR   87 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSB
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccc
Confidence            33333399999999999986422111000  1100111111              0112234578999999999998888


Q ss_pred             hhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCH--------------------H
Q psy3029         173 PMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNR--------------------E  232 (617)
Q Consensus       173 ~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~--------------------~  232 (617)
                      ...+..+|++|+|+|+.+....... +.+..+..   .++|+|||+||+|+........                    .
T Consensus        88 ~~~~~~~D~~ilVvda~~g~~~~~~-~~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~  163 (227)
T d1g7sa4          88 KRGGALADLAILIVDINEGFKPQTQ-EALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDT  163 (227)
T ss_dssp             CSSSBSCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHH
T ss_pred             hhcccccceEEEEEecccCcccchh-HHHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHH
Confidence            8889999999999999875443322 22333333   3479999999999864321110                    0


Q ss_pred             HH----HHHHHh--------------cCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         233 EA----FHYSKS--------------IGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       233 e~----~~~~~~--------------~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..    ..+...              ...+++.+||++|.|+++|++.|.....+
T Consensus       164 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~  218 (227)
T d1g7sa4         164 KVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (227)
T ss_dssp             HHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            00    011111              01378999999999999999998876544

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.57  E-value=1.5e-15  Score=141.69  Aligned_cols=152  Identities=14%  Similarity=0.087  Sum_probs=92.9

Q ss_pred             ccCCCCCCCCHHHHHHHHHcCCCCCc-cCCCcceeEEEEEEEECCeEEEEEEEecCCccc---------ccccchhhhcc
Q psy3029         109 EANWFWLGVGKTSMVVRYIGKMFSHH-ISPTIGASFFTAKINVGENKVKLQVWDTAGQER---------FRSMAPMYYRN  178 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~~~~~~-~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~---------~~~~~~~~~~~  178 (617)
                      ++|+|.+|||||||+|+|++.+.... ..++..............  ..+.+||++|...         +......+...
T Consensus         8 I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAASSSIGD   85 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccccchhh
Confidence            44445599999999999998764211 112221121222222222  3456788887521         12223334457


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC-eEEEEcCCCCCCHH
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG-TYYETSALQDQGIE  257 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~-~~~evSAktg~gI~  257 (617)
                      +++++++.|..+...  ....+...+.+   ...|+++|+||+|+...+.........+...++. +++++||++|.||+
T Consensus        86 ~~~~l~~~d~~~~~~--~~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~  160 (179)
T d1egaa1          86 VELVIFVVEGTRWTP--DDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVD  160 (179)
T ss_dssp             EEEEEEEEETTCCCH--HHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHH
T ss_pred             cceeEEEEecCccch--hHHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHH
Confidence            888888888765432  22223333332   3358899999999876544333444555666664 89999999999999


Q ss_pred             HHHHHHHHHH
Q psy3029         258 DVFLNVSKGL  267 (617)
Q Consensus       258 eLf~~I~~~l  267 (617)
                      +|++.|.+.+
T Consensus       161 ~L~~~i~~~l  170 (179)
T d1egaa1         161 TIAAIVRKHL  170 (179)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHHhC
Confidence            9999987754

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.56  E-value=1.4e-14  Score=137.83  Aligned_cols=112  Identities=13%  Similarity=0.104  Sum_probs=78.6

Q ss_pred             EEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--H
Q psy3029         154 KVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--R  231 (617)
Q Consensus       154 ~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~  231 (617)
                      ...+.++||||++.|.......+..+|++++|+|+.+........+.+..+.... . .++|+|.||+|+.+.....  .
T Consensus        77 ~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~-~-~~iiv~inK~D~~d~~~~~~~~  154 (195)
T d1kk1a3          77 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG-Q-KNIIIAQNKIELVDKEKALENY  154 (195)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT-C-CCEEEEEECGGGSCHHHHHHHH
T ss_pred             ceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc-C-ccceeeeecccchhhHHHHHHH
Confidence            4578999999999998888888889999999999988642232333333333322 1 3578899999987543211  1


Q ss_pred             HHHHHHHHhcC---CeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         232 EEAFHYSKSIG---GTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       232 ~e~~~~~~~~g---~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +...++....+   ++++++||++|+||++|++.|.+.+
T Consensus       155 ~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         155 RQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            22334443332   4899999999999999999987754

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.49  E-value=1.1e-13  Score=132.85  Aligned_cols=111  Identities=17%  Similarity=0.154  Sum_probs=76.4

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--HH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--RE  232 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~~  232 (617)
                      ..+.++|+||+..|....-..+..+|++|+|+|+.+.-.-....+.+..+... .. .|+||+.||+|+.......  ..
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~i-~~iIV~vNK~Dl~~~~~~~~~~~  163 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GV-KNLIIVQNKVDVVSKEEALSQYR  163 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-TC-CCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc-CC-ceeeeccccCCCccchHHHHHHH
Confidence            46899999999999877777888999999999998753111222222233332 21 3888999999997543211  11


Q ss_pred             HHHHHHHhc---CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         233 EAFHYSKSI---GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       233 e~~~~~~~~---g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      +...+....   .++++++||++|.||++|++.|..++
T Consensus       164 ~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         164 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            222333322   35899999999999999999987765

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.48  E-value=1.5e-14  Score=137.93  Aligned_cols=150  Identities=14%  Similarity=0.079  Sum_probs=101.7

Q ss_pred             CCCCHHHHHHHHHcC-------CC-------CCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccCC
Q psy3029         115 LGVGKTSMVVRYIGK-------MF-------SHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNAN  180 (617)
Q Consensus       115 ~nVGKSSLinrl~~~-------~~-------~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad  180 (617)
                      .++|||||+++|++.       .+       ........|.++......+......+.++||||+..|.......+..+|
T Consensus        12 vd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~aD   91 (196)
T d1d2ea3          12 VDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLD   91 (196)
T ss_dssp             TTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCS
T ss_pred             CCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHHHHHHHHhhcC
Confidence            999999999999741       00       0011233456666655666666678999999999999887778889999


Q ss_pred             EEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcccc---CHHHHHHHHHhcC-----CeEEEEcCCC
Q psy3029         181 AALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREV---NREEAFHYSKSIG-----GTYYETSALQ  252 (617)
Q Consensus       181 ~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v---~~~e~~~~~~~~g-----~~~~evSAkt  252 (617)
                      ++|+|+|+.+...-+. .+.+..+.....  .|+||+.||+|+..+.+.   ...+...+...++     ++++.+||++
T Consensus        92 ~allVVda~~G~~~QT-~~~~~~a~~~~~--~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~  168 (196)
T d1d2ea3          92 GCILVVAANDGPMPQT-REHLLLARQIGV--EHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALC  168 (196)
T ss_dssp             EEEEEEETTTCSCHHH-HHHHHHHHHTTC--CCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHH
T ss_pred             eEEEEEEcCCCCchhH-HHHHHHHHHhcC--CcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEccc
Confidence            9999999988654332 233333333222  378899999998754321   1123444554444     4799999999


Q ss_pred             C----------CCHHHHHHHHHHHH
Q psy3029         253 D----------QGIEDVFLNVSKGL  267 (617)
Q Consensus       253 g----------~gI~eLf~~I~~~l  267 (617)
                      |          .++.+|++.|.+.+
T Consensus       169 g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         169 ALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             HHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             cccccCcccccCCHHHHHHHHHhhC
Confidence            8          58888888776543

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.41  E-value=4.7e-13  Score=124.68  Aligned_cols=161  Identities=14%  Similarity=0.084  Sum_probs=82.6

Q ss_pred             cccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEE
Q psy3029          81 VSNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVW  160 (617)
Q Consensus        81 ~~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~  160 (617)
                      ....++|+++|.                      +|||||||+|+|++.+.........+................+..+
T Consensus        13 ~~~~~~I~lvG~----------------------~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   70 (188)
T d1puia_          13 SDTGIEVAFAGR----------------------SNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLP   70 (188)
T ss_dssp             CSCSEEEEEEEC----------------------TTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECC
T ss_pred             CccCCEEEEECC----------------------CCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeee
Confidence            445689999999                      9999999999999876543332222221112222222222222222


Q ss_pred             ecCCcccc-------cccchhh---hccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC
Q psy3029         161 DTAGQERF-------RSMAPMY---YRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN  230 (617)
Q Consensus       161 Dt~G~e~~-------~~~~~~~---~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~  230 (617)
                      +..+....       ......+   ...++.++.+.+......... ..++..+..   ...++++|+||+|+.......
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~~~~~~~v~~k~D~~~~~~~~  146 (188)
T d1puia_          71 GYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLD-QQMIEWAVD---SNIAVLVLLTKADKLASGARK  146 (188)
T ss_dssp             CCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSCHHHHH
T ss_pred             cccccchhhhhhhhhhhhhhhhhhhhhheeEEEEeecccccchhHH-HHHHHHhhh---ccccccchhhhhhccCHHHHH
Confidence            22222111       1111111   223445555566555433222 334444443   235889999999986543221


Q ss_pred             H--HHHHHHHHhc--CCeEEEEcCCCCCCHHHHHHHHHHHH
Q psy3029         231 R--EEAFHYSKSI--GGTYYETSALQDQGIEDVFLNVSKGL  267 (617)
Q Consensus       231 ~--~e~~~~~~~~--g~~~~evSAktg~gI~eLf~~I~~~l  267 (617)
                      .  +...+....+  ..+++.+||++|.||++|++.|.+.+
T Consensus       147 ~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         147 AQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             HHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCCCcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            1  1222222222  24789999999999999999887643

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.36  E-value=4.1e-13  Score=128.67  Aligned_cols=133  Identities=16%  Similarity=0.084  Sum_probs=84.6

Q ss_pred             CCCCHHHHHHHHHcC--------CCCC----ccC---CCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhccC
Q psy3029         115 LGVGKTSMVVRYIGK--------MFSH----HIS---PTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRNA  179 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--------~~~~----~~~---~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a  179 (617)
                      +++|||||+++|+..        ....    ...   ...|.++......+.....++.|+||||+.+|.......++.+
T Consensus        12 vd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~~~~~~~~~~a   91 (204)
T d2c78a3          12 VDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQM   91 (204)
T ss_dssp             TTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTC
T ss_pred             CCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhHHHHHHHHHHC
Confidence            999999999999621        0000    000   0113444344444445556789999999999988888889999


Q ss_pred             CEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCe-EEEEEECCCCCCcccc---CHHHHHHHHHhcC-----CeEEEEcC
Q psy3029         180 NAALLVFDITQYHSFAAIKTWVKELKRNVDEPLV-LCVVGNKTDLESSREV---NREEAFHYSKSIG-----GTYYETSA  250 (617)
Q Consensus       180 d~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iP-vIlVgNK~DL~~~~~v---~~~e~~~~~~~~g-----~~~~evSA  250 (617)
                      |++|||+|+.+....+....| ..+...   ++| +|+++||+|+.+..+.   ..+++..+...++     ++++.+||
T Consensus        92 D~avlVvda~~Gv~~qt~~~~-~~~~~~---gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa  167 (204)
T d2c78a3          92 DGAILVVSAADGPMPQTREHI-LLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSA  167 (204)
T ss_dssp             SSEEEEEETTTCCCHHHHHHH-HHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCH
T ss_pred             CEEEEEEECCCCCcHHHHHHH-HHHHHc---CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCcccceeeeeec
Confidence            999999999887655544333 333332   244 7778999998653221   1223344444443     36788887


Q ss_pred             C
Q psy3029         251 L  251 (617)
Q Consensus       251 k  251 (617)
                      .
T Consensus       168 ~  168 (204)
T d2c78a3         168 L  168 (204)
T ss_dssp             H
T ss_pred             h
Confidence            5

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.36  E-value=4.1e-13  Score=127.95  Aligned_cols=106  Identities=14%  Similarity=0.195  Sum_probs=74.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhh----hccCCEEEEEEeCCC
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMY----YRNANAALLVFDITQ  190 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~----~~~ad~iIlV~Dis~  190 (617)
                      +|||||||+|+|+++++.    ++.+.+...  ..+......+.+||++|++.+...+..+    ...++.+++++|..+
T Consensus        12 ~n~GKTSLln~l~~~~~~----~~tt~~~~~--~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~   85 (209)
T d1nrjb_          12 QNSGKTSLLTLLTTDSVR----PTVVSQEPL--SAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTV   85 (209)
T ss_dssp             TTSSHHHHHHHHHHSSCC----CBCCCSSCE--EETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTS
T ss_pred             CCCCHHHHHHHHhCCCCC----CeEEecceE--EEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEEec
Confidence            999999999999988754    232222222  2344455678999999998776555444    345688999998765


Q ss_pred             -hhhHHHHHHHHHH----HHhcCCCCCeEEEEEECCCCCCc
Q psy3029         191 -YHSFAAIKTWVKE----LKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       191 -~~S~~~l~~~l~~----i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                       ..++..+.+|+..    +......++|++||+||+|+...
T Consensus        86 ~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          86 DPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  126 (209)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeeccccc
Confidence             4566666666543    34445567899999999998654

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.32  E-value=5.6e-12  Score=122.14  Aligned_cols=102  Identities=18%  Similarity=0.166  Sum_probs=70.6

Q ss_pred             eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--
Q psy3029         153 NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--  230 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--  230 (617)
                      ....+.|+|+||++.|.......+..+|++|+|+|+.+...-+.... +..+... .- ..+|++.||+|+.+..+..  
T Consensus        87 ~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~-~~~~~~~-gv-~~iiv~vNK~D~~~~~~~~~~  163 (222)
T d1zunb3          87 AKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRH-SYIASLL-GI-KHIVVAINKMDLNGFDERVFE  163 (222)
T ss_dssp             SSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHH-HHHHHHT-TC-CEEEEEEECTTTTTSCHHHHH
T ss_pred             cceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHH-HHHHHHc-CC-CEEEEEEEccccccccceehh
Confidence            34578999999999998877778889999999999987654333222 2222222 21 2588999999997543211  


Q ss_pred             --HHHHHHHHHhcCC-----eEEEEcCCCCCCHH
Q psy3029         231 --REEAFHYSKSIGG-----TYYETSALQDQGIE  257 (617)
Q Consensus       231 --~~e~~~~~~~~g~-----~~~evSAktg~gI~  257 (617)
                        .++...+....++     +|+++||++|.||.
T Consensus       164 ~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         164 SIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             HHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             hhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence              1234455555554     68999999999983

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=99.15  E-value=1.2e-11  Score=123.60  Aligned_cols=162  Identities=13%  Similarity=0.096  Sum_probs=103.9

Q ss_pred             cchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcC
Q psy3029         171 MAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSA  250 (617)
Q Consensus       171 ~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSA  250 (617)
                      .+...++.+|+||+|+|+++|.+..+  .++..+.   . +.|+|||+||+||.+...  .++..+++...+..++.+||
T Consensus         8 ~i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~---~-~Kp~IlVlNK~DLv~~~~--~~~w~~~f~~~~~~~i~isa   79 (273)
T d1puja_           8 EVTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL---K-NKPRIMLLNKADKADAAV--TQQWKEHFENQGIRSLSINS   79 (273)
T ss_dssp             HHHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC---S-SSCEEEEEECGGGSCHHH--HHHHHHHHHTTTCCEEECCT
T ss_pred             HHHHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH---c-CCCeEEEEECccCCchHH--HHHHHHHHHhcCCccceeec
Confidence            35667899999999999999876432  2222222   1 359999999999976432  34455566666788999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhhcccccccccccccCCccCCCCCCcccccCCCCCCCCCCchhhhheeeeccCCCCCCCc
Q psy3029         251 LQDQGIEDVFLNVSKGLICLSQESLHTSSLRVYDSDNITSANPRGVVEITPLSSLDTPPLTEAETAKFVVGLSINSRVPN  330 (617)
Q Consensus       251 ktg~gI~eLf~~I~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ss~~~~~~~~~~~~v~ivG~~~~s~~~~  330 (617)
                      +++.++.++...+.+.+........                               ........++++|||.|       
T Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~~~-------------------------------~~~~~~~~~~v~vvG~P-------  121 (273)
T d1puja_          80 VNGQGLNQIVPASKEILQEKFDRMR-------------------------------AKGVKPRAIRALIIGIP-------  121 (273)
T ss_dssp             TTCTTGGGHHHHHHHHHHHHHHHHH-------------------------------HTTCCCCCEEEEEEEST-------
T ss_pred             ccCCCccccchhhhhhhhhhhhhhh-------------------------------hccCCCCceEEEEEecC-------
Confidence            9999999998888776655432211                               00111235789999999       


Q ss_pred             ceeeeeeecccccccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecCCCce
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTGLKVS  390 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~~  390 (617)
                               ||||||+++.+.+.. ......|.+..+..  .+.+ ++.+.|--++|+.-.
T Consensus       122 ---------NvGKSsliN~L~~~~~~~~~~~pG~Tr~~~--~i~~-~~~~~l~DTPGi~~p  170 (273)
T d1puja_         122 ---------NVGKSTLINRLAKKNIAKTGDRPGITTSQQ--WVKV-GKELELLDTPGILWP  170 (273)
T ss_dssp             ---------TSSHHHHHHHHHTSCCC------------C--CEEE-TTTEEEEECCCCCCS
T ss_pred             ---------ccchhhhhhhhhccceEEECCcccccccce--EEEC-CCCeEEecCCCcccc
Confidence                     999999999999754 34555677666542  3333 445777778887653

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.13  E-value=1e-10  Score=123.04  Aligned_cols=158  Identities=11%  Similarity=0.099  Sum_probs=91.8

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccC---CCcceeEEEEEEEECCeEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHIS---PTIGASFFTAKINVGENKVKLQV  159 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~---~t~g~~~~~~~i~~~~~~~~l~i  159 (617)
                      ..++|+|+|+                      +|||||||+|+|++........   ...+.+.....+... ..-.+.+
T Consensus        55 ~~l~Iai~G~----------------------~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~-~~~~~~l  111 (400)
T d1tq4a_          55 SVLNVAVTGE----------------------TGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVF  111 (400)
T ss_dssp             CCEEEEEEEC----------------------TTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEE
T ss_pred             CCcEEEEECC----------------------CCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeecc-CCCeEEE
Confidence            3479999999                      9999999999999854322211   111222222222222 2224779


Q ss_pred             EecCCcccccccchh-----hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc-------c
Q psy3029         160 WDTAGQERFRSMAPM-----YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS-------R  227 (617)
Q Consensus       160 ~Dt~G~e~~~~~~~~-----~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~-------~  227 (617)
                      |||||..........     .+..+|++|++.|..-..  .+ .+++..+.+   .+.|+++|.||+|....       .
T Consensus       112 ~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~~--~d-~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~  185 (400)
T d1tq4a_         112 WDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKK--ND-IDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQ  185 (400)
T ss_dssp             EECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSCCCH--HH-HHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCT
T ss_pred             EeCCCcccccccHHHHHHHhhhhcceEEEEecCCCCCH--HH-HHHHHHHHH---cCCCEEEEEeCcccccchhhhcccc
Confidence            999997544332232     345789998888754222  22 133344444   24699999999996311       1


Q ss_pred             ccCHH----HH----HHHHHhcCC---eEEEEcCCC--CCCHHHHHHHHHHHHHH
Q psy3029         228 EVNRE----EA----FHYSKSIGG---TYYETSALQ--DQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       228 ~v~~~----e~----~~~~~~~g~---~~~evSAkt--g~gI~eLf~~I~~~l~~  269 (617)
                      ....+    +.    .......++   ++|.+|+..  ..++.+|.+.+.+.+..
T Consensus       186 ~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         186 TFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             cccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHH
Confidence            11111    11    122233343   688888764  45899999998877644

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.09  E-value=8.3e-11  Score=115.50  Aligned_cols=107  Identities=19%  Similarity=0.198  Sum_probs=59.0

Q ss_pred             eEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChh---hHH---HHHHHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         153 NKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYH---SFA---AIKTWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       153 ~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~---S~~---~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      ....+.++||||+..|.........-+|++|+|+|+.+..   ++.   ...+.+..+.... - .+++++.||+|+...
T Consensus       100 ~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~-i-~~iiv~iNKmD~~~~  177 (245)
T d1r5ba3         100 EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQG-I-NHLVVVINKMDEPSV  177 (245)
T ss_dssp             SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTT-C-SSEEEEEECTTSTTC
T ss_pred             ccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcC-C-CeEEEEEEcCCCCcc
Confidence            4457999999999999888888888999999999998742   110   1122222222221 1 247899999998632


Q ss_pred             c--ccCH----HHHHHHHHhc-C------CeEEEEcCCCCCCHHHHHH
Q psy3029         227 R--EVNR----EEAFHYSKSI-G------GTYYETSALQDQGIEDVFL  261 (617)
Q Consensus       227 ~--~v~~----~e~~~~~~~~-g------~~~~evSAktg~gI~eLf~  261 (617)
                      .  +...    ++...+.+.. +      ++|+++||++|+||.++++
T Consensus       178 ~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         178 QWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            1  1111    1222232222 2      3799999999999976543

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.07  E-value=5.2e-11  Score=114.52  Aligned_cols=88  Identities=20%  Similarity=0.149  Sum_probs=67.3

Q ss_pred             cchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHH--hcCCeEEE
Q psy3029         171 MAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSK--SIGGTYYE  247 (617)
Q Consensus       171 ~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~--~~g~~~~e  247 (617)
                      +.++.+.|.|.+++|+++.+|. +...+++||..+..   .++|++||+||+||.++.+  .+....+..  ..+++++.
T Consensus         3 l~RP~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v~~   77 (225)
T d1u0la2           3 LTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPIVK   77 (225)
T ss_dssp             ETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCEEE
T ss_pred             cCCCCcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCCHHH--HHHHHHhhcccccceeEEE
Confidence            4567789999999999998765 67888999888766   4479999999999976432  122223332  34579999


Q ss_pred             EcCCCCCCHHHHHHHH
Q psy3029         248 TSALQDQGIEDVFLNV  263 (617)
Q Consensus       248 vSAktg~gI~eLf~~I  263 (617)
                      +||+++.|+++|.+.|
T Consensus        78 vSa~~~~g~~~L~~~l   93 (225)
T d1u0la2          78 TSAKTGMGIEELKEYL   93 (225)
T ss_dssp             CCTTTCTTHHHHHHHH
T ss_pred             eccccchhHhhHHHHh
Confidence            9999999999988765

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.06  E-value=3.1e-10  Score=112.11  Aligned_cols=123  Identities=18%  Similarity=0.182  Sum_probs=72.9

Q ss_pred             cceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeE--EEEEEEECCeEEEEEEE
Q psy3029          83 NKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASF--FTAKINVGENKVKLQVW  160 (617)
Q Consensus        83 ~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~--~~~~i~~~~~~~~l~i~  160 (617)
                      ..++|+++|+                      +|||||||+|.|++.... ...+..+.+.  .......++  ..+.++
T Consensus        31 ~~l~I~LvG~----------------------tg~GKSSliN~ilg~~~~-~vs~~~~~T~~~~~~~~~~~g--~~i~vi   85 (257)
T d1h65a_          31 NSLTILVMGK----------------------GGVGKSSTVNSIIGERVV-SISPFQSEGPRPVMVSRSRAG--FTLNII   85 (257)
T ss_dssp             CEEEEEEEES----------------------TTSSHHHHHHHHHTSCCS-CCCSSSCCCSSCEEEEEEETT--EEEEEE
T ss_pred             CCcEEEEECC----------------------CCCcHHHHHHHHhCCCce-eecCCCCcceeEEEEEEEecc--EEEEEE
Confidence            3479999999                      999999999999987632 2222222222  223334444  568999


Q ss_pred             ecCCccccccc-------chhh--hccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCC--CeEEEEEECCCCCCccc
Q psy3029         161 DTAGQERFRSM-------APMY--YRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEP--LVLCVVGNKTDLESSRE  228 (617)
Q Consensus       161 Dt~G~e~~~~~-------~~~~--~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~--iPvIlVgNK~DL~~~~~  228 (617)
                      ||||.......       ...+  ....++++||++++... +-.+ ...+..+....+..  .++|||.||+|...+..
T Consensus        86 DTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~-~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~  164 (257)
T d1h65a_          86 DTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLD-KLVAKAITDSFGKGIWNKAIVALTHAQFSPPDG  164 (257)
T ss_dssp             ECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHH-HHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGG
T ss_pred             eeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHH-HHHHHHHHHHcchhhhhCEEEEEECcccCCcCC
Confidence            99997432211       1111  23578899998876532 2211 22233333322211  37899999999876554


Q ss_pred             cCH
Q psy3029         229 VNR  231 (617)
Q Consensus       229 v~~  231 (617)
                      ...
T Consensus       165 ~~~  167 (257)
T d1h65a_         165 LPY  167 (257)
T ss_dssp             CCH
T ss_pred             CcH
Confidence            443

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.02  E-value=4.9e-10  Score=110.94  Aligned_cols=102  Identities=21%  Similarity=0.187  Sum_probs=69.7

Q ss_pred             CCCCHHHHHHHHHcCC--CCC------------------ccCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchh
Q psy3029         115 LGVGKTSMVVRYIGKM--FSH------------------HISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPM  174 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~--~~~------------------~~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~  174 (617)
                      .++|||||+.+|+...  ...                  ....|+...  ...+..  +..++.++||||+.+|......
T Consensus        11 ~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~--~~~~~~--~~~~~n~iDtPGh~dF~~e~~~   86 (267)
T d2dy1a2          11 AGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTG--VAPLLF--RGHRVFLLDAPGYGDFVGEIRG   86 (267)
T ss_dssp             TTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCE--EEEEEE--TTEEEEEEECCCSGGGHHHHHH
T ss_pred             CCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEee--cccccc--cccceeEEccCchhhhhhhhhh
Confidence            9999999999996211  000                  011122222  222333  4467899999999999988888


Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCC
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLE  224 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~  224 (617)
                      .++-+|++|+|+|+.+........-| ..+.+   .++|.++++||+|..
T Consensus        87 al~~~D~avlvvda~~Gv~~~t~~~~-~~~~~---~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          87 ALEAADAALVAVSAEAGVQVGTERAW-TVAER---LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHCSEEEEEEETTTCSCHHHHHHH-HHHHH---TTCCEEEEEECGGGC
T ss_pred             hhcccCceEEEeeccCCccchhHHHH-Hhhhh---ccccccccccccccc
Confidence            99999999999999886554443333 33333   347999999999963

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.00  E-value=1.4e-10  Score=112.26  Aligned_cols=109  Identities=19%  Similarity=0.134  Sum_probs=70.8

Q ss_pred             EEEECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHH------HHHHHHHHHHhcCCCCCeEEEEEEC
Q psy3029         147 KINVGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFA------AIKTWVKELKRNVDEPLVLCVVGNK  220 (617)
Q Consensus       147 ~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~------~l~~~l~~i~~~~~~~iPvIlVgNK  220 (617)
                      ...+......+.|+||||+..|...+...++-+|++|+|+|+.+...-.      ...+.+..+... .. .++|++.||
T Consensus        73 ~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~-~~-~~iIv~iNK  150 (224)
T d1jnya3          73 FMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM-GL-DQLIVAVNK  150 (224)
T ss_dssp             -CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT-TC-TTCEEEEEC
T ss_pred             EEEEecCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh-CC-CceEEEEEc
Confidence            3334445678999999999999988888899999999999998753111      122222222222 12 367889999


Q ss_pred             CCCCCccc--c----CHHHHHHHHHhcC-----CeEEEEcCCCCCCHH
Q psy3029         221 TDLESSRE--V----NREEAFHYSKSIG-----GTYYETSALQDQGIE  257 (617)
Q Consensus       221 ~DL~~~~~--v----~~~e~~~~~~~~g-----~~~~evSAktg~gI~  257 (617)
                      +|+.....  .    ...+...+...++     ++++++||.+|.||.
T Consensus       151 ~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         151 MDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             GGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             ccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence            99864211  1    1122334444443     378999999999984

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=4.8e-10  Score=109.49  Aligned_cols=105  Identities=17%  Similarity=0.087  Sum_probs=70.1

Q ss_pred             ECCeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhh-------HHHHHHHHHHHHhcCCCCC-eEEEEEECC
Q psy3029         150 VGENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHS-------FAAIKTWVKELKRNVDEPL-VLCVVGNKT  221 (617)
Q Consensus       150 ~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S-------~~~l~~~l~~i~~~~~~~i-PvIlVgNK~  221 (617)
                      +.....++.|+||||+..|...+..-+..+|++|+|+|+....-       .+....| ..+...   .+ ++|+++||+
T Consensus        79 ~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~~~---gv~~iiv~iNKm  154 (239)
T d1f60a3          79 FETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAFTL---GVRQLIVAVNKM  154 (239)
T ss_dssp             EECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHHHT---TCCEEEEEEECG
T ss_pred             eccCCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH-HHHHHc---CCCeEEEEEECC
Confidence            33355789999999999998877788889999999999976421       0122222 222221   23 588899999


Q ss_pred             CCCCccccC----HHHHHHHHHhcC-----CeEEEEcCCCCCCHHH
Q psy3029         222 DLESSREVN----REEAFHYSKSIG-----GTYYETSALQDQGIED  258 (617)
Q Consensus       222 DL~~~~~v~----~~e~~~~~~~~g-----~~~~evSAktg~gI~e  258 (617)
                      |+....+..    .++...+....+     ++++.+||.+|.|+-+
T Consensus       155 D~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         155 DSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            986532211    133444555554     3689999999998644

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.93  E-value=4.6e-11  Score=115.29  Aligned_cols=91  Identities=19%  Similarity=0.213  Sum_probs=69.6

Q ss_pred             ccchhhhccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--HHHHHHHHHhcCCeEE
Q psy3029         170 SMAPMYYRNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--REEAFHYSKSIGGTYY  246 (617)
Q Consensus       170 ~~~~~~~~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~~~~~~~g~~~~  246 (617)
                      .+.++.+.|.|.+++|+++.+|. ++..+++|+.....   .+++.+||+||+||..+.+..  .+...+.+...|++++
T Consensus         2 ~l~RP~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~   78 (231)
T d1t9ha2           2 ELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVY   78 (231)
T ss_dssp             EETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             CCCCCCccccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccce
Confidence            35667789999999999998765 78888988887665   457889999999997643311  1223455677899999


Q ss_pred             EEcCCCCCCHHHHHHHH
Q psy3029         247 ETSALQDQGIEDVFLNV  263 (617)
Q Consensus       247 evSAktg~gI~eLf~~I  263 (617)
                      .+||+++.|+++|.+.|
T Consensus        79 ~~Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          79 LTSSKDQDSLADIIPHF   95 (231)
T ss_dssp             ECCHHHHTTCTTTGGGG
T ss_pred             eeecCChhHHHHHHHhh
Confidence            99999999988876543

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.84  E-value=4.9e-09  Score=103.93  Aligned_cols=123  Identities=16%  Similarity=0.178  Sum_probs=78.3

Q ss_pred             CCCCHHHHHHHHHcC--CCCC-----------c---cCCCcceeEEEEEEEECCeEEEEEEEecCCcccccccchhhhcc
Q psy3029         115 LGVGKTSMVVRYIGK--MFSH-----------H---ISPTIGASFFTAKINVGENKVKLQVWDTAGQERFRSMAPMYYRN  178 (617)
Q Consensus       115 ~nVGKSSLinrl~~~--~~~~-----------~---~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~  178 (617)
                      .++|||||+.+++..  ....           .   .....|.++......+..+..+++|+||||+..|.......++-
T Consensus        15 ~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~~e~~~~l~~   94 (276)
T d2bv3a2          15 IDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRV   94 (276)
T ss_dssp             TTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCSTTHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhHHHHHHHHHh
Confidence            999999999999621  1000           0   00111222222222333355789999999999999999999999


Q ss_pred             CCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcCC
Q psy3029         179 ANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIGG  243 (617)
Q Consensus       179 ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~  243 (617)
                      +|++|+|+|+.+.-......-| ....+   .++|.++++||+|.....-  .+-..++...++.
T Consensus        95 ~D~avlVvda~~Gv~~~T~~~w-~~a~~---~~lP~i~fINKmDr~~ad~--~~~l~ei~~~l~~  153 (276)
T d2bv3a2          95 LDGAIVVFDSSQGVEPQSETVW-RQAEK---YKVPRIAFANKMDKTGADL--WLVIRTMQERLGA  153 (276)
T ss_dssp             CCEEEEEEETTTSSCHHHHHHH-HHHHT---TTCCEEEEEECTTSTTCCH--HHHHHHHHHTTCC
T ss_pred             hhheEEeccccCCcchhHHHHH-HHHHH---cCCCEEEEEeccccccccc--chhHHHHHHHhCC
Confidence            9999999999886544433333 33333   4589999999999754321  2333344455554

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=98.81  E-value=8.5e-10  Score=106.77  Aligned_cols=110  Identities=16%  Similarity=0.042  Sum_probs=63.3

Q ss_pred             EEEEEEecCCcccccccchh---hh--ccCCEEEEEEeCCCh---hhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         155 VKLQVWDTAGQERFRSMAPM---YY--RNANAALLVFDITQY---HSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~---~~--~~ad~iIlV~Dis~~---~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      ..+.++|++|+..+......   ..  ...+.+++++|+...   ..+...  ++...........|.++|+||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~--~l~~~~~~~~~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFV--RFFALLIDLRLGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHH--HHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhH--HHHHHHHHHHhCCCceeeeeccccccH
Confidence            34788999998654322211   11  246689999997543   222221  111111111123689999999998754


Q ss_pred             cccCHHH--------------------------HHHHHHh--cCCeEEEEcCCCCCCHHHHHHHHHHH
Q psy3029         227 REVNREE--------------------------AFHYSKS--IGGTYYETSALQDQGIEDVFLNVSKG  266 (617)
Q Consensus       227 ~~v~~~e--------------------------~~~~~~~--~g~~~~evSAktg~gI~eLf~~I~~~  266 (617)
                      .+.....                          .......  ..++++++||++|+|+++|+..|.+.
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         173 EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            2211000                          0000111  23589999999999999999988764

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.79  E-value=6.1e-09  Score=106.36  Aligned_cols=68  Identities=24%  Similarity=0.215  Sum_probs=54.4

Q ss_pred             CeEEEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCC
Q psy3029         152 ENKVKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL  223 (617)
Q Consensus       152 ~~~~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL  223 (617)
                      ++.+.++|+||||+..|.......++-+|++|+|+|+.+.-..+...-|-. ..+   .++|+++|+||+|.
T Consensus        93 ~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~-a~~---~~~p~i~viNKiDr  160 (341)
T d1n0ua2          93 GNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQ-ALG---ERIKPVVVINKVDR  160 (341)
T ss_dssp             SSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCEEEEEEECHHH
T ss_pred             ccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHH-HHH---cCCCeEEEEECccc
Confidence            457889999999999999999999999999999999998765554333322 222   34799999999996

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.57  E-value=2.2e-07  Score=93.13  Aligned_cols=74  Identities=19%  Similarity=0.170  Sum_probs=45.1

Q ss_pred             CCCCHHHHHHHHHcCCC--CCccC-CCcceeEEEEEEEECC---------------eEEEEEEEecCCccc----cccc-
Q psy3029         115 LGVGKTSMVVRYIGKMF--SHHIS-PTIGASFFTAKINVGE---------------NKVKLQVWDTAGQER----FRSM-  171 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~--~~~~~-~t~g~~~~~~~i~~~~---------------~~~~l~i~Dt~G~e~----~~~~-  171 (617)
                      ||||||||+|++++...  .+.|. .|+......  +.+.+               ....++++|++|...    -..+ 
T Consensus        19 Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~--v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA~~g~GLG   96 (296)
T d1ni3a1          19 PNVGKSTFFRAITKSVLGNPANYPYATIDPEEAK--VAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLG   96 (296)
T ss_dssp             SSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEE--EEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSC
T ss_pred             CCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEE--EeccccchhhhhhcccCCceecccceeeeccccccccccccccH
Confidence            99999999999997542  23231 222222222  22322               124688999998532    2222 


Q ss_pred             --chhhhccCCEEEEEEeCCC
Q psy3029         172 --APMYYRNANAALLVFDITQ  190 (617)
Q Consensus       172 --~~~~~~~ad~iIlV~Dis~  190 (617)
                        .-..++++|++|.|+|+.+
T Consensus        97 n~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          97 NAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             HHHHHHHTTCSEEEEEEECCC
T ss_pred             HHHHHHhhccceeEEEEeccC
Confidence              2334569999999998755

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.52  E-value=2.4e-07  Score=91.88  Aligned_cols=40  Identities=8%  Similarity=-0.051  Sum_probs=27.5

Q ss_pred             CeEEEEEECCCCCCccccCHHHHHHHHHhcCCeEEEEcCC
Q psy3029         212 LVLCVVGNKTDLESSREVNREEAFHYSKSIGGTYYETSAL  251 (617)
Q Consensus       212 iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g~~~~evSAk  251 (617)
                      .|+++|+|..+.........+....++...+..++.+||+
T Consensus       200 KP~i~v~Nv~E~~~~~~~~~~~l~~~~~~~~~~vI~isa~  239 (278)
T d1jala1         200 KPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAA  239 (278)
T ss_dssp             SCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHH
T ss_pred             chhhhhhccccccccccHHHHHHHHHHHhcCCeEEEeEHH
Confidence            7899999976543222222355667777888899999984

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.52  E-value=2.6e-07  Score=93.28  Aligned_cols=76  Identities=20%  Similarity=0.160  Sum_probs=39.5

Q ss_pred             CCCCHHHHHHHHHcCCCCCcc------CCCcceeEEEEEEE----------------ECCeEEEEEEEecCCcccc----
Q psy3029         115 LGVGKTSMVVRYIGKMFSHHI------SPTIGASFFTAKIN----------------VGENKVKLQVWDTAGQERF----  168 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~~------~~t~g~~~~~~~i~----------------~~~~~~~l~i~Dt~G~e~~----  168 (617)
                      ||||||||+|+|++.+.....      .|.+|+........                .......++++|+||.-..    
T Consensus         9 pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pGli~ga~~g   88 (319)
T d1wxqa1           9 PNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPGAHEG   88 (319)
T ss_dssp             TTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC---------
T ss_pred             CCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCCcccchhcc
Confidence            999999999999986542221      12334332111110                0113467999999996321    


Q ss_pred             cccch---hhhccCCEEEEEEeCCC
Q psy3029         169 RSMAP---MYYRNANAALLVFDITQ  190 (617)
Q Consensus       169 ~~~~~---~~~~~ad~iIlV~Dis~  190 (617)
                      ..+..   ..++++|++++|+|+.+
T Consensus        89 ~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          89 RGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             ------CCCSSTTCSEEEEEEETTC
T ss_pred             cchHHHHHHhhccceEEEEEecccc
Confidence            11222   23568999999999863

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.47  E-value=2e-07  Score=94.38  Aligned_cols=104  Identities=14%  Similarity=0.121  Sum_probs=61.1

Q ss_pred             EEEEEEecCCcccccccchhhhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHH
Q psy3029         155 VKLQVWDTAGQERFRSMAPMYYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEA  234 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~~~~~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~  234 (617)
                      +.+.|+.|.|.-.-.   -....-+|.+++|......+..+.+.   ..+.+     +.=++|+||+|+...........
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k---~gilE-----~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIK---KGIFE-----LADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CC---TTHHH-----HCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhh---hhHhh-----hhheeeEeccccccchHHHHHHH
Confidence            356677777653211   12334589999999987765443322   22222     12279999999865433222221


Q ss_pred             HHHHHh----------cCCeEEEEcCCCCCCHHHHHHHHHHHHHH
Q psy3029         235 FHYSKS----------IGGTYYETSALQDQGIEDVFLNVSKGLIC  269 (617)
Q Consensus       235 ~~~~~~----------~g~~~~evSAktg~gI~eLf~~I~~~l~~  269 (617)
                      ..+...          +..+++.+||++|.|++++++.|.+....
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~  257 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSK  257 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHH
Confidence            122221          33479999999999999999999776543

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.44  E-value=2.4e-07  Score=93.99  Aligned_cols=86  Identities=17%  Similarity=0.096  Sum_probs=50.1

Q ss_pred             hhccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccC--HHHHHHHHH-------hcCCeE
Q psy3029         175 YYRNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVN--REEAFHYSK-------SIGGTY  245 (617)
Q Consensus       175 ~~~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~--~~e~~~~~~-------~~g~~~  245 (617)
                      +...+|.+++|.+....+..+.+..   .+.+.     +=++|+||+|+.......  ..+......       .+..++
T Consensus       164 i~~~aD~~l~v~~P~~Gd~iq~~k~---gi~e~-----aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p~V  235 (327)
T d2p67a1         164 VARMVDCFISLQIAGGGDDLQGIKK---GLMEV-----ADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRV  235 (327)
T ss_dssp             HHTTCSEEEEEECC------CCCCH---HHHHH-----CSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEE
T ss_pred             hhhccceEEEEecCCCchhhhhhch---hhhcc-----ccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCccee
Confidence            4557899999987655443333222   22222     227889999986532211  111111111       123479


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHH
Q psy3029         246 YETSALQDQGIEDVFLNVSKGLI  268 (617)
Q Consensus       246 ~evSAktg~gI~eLf~~I~~~l~  268 (617)
                      +.|||++|.||++|++.|.+...
T Consensus       236 ~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         236 LTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             EECBGGGTBSHHHHHHHHHHHHH
T ss_pred             EEEEeeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999976554

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.28  E-value=1.9e-06  Score=85.72  Aligned_cols=70  Identities=20%  Similarity=0.121  Sum_probs=44.4

Q ss_pred             EEEEecCCccc-------------ccccchhhhccCCE-EEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         157 LQVWDTAGQER-------------FRSMAPMYYRNANA-ALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       157 l~i~Dt~G~e~-------------~~~~~~~~~~~ad~-iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      +.|+|+||...             ...+...|+.+.+. +++|.+.....+-..+..|...+..   ...++++|.||+|
T Consensus       127 l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~---~~~r~i~Vltk~D  203 (299)
T d2akab1         127 LTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP---QGQRTIGVITKLD  203 (299)
T ss_dssp             EEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT---TCSSEEEEEECGG
T ss_pred             eeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCc---CCCceeeEEeccc
Confidence            77999999632             12445667777775 4556666555444444555555433   3347899999999


Q ss_pred             CCCcccc
Q psy3029         223 LESSREV  229 (617)
Q Consensus       223 L~~~~~v  229 (617)
                      +..+...
T Consensus       204 ~~~~~~~  210 (299)
T d2akab1         204 LMDEGTD  210 (299)
T ss_dssp             GSCTTCC
T ss_pred             cccchhh
Confidence            8765443

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.02  E-value=6e-06  Score=82.44  Aligned_cols=69  Identities=22%  Similarity=0.196  Sum_probs=43.2

Q ss_pred             EEEEEecCCccc-------------ccccchhhhccCCEEEEEE-eCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECC
Q psy3029         156 KLQVWDTAGQER-------------FRSMAPMYYRNANAALLVF-DITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKT  221 (617)
Q Consensus       156 ~l~i~Dt~G~e~-------------~~~~~~~~~~~ad~iIlV~-Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~  221 (617)
                      .+.|+||||...             ...++..|+.+++.+++++ +......-.....++..+.   +....+++|.||+
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~---~~~~r~i~Vitk~  208 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVITKL  208 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEECT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhC---cCCCeEEEEEecc
Confidence            477999999632             2346677888999877665 4433332222334444442   3335799999999


Q ss_pred             CCCCcc
Q psy3029         222 DLESSR  227 (617)
Q Consensus       222 DL~~~~  227 (617)
                      |.....
T Consensus       209 D~~~~~  214 (306)
T d1jwyb_         209 DLMDKG  214 (306)
T ss_dssp             TSSCSS
T ss_pred             ccccch
Confidence            986543

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.99  E-value=1.6e-06  Score=78.68  Aligned_cols=53  Identities=25%  Similarity=0.456  Sum_probs=45.5

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      |++++|..+|||||+++||+.+.|...|.||+|.+| .+.+..+++.++|+|--
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~-~~~~~~~~~~~~l~i~D   56 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILD   56 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccc-cccccccccceEEEEee
Confidence            445555559999999999999999999999999998 56677899999999874

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.98  E-value=8.7e-07  Score=80.81  Aligned_cols=55  Identities=18%  Similarity=0.160  Sum_probs=45.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..+||||+++++|+.+.|...|.||+|.+|..+.+.++++.++|+|..
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D   58 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWD   58 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccc
Confidence            5777888889999999999999999999999999999999999999999998754

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.98  E-value=1.9e-06  Score=77.96  Aligned_cols=55  Identities=29%  Similarity=0.385  Sum_probs=48.4

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ..|++++|..+||||+++++|+.+.|...+.||++.+| .+.+.++++.++|+|..
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d   58 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVD   58 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecc
Confidence            35667777779999999999999999999999999998 68999999999998753

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.92  E-value=3e-06  Score=76.80  Aligned_cols=53  Identities=32%  Similarity=0.537  Sum_probs=47.1

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|..+||||+++.+|+.+.|...+.||+|.+|..+.+..+++.++|+|-
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~   57 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIW   57 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCccccccccceeecccccccccccccccc
Confidence            44445555999999999999999999999999999999999999999999984

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=97.91  E-value=3.3e-06  Score=76.65  Aligned_cols=56  Identities=18%  Similarity=0.243  Sum_probs=49.3

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +=+|++++|..+||||+++++|+.+.|...|.||+|.+| .+.+.++++.+.|++..
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d   58 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILD   58 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccc
Confidence            345777788889999999999999999999999999888 67899999999998864

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=97.91  E-value=4.3e-06  Score=82.36  Aligned_cols=58  Identities=22%  Similarity=0.317  Sum_probs=37.6

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHcCCCCCccCCCcceeEEEEEEEECCeEEEEEEEe
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQVWD  161 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~~~~~~~~~~t~g~~~~~~~i~~~~~~~~l~i~D  161 (617)
                      ...++|+|+|.                      ||||||||+|+|.+.+ ...+.+++|++.....+..+.   .+.++|
T Consensus       110 ~~~~~v~vvG~----------------------PNvGKSsliN~L~~~~-~~~~~~~pG~Tr~~~~i~~~~---~~~l~D  163 (273)
T d1puja_         110 PRAIRALIIGI----------------------PNVGKSTLINRLAKKN-IAKTGDRPGITTSQQWVKVGK---ELELLD  163 (273)
T ss_dssp             CCCEEEEEEES----------------------TTSSHHHHHHHHHTSC-CC------------CCEEETT---TEEEEE
T ss_pred             CCceEEEEEec----------------------Cccchhhhhhhhhccc-eEEECCcccccccceEEECCC---CeEEec
Confidence            45688999999                      9999999999999876 567788899887665555443   388999


Q ss_pred             cCCc
Q psy3029         162 TAGQ  165 (617)
Q Consensus       162 t~G~  165 (617)
                      |||.
T Consensus       164 TPGi  167 (273)
T d1puja_         164 TPGI  167 (273)
T ss_dssp             CCCC
T ss_pred             CCCc
Confidence            9996

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=4.4e-06  Score=75.72  Aligned_cols=54  Identities=26%  Similarity=0.398  Sum_probs=47.8

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|.++|||||+++||+.+.|...|.||+|..| .+.+.++++.+.|++.
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~   55 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQIT   55 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccc
Confidence            46778888889999999999999999999999999777 6788999999999865

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.82  E-value=3.6e-06  Score=76.10  Aligned_cols=56  Identities=21%  Similarity=0.335  Sum_probs=49.2

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +.+|++++|..+|||||++.||+.+.|...|.||++..| .+.+.+++..+.+++..
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d   57 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILD   57 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEecccc
Confidence            457888888889999999999999999999999999877 67788899999888754

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.81  E-value=4.2e-06  Score=76.82  Aligned_cols=55  Identities=20%  Similarity=0.308  Sum_probs=49.0

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +||++++|..+||||+++.||+.+.|...|.||++..+ .+.+.++++.+.++|--
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D   56 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWD   56 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceeecc-cccccccceEEeecccc
Confidence            48889999999999999999999999999999997654 78889999999998764

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.79  E-value=6.9e-06  Score=74.09  Aligned_cols=56  Identities=23%  Similarity=0.348  Sum_probs=48.7

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +.+|++++|..+|||||+++||+.+.|...+.||++. +..+.+.+++..++|++..
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~~~d   57 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILD   57 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEEEEEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCceee-eeeeeeecCcceEeecccc
Confidence            3467777888899999999999999999999999985 5588999999999999764

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=6.4e-06  Score=75.62  Aligned_cols=52  Identities=25%  Similarity=0.232  Sum_probs=44.0

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|.++|||||+++||+.+.|...+.||++. +..+.+..+++.++|++.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~-~~~~~~~~~~~~~~~~~~   58 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLW   58 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCC-EEEEEEEETTEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCcccccceee-ceeeeeeccCcceEEEee
Confidence            4444445599999999999999999999999985 557889999999999984

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.78  E-value=5e-06  Score=75.12  Aligned_cols=55  Identities=36%  Similarity=0.452  Sum_probs=50.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..+||||+++.||+.+.|...+.||++.++..+.+..+++.+++++-.
T Consensus         4 fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d   58 (167)
T d1z08a1           4 FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD   58 (167)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeec
Confidence            6777788889999999999999999999999999999999999999999998753

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.76  E-value=8.6e-06  Score=73.81  Aligned_cols=54  Identities=31%  Similarity=0.405  Sum_probs=49.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+|||||++++++.+.|...+.+|++.++..+++.++++.++|+|-
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~   59 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIW   59 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEE
Confidence            567777777999999999999999999999999999999999999999999875

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.74  E-value=4.8e-06  Score=75.12  Aligned_cols=55  Identities=29%  Similarity=0.384  Sum_probs=42.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..++||||++++++.+.|...+.||+|.++..+.+.++++.++|+|--
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~D   57 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWD   57 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEEC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEE
Confidence            4566666669999999999999999999999999999999999999999998753

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.72  E-value=9e-06  Score=73.13  Aligned_cols=53  Identities=32%  Similarity=0.427  Sum_probs=46.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      |++++|.++||||++++||+.+.|...+.||++.++..+.+..++..+.+++.
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~   56 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLW   56 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEE
T ss_pred             EEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeee
Confidence            34444555999999999999999999999999999999999999999999986

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.71  E-value=1.2e-05  Score=72.94  Aligned_cols=54  Identities=20%  Similarity=0.306  Sum_probs=47.6

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|..+||||++++||+.+.|...+.||.+. +..+.+.++++.+++++.
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~~~   58 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIED-SYTKQCVIDDRAARLDIL   58 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCE-EEEEEEEETTEEEEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCcccCccccc-ceeeeeeecccccccccc
Confidence            367777888899999999999999999999999875 558999999999999875

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.70  E-value=6.9e-06  Score=75.67  Aligned_cols=53  Identities=23%  Similarity=0.254  Sum_probs=45.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+|||||+++||+.+.|...|.||++ ++..+.+.+++..++|++-
T Consensus        10 ~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~   62 (185)
T d2atxa1          10 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLY   62 (185)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecc
Confidence            4556666669999999999999999999999997 4568899999999999875

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.69  E-value=1.3e-05  Score=72.69  Aligned_cols=56  Identities=21%  Similarity=0.305  Sum_probs=48.9

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +-+|++++|..++|||+++++|+.+.|...+.||++..| .+.+.++++.++++|--
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d   58 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLD   58 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccc
Confidence            346777788889999999999999999999999998776 78899999999999753

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.68  E-value=1e-05  Score=72.66  Aligned_cols=55  Identities=25%  Similarity=0.372  Sum_probs=49.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..+|||||+++||+.+.|...+.||++..+..+.+..++..++++|..
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d   55 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWD   55 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecc
Confidence            4677788889999999999999999999999999999999999999999988763

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.66  E-value=1.1e-05  Score=73.33  Aligned_cols=57  Identities=26%  Similarity=0.279  Sum_probs=35.2

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ..+|++++|..++|||+++++++.+.|...+.||+|.++..+.+.++++.+.|+|.-
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D   61 (173)
T d2fu5c1           5 YLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD   61 (173)
T ss_dssp             EEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEE
T ss_pred             EEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEE
Confidence            346777777889999999999999999999999999999999999999999998753

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.66  E-value=1.4e-05  Score=72.04  Aligned_cols=54  Identities=31%  Similarity=0.345  Sum_probs=49.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|.++||||++++|++.+.|...+.++++.++..+.+.++++.++|+|-
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~   58 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIW   58 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEe
Confidence            567777777999999999999999999999999999999999999999999875

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.65  E-value=1.4e-05  Score=71.99  Aligned_cols=54  Identities=20%  Similarity=0.274  Sum_probs=47.2

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|..+|||||++++++.+.|...+.||++.++ ...+..+++.+.|.+-
T Consensus         3 e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~~   56 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDIL   56 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEEETTEEEEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceee-ccceeeeceeeeeeee
Confidence            46777777889999999999999999999999999988 5567889999998875

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=1.5e-05  Score=71.97  Aligned_cols=59  Identities=25%  Similarity=0.387  Sum_probs=52.8

Q ss_pred             CCCcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         327 RVPNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       327 ~~~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      ++..+|++++|..+|||||++.|++.+.|...+.||++..+..+.+..++..+.+.+-.
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d   61 (170)
T d1r2qa_           3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWD   61 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEE
T ss_pred             ceeEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEecc
Confidence            45667888999999999999999999999999999999999999999999988888643

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.61  E-value=2.3e-05  Score=71.11  Aligned_cols=54  Identities=22%  Similarity=0.266  Sum_probs=45.8

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      -+|++++|..+|||||+++||+.+.|...+.||. .++..+.+.++++.++|++-
T Consensus         6 ~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~-~~~~~~~~~~~~~~~~l~~~   59 (173)
T d2fn4a1           6 THKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTI-EDSYTKICSVDGIPARLDIL   59 (173)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTC-CEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCccccccc-ccceeeEeccCCeeeeeecc
Confidence            3556666666999999999999999999998886 56668999999999999875

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.61  E-value=1.9e-05  Score=71.88  Aligned_cols=54  Identities=22%  Similarity=0.166  Sum_probs=46.6

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      .|++++|..+||||+++.+|+.+.|...+.||++..+ .+.+.++++.++|+|--
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~D   56 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWD   56 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-cccccccccceeeeccc
Confidence            4667777779999999999999999999999998554 78899999999998743

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.60  E-value=1.9e-05  Score=72.96  Aligned_cols=53  Identities=21%  Similarity=0.226  Sum_probs=45.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .|++++|..+|||||++.||+.+.|...|.||++..+ .+.+.++++.++|+|-
T Consensus         4 iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~   56 (191)
T d2ngra_           4 IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNY-AVTVMIGGEPYTLGLF   56 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEETTEEEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeeec-ceeEeeCCceeeeecc
Confidence            3556666669999999999999999999999998654 7888999999999875

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.56  E-value=2.3e-05  Score=70.59  Aligned_cols=55  Identities=31%  Similarity=0.415  Sum_probs=48.2

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|..+|||||+++||+.+.|...+.||++..+....+..++..+.++|.
T Consensus         4 ~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   58 (167)
T d1z0ja1           4 ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIW   58 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeee
Confidence            3556666666999999999999999999999999999999999999999888863

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.55  E-value=2.3e-05  Score=72.53  Aligned_cols=55  Identities=24%  Similarity=0.317  Sum_probs=49.9

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .+|++++|..+|||||++++++.+.|...+.||+|..+..+.+.+++..+.|+|-
T Consensus         6 ~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~   60 (194)
T d2bcgy1           6 LFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW   60 (194)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEE
Confidence            3667777777999999999999999999999999999999999999999999875

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.53  E-value=2.9e-05  Score=70.09  Aligned_cols=54  Identities=28%  Similarity=0.328  Sum_probs=49.5

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..++|||+++++++.+.|...+.||+|.++..+.+..+++.++|++-
T Consensus         6 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~w   59 (169)
T d3raba_           6 FKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIW   59 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEE
Confidence            567777777999999999999999999999999999999999999999999875

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.51  E-value=2.8e-05  Score=70.53  Aligned_cols=55  Identities=27%  Similarity=0.341  Sum_probs=46.0

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      -+|++++|..+||||+++++++.+.|...+.+|++..+..+.+..+++.+.+++.
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   60 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIW   60 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeee
Confidence            4567777777999999999999999999999999999999999999999999875

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.46  E-value=3.9e-05  Score=69.21  Aligned_cols=55  Identities=31%  Similarity=0.318  Sum_probs=47.3

Q ss_pred             ceeeeeeecccccccceeccccCcccC-ccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~-~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..+||||+++.+++.+.|.. .+.+|++.++..+.+..++..++|+|--
T Consensus         7 fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D   62 (170)
T d2g6ba1           7 FKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWD   62 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEE
Confidence            567777777999999999999998864 4578899999999999999999998754

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.45  E-value=2.8e-05  Score=71.15  Aligned_cols=54  Identities=35%  Similarity=0.451  Sum_probs=47.0

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+|||||++++++.+.|...|.||+|.++..+.+...+..+.+++.
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~   56 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW   56 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEee
Confidence            356666666999999999999999999999999999999999999988877754

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.29  E-value=7e-05  Score=67.82  Aligned_cols=55  Identities=27%  Similarity=0.317  Sum_probs=45.7

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..+||||+++++++.+.|...+.++++.+...+.+.+++..+.++|.-
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d   59 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWD   59 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecc
Confidence            4566666669999999999999999999999999999899999999999988764

>d2vxfa1 b.38.1.5 (A:6-85) LSM14 homolog A (Lsm14a) {Zebrafish (Danio rerio) [TaxId: 7955]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: LSM14 N-terminal domain-like
domain: LSM14 homolog A (Lsm14a)
species: Zebrafish (Danio rerio) [TaxId: 7955]

Probab=97.29  E-value=0.00091  Score=51.55  Aligned_cols=68  Identities=18%  Similarity=0.298  Sum_probs=55.4

Q ss_pred             hcCCEEEEEEeCCcEEEEEEeeecC-CceEEEEeeeecCCCC----CCCCCCCcccceeeeecCceeEEEecc
Q psy3029         459 HIGDKVTVYTVHGKQFEGYLKTFSK-QFELVISMTHQVDPEN----PQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       459 ~iG~~v~v~~~~G~~y~Gi~~~~s~-~~~~~l~~~~~~~~~~----~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      .||+.+.+-.|++.+|||+|++.++ +.-|+|+-++-.-.+.    ...+..+++-+.++|.+.||-++.+.+
T Consensus         2 yIGs~IsLISk~dIRYeGiL~~Id~~~sTi~L~nVrsfGTEgR~~~~~ipp~~~vy~~IvFrgsDIKdL~v~e   74 (80)
T d2vxfa1           2 YIGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIAPRDETFEYIIFRGSDIKDLTVCE   74 (80)
T ss_dssp             STTSEEEEEETTSCEEEEEEEEEETTTTEEEEEEEEECCSTTSCCSSCCCCCCCCEEEEEEETTTEEEEEESS
T ss_pred             ccCCEEEEEEcCCcEEEEEEEeeccccCEEEeeeeeEeecCCCCCCCccCCCCcceeEEEEcCcCcceEEecc
Confidence            5899999999999999999999986 4679999888763221    223445788899999999999998865

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.25  E-value=9.2e-05  Score=66.08  Aligned_cols=55  Identities=24%  Similarity=0.307  Sum_probs=48.9

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..+||||++++||+.+.|...+.+|++..+..+.+.+....+.+.+.-
T Consensus         3 ~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   57 (165)
T d1z06a1           3 FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWD   57 (165)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEe
Confidence            5677777889999999999999999999999999999899999999888877643

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.25  E-value=9.9e-05  Score=66.95  Aligned_cols=52  Identities=33%  Similarity=0.450  Sum_probs=45.2

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..+||||+++++++.+.|...+.++++..+..+.+.+++..+++.|-
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   61 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIW   61 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEE
T ss_pred             EEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEE
Confidence            3333444999999999999999999999999999999999999999888874

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=9.7e-05  Score=67.23  Aligned_cols=54  Identities=13%  Similarity=0.140  Sum_probs=44.5

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      .+|++++|..+||||+++++|+.+.|.. +.+|++..| .+.+.++++.+.|+|.-
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~-~~~i~v~~~~~~l~i~D   58 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIRE   58 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEE-EEEEEETTEEEEEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeE-EEEeecCceEEEEEEee
Confidence            4566666666999999999999999965 457777777 78999999999999864

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.23  E-value=0.00011  Score=66.28  Aligned_cols=54  Identities=33%  Similarity=0.367  Sum_probs=47.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+||||++++++..+.|...+.||++.....+.+..+++.+.++|-
T Consensus         6 ~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~   59 (174)
T d2bmea1           6 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW   59 (174)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEE
Confidence            455666666999999999999999999999999999988899999999988875

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=8.8e-05  Score=67.07  Aligned_cols=56  Identities=16%  Similarity=0.107  Sum_probs=44.2

Q ss_pred             cceeeeeeecccccccceeccccCcccC-ccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSH-HISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~-~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      .+|++++|..+||||+++++|....+.. .+.+|+|.++..+.+.++++.+.+.+..
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d   59 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLD   59 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEEC
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeec
Confidence            3677788888999999999999776653 4468899999999999999999888654

>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: D3 core SNRNP protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=0.0007  Score=52.06  Aligned_cols=69  Identities=13%  Similarity=0.087  Sum_probs=55.9

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      +.++..++|+.|+|.+|||..|+|++.++..-+.++|+=|.....+..     ....+.++|.+..|.-|.++|
T Consensus         4 l~~L~~~~g~~V~VeLkng~~~~G~L~~~D~~mNi~L~~~~~~~~~~~-----~~~~~~v~IRG~~I~~i~lpd   72 (72)
T d1d3ba_           4 IKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGR-----VAQLEQVYIRGCKIRFLILPD   72 (72)
T ss_dssp             HHHHHHTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEECTTSC-----EEEEEEEEECGGGEEEEEECC
T ss_pred             hHHHHhcCCCEEEEEECCCeEEEEEEEEEcCCeeEEEEEEEEEcCCCc-----EeEcCeEEEECCEEEEEEcCC
Confidence            457889999999999999999999999999999999999977643221     122357888888888887765

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.12  E-value=0.00012  Score=66.14  Aligned_cols=54  Identities=26%  Similarity=0.318  Sum_probs=43.7

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|++++|..+|||||++++++.+.|...+.++.+.....+....++..+.+.+.
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~   57 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIW   57 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEee
Confidence            466677777999999999999999999999999999989999999999998886

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.07  E-value=0.00011  Score=67.26  Aligned_cols=48  Identities=13%  Similarity=-0.057  Sum_probs=36.2

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEE
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKL  381 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~L  381 (617)
                      .+|++++|.++|||||++.||..+.|.  |.||||.++.  ++......+++
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~~--~~pTiG~~~~--~~~~~~~~~~~   49 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEY--PFDLQSVIFRM   49 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTSS--CCCCCSCEEE--EEECSSCEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCC--CCceeeEEEE--EEeccceeeee
Confidence            467778888899999999999988874  6799999884  34444444443

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.05  E-value=0.00016  Score=65.03  Aligned_cols=53  Identities=17%  Similarity=0.108  Sum_probs=37.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeec
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRT  385 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~  385 (617)
                      +|++++|..+|||||+++++....+.. +.||++..| .+++.++++.+.|+|--
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~~~~-~~~i~~~~~~~~l~i~D   54 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAGHTY-DRSIVVDGEEASLMVYD   54 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC----------CEEE-EEEEEETTEEEEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCC-cCCeeeeee-cceeeccccccceeeee
Confidence            467777888999999999999876654 346666655 78999999999998753

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.92  E-value=0.00022  Score=65.38  Aligned_cols=52  Identities=15%  Similarity=0.013  Sum_probs=38.8

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      -+|++++|.++|||||+++||   .|...+.||||..+  .++.+.+..+.+--..|
T Consensus         2 ~iKivllG~~~vGKTsll~r~---~f~~~~~pTiG~~~--~~~~~~~~~~~~~D~~g   53 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQM---RIIHGQDPTKGIHE--YDFEIKNVPFKMVDVGG   53 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH---HHHHSCCCCSSEEE--EEEEETTEEEEEEEECC
T ss_pred             eEEEEEECCCCCCHHHHHHHH---hcCCCCCCeeeeEE--EEEeeeeeeeeeecccc
Confidence            357777777899999999999   47788899999766  45666666555544444

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=96.91  E-value=0.00026  Score=63.15  Aligned_cols=50  Identities=26%  Similarity=0.218  Sum_probs=38.7

Q ss_pred             eeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      ++++|..++|||++++++..+.|...+.||+|.++  +.+..++..+.+--.
T Consensus         5 i~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~--~~~~~~~~~~~i~D~   54 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNM--RKITKGNVTIKLWDI   54 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEE--EEEEETTEEEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHcCCCCCcccccceeee--eeeeeeeEEEEEeec
Confidence            33444449999999999999999999999999877  356777766665444

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.72  E-value=0.0038  Score=58.56  Aligned_cols=62  Identities=11%  Similarity=0.117  Sum_probs=34.3

Q ss_pred             cCCEEEEEEeCCChhhH-HHHHHHHHHHHhcCCCCCeEEEEEECCCCCCccccCHHHHHHHHHhcC--CeEEEEc
Q psy3029         178 NANAALLVFDITQYHSF-AAIKTWVKELKRNVDEPLVLCVVGNKTDLESSREVNREEAFHYSKSIG--GTYYETS  249 (617)
Q Consensus       178 ~ad~iIlV~Dis~~~S~-~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~~v~~~e~~~~~~~~g--~~~~evS  249 (617)
                      ..+.+|.|+|+...... .....+..++..   .+   +||+||+|+.++.    +...+..+.++  .++++++
T Consensus       121 ~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~---AD---~ivlNK~Dl~~~~----~~~~~~l~~lNP~a~Ii~~~  185 (222)
T d1nija1         121 LLDGVIALVDAVHADEQMNQFTIAQSQVGY---AD---RILLTKTDVAGEA----EKLHERLARINARAPVYTVT  185 (222)
T ss_dssp             EEEEEEEEEETTTHHHHHHHCHHHHHHHHT---CS---EEEEECTTTCSCT----HHHHHHHHHHCSSSCEEECC
T ss_pred             cccchhhhhhhhhhhhhhhhhHHHHHHHHh---CC---cccccccccccHH----HHHHHHHHHHhCCCeEEEee
Confidence            35788999998765421 111112233322   22   6889999997532    33444555554  3676554

>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: D1 core SNRNP protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.71  E-value=0.0037  Score=48.82  Aligned_cols=70  Identities=9%  Similarity=0.087  Sum_probs=57.6

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEecc
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      |+=++..++|+.|+|.+|||..|.|.+..+..-+-+.|+=|...+.+..     ..-.+.+.|.+..|--|.++|
T Consensus         2 lv~fL~~~~g~~V~VeLkng~~~~G~L~~~D~~MNl~L~~~~~~~~~~~-----~~~~~~v~IRG~~Ir~i~lPd   71 (80)
T d1b34a_           2 LVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNRE-----PVQLETLSIRGNNIRYFILPD   71 (80)
T ss_dssp             HHHHHHTCTTCEEEEEETTCCEEEEEEEEECTTCCEEEEEEEEECTTSC-----CEEEEEEEECGGGEEEEECCT
T ss_pred             HHHHHHHcCCCEEEEEECCCCEEEEEEEEEcCCcEEEEEEEEEEcCCCC-----EEEcccEEEcCCEEEEEECCC
Confidence            6778999999999999999999999999999999999999987643221     123457788888888888865

>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Archaeal homoheptameric Sm protein
species: Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]

Probab=96.67  E-value=0.0028  Score=48.48  Aligned_cols=66  Identities=17%  Similarity=0.300  Sum_probs=52.8

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEE
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIE  523 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~  523 (617)
                      +-++..++|++|.|.+|||..|.|+|.++..-+-++|+-|........     ..-...++|.+..|+-|.
T Consensus         5 l~~L~~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~-----~~~~g~~~IRG~~I~~Is   70 (72)
T d1i4k1_           5 LDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEV-----VRKVGSVVIRGDTVVFVS   70 (72)
T ss_dssp             HHHHHTTTTSEEEEEEGGGCEEEEEEEEECTTCCEEEEEEEEESSSSE-----EEEEEEEEECGGGEEEEE
T ss_pred             HHHHHHhCCCEEEEEECCCCEEEEEEEEEcCCCCeEEeeEEEEecCCe-----EeEcceEEEeCCeEEEEE
Confidence            567899999999999999999999999999999999999987643211     112346788888887664

>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein {Sulfolobus solfataricus [TaxId: 2287]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Archaeal homoheptameric Sm protein
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.67  E-value=0.004  Score=48.11  Aligned_cols=70  Identities=14%  Similarity=0.327  Sum_probs=55.1

Q ss_pred             chHhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEe
Q psy3029         450 ARFMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEA  524 (617)
Q Consensus       450 ~r~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~  524 (617)
                      ++-.-+|..++|++|.|.++||..|.|+|.++..-+-++|+-|........     ..-...++|.+..|+-|.+
T Consensus         6 ~~~~~~L~~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~-----~~~~~~v~iRG~~I~~I~~   75 (76)
T d1th7a1           6 ETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGS-----GKKLGTIVIRGDNVILISP   75 (76)
T ss_dssp             HHHHHHHHHHTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEECSSSC-----EEEEEEEEECGGGEEEEEE
T ss_pred             ccHHHHHHHhCCCEEEEEECCCCEEEEEEEEECCCCCEEEeEEEEEecCCc-----ccCcceEEEECCEEEEEEe
Confidence            334457788999999999999999999999999999999999987643221     1123568888888887764

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=96.65  E-value=0.0035  Score=55.67  Aligned_cols=14  Identities=43%  Similarity=0.721  Sum_probs=13.2

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++.+++
T Consensus         9 ~G~GKSTLl~~i~~   22 (178)
T d1ye8a1           9 PGVGKTTLVKKIVE   22 (178)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHh
Confidence            99999999999986

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.65  E-value=0.00018  Score=65.53  Aligned_cols=48  Identities=23%  Similarity=0.279  Sum_probs=40.2

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEE
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENK  378 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~  378 (617)
                      +|++++|..+||||+++++++.+.|...+.+|.+.+|..+.+.+++..
T Consensus         6 ~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~   53 (186)
T d2f7sa1           6 IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQG   53 (186)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC--
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEeccc
Confidence            455556666999999999999999999999999999999998887654

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.63  E-value=4.3e-05  Score=70.86  Aligned_cols=43  Identities=12%  Similarity=0.046  Sum_probs=24.2

Q ss_pred             ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCC
Q psy3029         177 RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDL  223 (617)
Q Consensus       177 ~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL  223 (617)
                      ....+.++++|..++..  .-.+++..+.+..  ..+++++.++++.
T Consensus        82 ~~~~~~~vi~d~~~~~~--~~r~~~~~~~~~~--~~~~~~~~~~~~~  124 (213)
T d1bifa1          82 SEEGGHVAVFDATNTTR--ERRAMIFNFGEQN--GYKTFFVESICVD  124 (213)
T ss_dssp             HTTCCSEEEEESCCCSH--HHHHHHHHHHHHH--TCEEEEEEECCCC
T ss_pred             HhcCCCEEEeecCCccH--HHHHHHHHHHHhc--CCeEEEEEeeccH
Confidence            34566678889877532  2223333333322  2477888888863

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.62  E-value=0.00027  Score=66.75  Aligned_cols=51  Identities=22%  Similarity=0.227  Sum_probs=27.6

Q ss_pred             CCCCHHHHHHHHHcCCCCC--ccCCCc--c--eeEEEEEEEECCeEEEEEEEecCCcccc
Q psy3029         115 LGVGKTSMVVRYIGKMFSH--HISPTI--G--ASFFTAKINVGENKVKLQVWDTAGQERF  168 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~--~~~~t~--g--~~~~~~~i~~~~~~~~l~i~Dt~G~e~~  168 (617)
                      +|||||||+|+|..+....  ......  |  .+.....+.+..+   -.++||||...+
T Consensus       104 SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~  160 (225)
T d1u0la2         104 SGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANL  160 (225)
T ss_dssp             TTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTC
T ss_pred             CCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCccccc
Confidence            9999999999998653211  111110  1  1112223344333   368999997544

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.51  E-value=7.6e-05  Score=69.97  Aligned_cols=92  Identities=15%  Similarity=0.124  Sum_probs=54.7

Q ss_pred             EEEEEEecCCccccccc----chhhh--------ccCCEEEEEEeCCChh-hHHHHHHHHHHHHhcCCCCCeEEEEEECC
Q psy3029         155 VKLQVWDTAGQERFRSM----APMYY--------RNANAALLVFDITQYH-SFAAIKTWVKELKRNVDEPLVLCVVGNKT  221 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~----~~~~~--------~~ad~iIlV~Dis~~~-S~~~l~~~l~~i~~~~~~~iPvIlVgNK~  221 (617)
                      ..+.|+||+|...+...    +..+.        ...+-++||+|++... ....+..++..+   .    +--++.||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~---~----~~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV---G----LTGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH---C----CSEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc---C----CceEEEecc
Confidence            46789999996433211    11111        1357789999987654 344444333332   1    124789999


Q ss_pred             CCCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         222 DLESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       222 DL~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                      |-...    .-.+..++...++|+..++  +|++.+++
T Consensus       162 Det~~----~G~~l~~~~~~~~Pi~~i~--~Gq~p~Dl  193 (207)
T d1okkd2         162 DGTAK----GGVLIPIVRTLKVPIKFVG--VGEGPDDL  193 (207)
T ss_dssp             TSSCC----CTTHHHHHHHHCCCEEEEE--CSSSTTCE
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCChHhC
Confidence            96432    2235577788899988887  46666554

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.51  E-value=0.00034  Score=62.83  Aligned_cols=54  Identities=31%  Similarity=0.418  Sum_probs=39.4

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECC-EEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGE-NKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~-~~v~LqI~  384 (617)
                      +|++++|..+|||||++++|+.+.|...+.||.+..+....+...+ ..+.+++.
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~   57 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVW   57 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceee
Confidence            3555666669999999999999999999999999888766666554 45666653

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.45  E-value=0.00025  Score=66.50  Aligned_cols=93  Identities=17%  Similarity=0.177  Sum_probs=56.1

Q ss_pred             EEEEEEecCCcccccc------cchhhh--ccCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCc
Q psy3029         155 VKLQVWDTAGQERFRS------MAPMYY--RNANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTDLESS  226 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~------~~~~~~--~~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~  226 (617)
                      ..+.++||+|...+..      ....+.  -..+-+++|+|+.....  .+..........   ++. -+|.||.|... 
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~--~~~~~~~~~~~~---~~~-~lI~TKlDet~-  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK--AYDLASKFNQAS---KIG-TIIITKMDGTA-  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG--HHHHHHHHHHHC---TTE-EEEEECTTSCS-
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcc--hHHHHhhhhccc---Ccc-eEEEecccCCC-
Confidence            4688999999643321      111111  14678899999876532  222222222221   122 36799999643 


Q ss_pred             cccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         227 REVNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       227 ~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                         ..-.+..++...++|+..++  +|++|++|
T Consensus       168 ---~~G~~l~~~~~~~lPi~~it--~Gq~v~DL  195 (211)
T d1j8yf2         168 ---KGGGALSAVAATGATIKFIG--TGEKIDEL  195 (211)
T ss_dssp             ---CHHHHHHHHHTTTCCEEEEE--CSSSTTCE
T ss_pred             ---cccHHHHHHHHHCcCEEEEe--CCCCcccC
Confidence               34566788888999988887  57777653

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.41  E-value=0.00028  Score=66.08  Aligned_cols=93  Identities=16%  Similarity=0.116  Sum_probs=54.8

Q ss_pred             EEEEEEecCCcccccc----cchh---hhc-----cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         155 VKLQVWDTAGQERFRS----MAPM---YYR-----NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~----~~~~---~~~-----~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      +.+.|+||+|......    .+..   .++     ..+-+++|.|+....  +.+.+.........    +--++.||.|
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~--~~~~~~~~~~~~~~----~~~lIlTKlD  165 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQ--NAVSQAKLFHEAVG----LTGITLTKLD  165 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTH--HHHHHHHHHHHHSC----CCEEEEECCT
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCc--chHHHHhhhhhccC----CceEEEeecC
Confidence            4578999999532211    1111   122     246889999976543  33333323322221    2247899999


Q ss_pred             CCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         223 LESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       223 L~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                      -...    .-.+...+...++|+..++  +|++|++|
T Consensus       166 e~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl  196 (211)
T d2qy9a2         166 GTAK----GGVIFSVADQFGIPIRYIG--VGERIEDL  196 (211)
T ss_dssp             TCTT----TTHHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             CCCC----ccHHHHHHHHHCCCEEEEe--CCCCcccC
Confidence            6432    2345677888899988887  77777654

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.39  E-value=0.0024  Score=59.62  Aligned_cols=93  Identities=17%  Similarity=0.085  Sum_probs=55.0

Q ss_pred             EEEEEEecCCccccccc----chhhhc--------cCCEEEEEEeCCChhhHHHHHHHHHHHHhcCCCCCeEEEEEECCC
Q psy3029         155 VKLQVWDTAGQERFRSM----APMYYR--------NANAALLVFDITQYHSFAAIKTWVKELKRNVDEPLVLCVVGNKTD  222 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~~----~~~~~~--------~ad~iIlV~Dis~~~S~~~l~~~l~~i~~~~~~~iPvIlVgNK~D  222 (617)
                      +.+.|+||+|...+...    ...+.+        ..+-++||+|+...  ...+.+.........    +--+|.||.|
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~~----~~~lI~TKlD  167 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQAKIFKEAVN----VTGIILTKLD  167 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHHHHHHHHHSC----CCEEEEECGG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccC--cchhhhhhhhccccC----CceEEEeccc
Confidence            45889999995332211    111111        14678999998654  333333333333222    2247899999


Q ss_pred             CCCccccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         223 LESSREVNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       223 L~~~~~v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                      -...    .-.+..++...++|+..++  +|+++++|
T Consensus       168 e~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl  198 (213)
T d1vmaa2         168 GTAK----GGITLAIARELGIPIKFIG--VGEKAEDL  198 (213)
T ss_dssp             GCSC----TTHHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             CCCc----ccHHHHHHHHHCCCEEEEe--CCCCcccC
Confidence            5321    2345677888899988887  57777654

>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Archaeal homoheptameric Sm protein
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=96.32  E-value=0.0048  Score=47.40  Aligned_cols=65  Identities=20%  Similarity=0.369  Sum_probs=50.6

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEE
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRI  522 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~  522 (617)
                      +-+|..++|++|.|.+|||..|.|+|.++..-+-++|+=|.....+..     ..-...++|.+..|.-|
T Consensus         8 l~~L~~~~~k~V~V~lk~g~~~~G~L~~~D~~mNl~L~~~~e~~~~~~-----~~~~~~~~IRG~~I~~I   72 (74)
T d1mgqa_           8 LDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEV-----TRRLGTVLIRGDNIVYI   72 (74)
T ss_dssp             THHHHHTTTSEEEEEETTTEEEEEEEEEECTTCCEEEEEEEEEETTEE-----EEEEEEEEECGGGEEEE
T ss_pred             HHHHHHhCCCeEEEEECCCCEEEEEEEEECCCCCeEEeeEEEEeCCCe-----EeEcceEEEeCCEEEEE
Confidence            467889999999999999999999999999999999999887633211     11224567777777655

>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: B core SNRNP protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.30  E-value=0.0065  Score=47.49  Aligned_cols=70  Identities=19%  Similarity=0.433  Sum_probs=52.2

Q ss_pred             hHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecC---CCCCCCCCCC--cccceeeeecCceeEEEec
Q psy3029         456 ITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVD---PENPQCIDPN--TVVDMKIFKLDDIVRIEAK  525 (617)
Q Consensus       456 ~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~---~~~~~~~~~~--~~~~~l~~~~~d~v~~~~~  525 (617)
                      |..+||..|.|.++||-.|.|+|.++...+-++|.=|...-   .........+  -..-.++|.++.|+.|++.
T Consensus         3 L~~~l~~rv~V~l~dgR~~~G~L~~~D~~~NlvL~~~~E~~~~~~~~~~~~~~~~~r~lG~v~IRG~~Iv~i~~~   77 (81)
T d1d3bb_           3 MLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVE   77 (81)
T ss_dssp             CGGGTTSEEEEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEEE
T ss_pred             hHHHCCCEEEEEEcCCCEEEEEEEEECCccCEEEcCEEEEEeecCccccccccceEEEeeeEEEeCCEEEEEEcc
Confidence            46789999999999999999999999999999999887641   1111111100  1123689999999999874

>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Archaeal homoheptameric Sm protein
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=96.28  E-value=0.0049  Score=46.91  Aligned_cols=66  Identities=15%  Similarity=0.274  Sum_probs=51.6

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEE
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIE  523 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~  523 (617)
                      +-+|..++|+.|.|.+|||..|.|+|.++..-+-++|+=|.....+..     ..-...++|.+..|+-|.
T Consensus         4 l~~L~~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~-----~~~l~~~~IRG~~I~~Is   69 (71)
T d1h641_           4 LDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEV-----VKRYGKIVIRGDNVLAIS   69 (71)
T ss_dssp             HHHHHTTTTSEEEEEETTSEEEEEEEEEECTTCCEEEEEEEEEETTEE-----EEEEEEEEECGGGEEEEE
T ss_pred             hHHHHHhCCCEEEEEEcCCCEEEEEEEEECCCCCeEEeeEEEEecCCc-----EeEcCcEEEECCeEEEEe
Confidence            346788999999999999999999999999999999999987643211     112246778888777663

>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Archaeal homoheptameric Sm protein
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.16  E-value=0.0037  Score=47.67  Aligned_cols=65  Identities=15%  Similarity=0.264  Sum_probs=50.7

Q ss_pred             hHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEE
Q psy3029         453 MQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIE  523 (617)
Q Consensus       453 ~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~  523 (617)
                      .-.|..++|++|.|.+|||..|.|+|.++..-+-++|+-+.....+..      .-...++|.+..|+-|.
T Consensus         4 ~~~L~~~~~k~V~V~Lk~g~~~~G~L~~~D~~mNivL~~~~e~~~~~~------~~~g~v~iRG~~I~~I~   68 (71)
T d1i8fa_           4 GATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNV------YKRGTMVVRGENVLFIS   68 (71)
T ss_dssp             HHHHHTTTTSEEEEEEGGGEEEEEEEEEECTTCCEEEEEEEEEETTEE------EEEEEEEECGGGEEEEE
T ss_pred             hHHHHHhCCCEEEEEECCCCEEEEEEEEECCCcceEEccEEEEECCCE------EEcceEEEeCCeEEEEe
Confidence            446788999999999999999999999999999999999876533210      11235777888777664

>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Sm-Like archaeal protein Smap3
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.15  E-value=0.0086  Score=50.71  Aligned_cols=67  Identities=19%  Similarity=0.361  Sum_probs=55.8

Q ss_pred             HhHHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEEeccc
Q psy3029         452 FMQAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIEAKNV  527 (617)
Q Consensus       452 ~~~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~~~~v  527 (617)
                      |+-.|.+++|++|.|.+|||..|.|.|.++..-+-++|+=|...+..        .+ ..++|.+.-|..|.+.+-
T Consensus         1 f~~~L~~~~gk~V~VeLkng~~~~G~L~~~D~~mNivL~da~~~~~~--------k~-~~v~IRG~~I~~I~~~e~   67 (127)
T d1m5q1_           1 FVAELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAGE--------KF-NRVFIMYRYIVHIDSTER   67 (127)
T ss_dssp             CHHHHHTTTTSEEEEEETTSCEEEEEEEEECTTCCEEEEEEEETTCC--------EE-EEEEECGGGEEEEEECSC
T ss_pred             ChhHHHHhCCCEEEEEECCCCEEEEEEEEECCCceEEEeEEEECCCC--------cc-cEEEEeCCeEEEEEcchh
Confidence            35678999999999999999999999999999999999988764321        22 357899999999988774

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.79  E-value=0.0021  Score=59.77  Aligned_cols=92  Identities=20%  Similarity=0.228  Sum_probs=50.8

Q ss_pred             EEEEEEecCCcccccc-c---chhh--hccCCEEEEEEeCCChhh-HHHHHHHHHHHHhcCCCCCeEEEEEECCCCCCcc
Q psy3029         155 VKLQVWDTAGQERFRS-M---APMY--YRNANAALLVFDITQYHS-FAAIKTWVKELKRNVDEPLVLCVVGNKTDLESSR  227 (617)
Q Consensus       155 ~~l~i~Dt~G~e~~~~-~---~~~~--~~~ad~iIlV~Dis~~~S-~~~l~~~l~~i~~~~~~~iPvIlVgNK~DL~~~~  227 (617)
                      ..+.++||+|...+.. +   +..+  ..+.+-+++|.|...... ...+..+...    .+   +-=+|.||.|-..  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~----~~---~~~~I~TKlDe~~--  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEK----VG---VTGLVLTKLDGDA--  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHH----TC---CCEEEEECGGGCS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhh----CC---CCeeEEeecCccc--
Confidence            4688999999643322 1   1112  226788999999876542 2222222222    22   1137899999532  


Q ss_pred             ccCHHHHHHHHHhcCCeEEEEcCCCCCCHHHH
Q psy3029         228 EVNREEAFHYSKSIGGTYYETSALQDQGIEDV  259 (617)
Q Consensus       228 ~v~~~e~~~~~~~~g~~~~evSAktg~gI~eL  259 (617)
                        ..-.+..++...+.|+..++  .|+..++|
T Consensus       164 --~~G~~l~~~~~~~~Pi~~i~--~Gq~pedl  191 (207)
T d1ls1a2         164 --RGGAALSARHVTGKPIYFAG--VSEKPEGL  191 (207)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEC--------CC
T ss_pred             --cchHHHHHHHHHCCCEEEEe--CCCChhhc
Confidence              23456677888899987776  34444433

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=95.77  E-value=0.0044  Score=54.58  Aligned_cols=53  Identities=21%  Similarity=0.208  Sum_probs=37.7

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      +|++++|..++||||+++++..+.+. .+.||+|..+  ..+..++..+.+--++|
T Consensus         3 ~ki~ivG~~~~GKTsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~~~~~~~D~~G   55 (165)
T d1ksha_           3 LRLLMLGLDNAGKTTILKKFNGEDVD-TISPTLGFNI--KTLEHRGFKLNIWDVGG   55 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTTCCCS-SCCCCSSEEE--EEEEETTEEEEEEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHcCCCCC-cccceEeeee--eeccccccceeeeecCc
Confidence            34555555599999999999887764 4679998655  45677776666655554

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=95.60  E-value=0.0017  Score=61.28  Aligned_cols=15  Identities=33%  Similarity=0.452  Sum_probs=13.5

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      +|||||||+|+|+.+
T Consensus       106 SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2         106 SGVGKSSLLNAISPE  120 (231)
T ss_dssp             HHHHHHHHHHHHCC-
T ss_pred             CCccHHHHHHhhccH
Confidence            999999999999875

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=95.52  E-value=0.0043  Score=55.18  Aligned_cols=45  Identities=20%  Similarity=0.212  Sum_probs=31.1

Q ss_pred             eeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEE
Q psy3029         335 NWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ  382 (617)
Q Consensus       335 ~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~Lq  382 (617)
                      ++|..++||||+++++..+.|... .|++|.++  +.+..++..+.+.
T Consensus        21 vvG~~~vGKSsLi~~l~~~~~~~~-~~~~~~~~--~~i~~~~~~~~i~   65 (176)
T d1fzqa_          21 LLGLDNAGKTTLLKQLASEDISHI-TPTQGFNI--KSVQSQGFKLNVW   65 (176)
T ss_dssp             EEESTTSSHHHHHHHHCCSCCEEE-EEETTEEE--EEEEETTEEEEEE
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcc-eeeeeeeE--EEeccCCeeEeEe
Confidence            333339999999999999888654 46777654  5666666554444

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.50  E-value=0.0032  Score=58.92  Aligned_cols=47  Identities=15%  Similarity=-0.064  Sum_probs=34.9

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEE
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQ  382 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~Lq  382 (617)
                      .+|++++|.++|||||++.|+..+.    +.||+|...  +.+.+++..+.+-
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~~----~~pTiG~~~--~~~~~~~~~~~~~   52 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRILH----VVLTSGIFE--TKFQVDKVNFHMF   52 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH----CCCCCSCEE--EEEEETTEEEEEE
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCC----cCCCCCeEE--EEEEECcEEEEEE
Confidence            3677888888999999999997554    469999654  5677776554444

>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Archaeal homoheptameric Sm protein
species: Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]

Probab=95.50  E-value=0.023  Score=43.56  Aligned_cols=65  Identities=15%  Similarity=0.230  Sum_probs=49.7

Q ss_pred             HHhHhhcCCEEEEEEeCCc-EEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEE
Q psy3029         454 QAITLHIGDKVTVYTVHGK-QFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIE  523 (617)
Q Consensus       454 ~~~~~~iG~~v~v~~~~G~-~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~  523 (617)
                      -++..++|++|.|.+|||. .|+|+|.++..-+-++|+-|........     ..-...+++.+..|.-|.
T Consensus         8 ~~L~~~~~~~V~V~lk~~~~~~~G~L~~~D~~mNlvL~~~~e~~~~~~-----~~~~g~~~IRG~~I~~I~   73 (75)
T d1ljoa_           8 QMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEK-----VRSLGEIVLRGNNVVLIQ   73 (75)
T ss_dssp             HHHHHTTTSEEEEEETTCSSEEEEEEEEECTTCCEEEEEEEEEETTEE-----EEEEEEEEECGGGEEEEE
T ss_pred             HHHHHhcCCEEEEEEECCCEEEEEEEEEEcCCCcEEEeEEEEEcCCCc-----EeEcceEEEeCCEEEEEE
Confidence            4688899999999999985 7999999999999999999877533211     112346777777777654

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.47  E-value=0.0011  Score=59.99  Aligned_cols=50  Identities=12%  Similarity=-0.069  Sum_probs=32.1

Q ss_pred             cceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         330 NCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       330 ~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ..|++++|..+|||||+++||..+.|++     +|.  .+..+..++..+.+.-+.|
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t-----~~~--~~~~~~~~~~~~~i~D~~G   51 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAG-----TGI--VETHFTFKDLHFKMFDVGG   51 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCC-----CSE--EEEEEEETTEEEEEEEECC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCC-----ccE--EEEEEEeeeeeeeeecccc
Confidence            3567777777999999999998777654     443  2334455554544443333

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=95.24  E-value=0.0085  Score=52.23  Aligned_cols=58  Identities=12%  Similarity=0.056  Sum_probs=40.8

Q ss_pred             ceeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      ++++++|..++|||++++++++.... ....|++..+.....+...+..+.+.-++|+.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~   60 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLR   60 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCceeeeccccccc
Confidence            34555555599999999999976544 34456666666666778888888877666654

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.13  E-value=0.0088  Score=51.97  Aligned_cols=50  Identities=20%  Similarity=0.088  Sum_probs=33.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +++++|.++|||||++++++.+.|... .+|++..+  ..+..++..+.+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~   56 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGEVVTT-IPTIGFNV--ETVTYKNLKFQVWDL   56 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCCC-CCCSSEEE--EEEEETTEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcce-ecccceee--eeeccCceEEEEeec
Confidence            334444449999999999999988764 46776544  345566666665554

>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: Small nuclear ribonucleoprotein F, Smf
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.85  E-value=0.033  Score=41.76  Aligned_cols=63  Identities=11%  Similarity=0.213  Sum_probs=47.4

Q ss_pred             hHhhcCCEEEEEEeCCc-EEEEEEeeecCCceEEEEeeeecCCCCCCCCCCCcccceeeeecCceeEEE
Q psy3029         456 ITLHIGDKVTVYTVHGK-QFEGYLKTFSKQFELVISMTHQVDPENPQCIDPNTVVDMKIFKLDDIVRIE  523 (617)
Q Consensus       456 ~~~~iG~~v~v~~~~G~-~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~d~v~~~  523 (617)
                      |..++|++|.|.+|+|. .|+|+|.++..-+-++|+=|.....+..     ..--..++|.+..|+-|.
T Consensus         1 L~~~~~~~V~V~Lk~~~~~~~G~L~~~D~~mNlvL~~~~e~~~~~~-----~~~lg~~~IRG~nI~~I~   64 (68)
T d1n9ra_           1 LKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVS-----HGTLGEIFIRCNNVLYIR   64 (68)
T ss_dssp             CGGGTTSEEEEEESSTTEEEEEEEEECCTTTCEEEEEEEEEETTEE-----EEECCSEEECGGGEEEEE
T ss_pred             ChhHCCCEEEEEEEcCCEEEEEEEEEECCcCceEEeeEEEEecCCc-----ccCcCeEEEECCEEEEEE
Confidence            35789999999999654 5999999999999999998877533211     111246788888888775

>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein LSM5 {Cryptosporidium parvum [TaxId: 5807]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: U6 snRNA-associated sm-like protein LSM5
species: Cryptosporidium parvum [TaxId: 5807]

Probab=94.59  E-value=0.024  Score=45.17  Aligned_cols=70  Identities=14%  Similarity=0.264  Sum_probs=49.8

Q ss_pred             HHhHhhcCCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCC--CCCCCC----Cc----ccceeeeecCceeEEE
Q psy3029         454 QAITLHIGDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPEN--PQCIDP----NT----VVDMKIFKLDDIVRIE  523 (617)
Q Consensus       454 ~~~~~~iG~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~--~~~~~~----~~----~~~~l~~~~~d~v~~~  523 (617)
                      -++..++|++|.|.++||..|.|+|.++..-+-++|+=|.......  ......    ..    -...++|.+..|+.|.
T Consensus         8 ~~L~~~l~k~V~V~l~~gr~~~G~L~~~D~~~NlvL~d~~E~~~~~~~~~~~~~~~~~~~~~~r~lg~~~iRG~~Vv~I~   87 (92)
T d2fwka1           8 ALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNVAMLV   87 (92)
T ss_dssp             HHHHHTBTSBCEEEETTTEEECCEEEEECTTCCEEEESCCEEEC---------------CEECCCCSEEEECGGGEEEEE
T ss_pred             HHHHHHcCCEEEEEEcCCCEEEEEEEEEcCCCCEEEeeEEEEEecCCccccccccccccccceeEcceEEEeCCEEEEEE
Confidence            4677788999999999999999999999999999999777652111  111100    01    1236888998888775

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=94.49  E-value=0.0053  Score=53.77  Aligned_cols=19  Identities=37%  Similarity=0.595  Sum_probs=15.6

Q ss_pred             cCCCCCCCCHHHHHHHHHc
Q psy3029         110 ANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~  128 (617)
                      +|.|++|+|||||+++|+.
T Consensus         6 ~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           6 AFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEECCTTSCHHHHHHHHHH
T ss_pred             EEEcCCCCCHHHHHHHHHH
Confidence            4445599999999999975

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=94.46  E-value=0.015  Score=51.87  Aligned_cols=53  Identities=19%  Similarity=0.060  Sum_probs=37.4

Q ss_pred             CcceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         329 PNCFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       329 ~~~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +..|++++|.++||||++++++..+.+.. ..||.|..+.  .+..++..+.+--.
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~--~~~~~~~~~~i~D~   68 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNVE--TLSYKNLKLNVWDL   68 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCEE--EEEETTEEEEEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceEEE--EEeeCCEEEEEEec
Confidence            34556666666999999999999888765 4588887663  45566666555543

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.39  E-value=0.0072  Score=52.15  Aligned_cols=35  Identities=14%  Similarity=0.031  Sum_probs=26.9

Q ss_pred             eeeeeeecccccccceeccccCcccCccCCccceee
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASF  367 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df  367 (617)
                      |++++|.++|||||++++++.+.|.. +.||++...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~-~~~t~~~~~   36 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPTS   36 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-CCCCCSCEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCe-eeceeeEeE
Confidence            34555555999999999999888764 578887655

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.26  E-value=0.015  Score=51.33  Aligned_cols=51  Identities=12%  Similarity=0.033  Sum_probs=31.1

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      .|++++|.++|||||+++++..+.+... .||.+..+  ..+.+++..+.+...
T Consensus        14 ~kI~lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~   64 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS--EELTIAGMTFTTFDL   64 (186)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETTEEEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCcce-ecccccce--eEEEecccccccccc
Confidence            3444444559999999999999888764 46666655  356777766655443

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.22  E-value=0.0086  Score=52.12  Aligned_cols=54  Identities=13%  Similarity=0.089  Sum_probs=36.1

Q ss_pred             eeeecccccccceeccccCcc-cCccCCccceeeEEEEEEECCEEEEEEeecCCC
Q psy3029         335 NWFWLGVGKTSMVVRYIGKMF-SHHISPTIGASFFTAKINVGENKVKLQLRTGLK  388 (617)
Q Consensus       335 ~~g~~~vGKssi~~~~~~~~f-~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~  388 (617)
                      ++|.+++||||+++++++... .....|..........+..++..+.+.-++|+.
T Consensus         5 liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~   59 (160)
T d1xzpa2           5 IVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVR   59 (160)
T ss_dssp             EECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCC
T ss_pred             EECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCCeeEEeccccccc
Confidence            333339999999999986543 233334444444566778888888887777763

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=94.00  E-value=0.011  Score=50.99  Aligned_cols=31  Identities=13%  Similarity=-0.095  Sum_probs=23.0

Q ss_pred             eeeeeecccccccceeccccCcccCccCCcc
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFSHHISPTI  363 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~~~~~pTI  363 (617)
                      ++++|.++|||||+++++..+.|...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~   33 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGEIVTTIPTIG   33 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHCSSCCCCCSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCcccccee
Confidence            3444444999999999999988877664443

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=93.59  E-value=0.024  Score=50.09  Aligned_cols=53  Identities=15%  Similarity=0.016  Sum_probs=35.8

Q ss_pred             ceeeeeeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         331 CFEANWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       331 ~~~~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++++|.++|||||+++|+..+.+... .+|.|..+.  .+..+.-.+.+--.+|
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~~~~~~~-~~t~~~~~~--~~~~~~~~~~i~D~~g   65 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKLGQSVTT-IPTVGFNVE--TVTYKNVKFNVWDVGG   65 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTCCCCEEE-EEETTEEEE--EEEETTEEEEEEEESC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCc-cceeeeeEE--EeeccceeeEEecCCC
Confidence            4555555669999999999998877554 477777663  4455555555554444

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=93.40  E-value=0.011  Score=51.96  Aligned_cols=18  Identities=17%  Similarity=0.303  Sum_probs=14.8

Q ss_pred             CCCCCCCCHHHHHHHHHc
Q psy3029         111 NWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~~  128 (617)
                      |+|++|+|||||+++|+.
T Consensus         6 I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           6 VVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            445599999999999974

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=93.32  E-value=0.017  Score=50.69  Aligned_cols=36  Identities=11%  Similarity=-0.023  Sum_probs=25.1

Q ss_pred             HHHHHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         233 EAFHYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       233 e~~~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      ...++++.++.+++.+.+   .++++.++.+.+.|....
T Consensus       147 ~~~~~l~~~~~~~i~i~~---~~~~e~~~~i~~~I~~ll  182 (192)
T d1lw7a2         147 LLKKLLDKYKVPYIEIES---PSYLDRYNQVKAVIEKVL  182 (192)
T ss_dssp             HHHHHHHGGGCCCEEEEC---SSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCCEEEeCC---CCHHHHHHHHHHHHHHHH
Confidence            344566677888888763   468888888877775543

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=93.27  E-value=0.015  Score=50.81  Aligned_cols=16  Identities=31%  Similarity=0.223  Sum_probs=13.5

Q ss_pred             CCCCCCHHHHHHHHHc
Q psy3029         113 FWLGVGKTSMVVRYIG  128 (617)
Q Consensus       113 G~~nVGKSSLinrl~~  128 (617)
                      |+|||||||+.++|..
T Consensus        11 G~pGsGKTTia~~La~   26 (173)
T d1rkba_          11 GTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CSTTSSHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHH
Confidence            3399999999999964

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=93.26  E-value=0.024  Score=49.60  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.1

Q ss_pred             ccceEEEEEccCcccccccCCCCCCccccCCCCCCCCHHHHHHHHHc
Q psy3029          82 SNKIKVGLLSDKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus        82 ~~~ikV~i~G~~~~~~~~~~~~~~~~~~~i~G~~nVGKSSLinrl~~  128 (617)
                      +..++|+|.|.                      +||||||+.+.|..
T Consensus         3 pk~~~I~i~G~----------------------~GsGKTT~~~~La~   27 (174)
T d1y63a_           3 PKGINILITGT----------------------PGTGKTSMAEMIAA   27 (174)
T ss_dssp             CSSCEEEEECS----------------------TTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEeC----------------------CCCCHHHHHHHHHH
Confidence            45568888888                      99999999999975

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.10  E-value=0.0042  Score=56.74  Aligned_cols=43  Identities=21%  Similarity=0.168  Sum_probs=31.7

Q ss_pred             ccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         340 GVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       340 ~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++||||++++++...+    .||++.++....+..++..+.|-.++|
T Consensus        13 n~GKTSLln~l~~~~~----~~~tt~~~~~~~~~~~~~~~~l~D~~g   55 (209)
T d1nrjb_          13 NSGKTSLLTLLTTDSV----RPTVVSQEPLSAADYDGSGVTLVDFPG   55 (209)
T ss_dssp             TSSHHHHHHHHHHSSC----CCBCCCSSCEEETTGGGSSCEEEECCC
T ss_pred             CCCHHHHHHHHhCCCC----CCeEEecceEEEEEeCCeEEEEEeccc
Confidence            9999999999997654    356666676667777777676655543

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.02  E-value=0.047  Score=52.64  Aligned_cols=51  Identities=22%  Similarity=0.191  Sum_probs=33.2

Q ss_pred             CCCCHHHHHHHHHcCCCCCc-----cCCCcceeEEEEEEEECCeEEEEEEEecCCcc
Q psy3029         115 LGVGKTSMVVRYIGKMFSHH-----ISPTIGASFFTAKINVGENKVKLQVWDTAGQE  166 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~~~~-----~~~t~g~~~~~~~i~~~~~~~~l~i~Dt~G~e  166 (617)
                      ..+|||+|+|+|++..+.-.     ...|.|+-.....+ ..+....+.++||.|..
T Consensus        41 ~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          41 YRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             TTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBC
T ss_pred             CCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEeccccc
Confidence            99999999999997664211     23566653322222 13445678899999864

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.95  E-value=0.012  Score=53.84  Aligned_cols=34  Identities=21%  Similarity=0.106  Sum_probs=26.4

Q ss_pred             eeeecccccccceeccccCcccCccCCccceeeEE
Q psy3029         335 NWFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFT  369 (617)
Q Consensus       335 ~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~  369 (617)
                      ++|..++|||+++++++.+.+...+ ||++.++..
T Consensus         5 ivG~~~~GKTsLl~~l~~~~~~~~~-~t~~~~~~~   38 (207)
T d2fh5b1           5 FVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAI   38 (207)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCBC-CCCSCEEEE
T ss_pred             EECCCCCCHHHHHHHHHcCCCCccc-CCeeEEEEE
Confidence            3344499999999999998887654 888887743

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=92.53  E-value=0.021  Score=50.96  Aligned_cols=56  Identities=18%  Similarity=0.171  Sum_probs=33.3

Q ss_pred             hhheeeeccCCCCCCCcceeeeeeecccccccceeccccCcc--cCccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         314 ETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMF--SHHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       314 ~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~f--~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      .+||+++|++                ++||||+++++++...  ...+..|... -....+.+++..+.+--++|
T Consensus         8 ~~kV~iiG~~----------------~~GKSTLin~l~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~d~~g   65 (186)
T d1mkya2           8 AIKVAIVGRP----------------NVGKSTLFNAILNKERALVSPIPGTTRD-PVDDEVFIDGRKYVFVDTAG   65 (186)
T ss_dssp             CEEEEEECST----------------TSSHHHHHHHHHTSTTEEECCCC-------CCEEEEETTEEEEESSCSC
T ss_pred             CCEEEEECCC----------------CCCHHHHHHHHHCCCcceeecccccccc-cceeeeccCCceeeeeccCC
Confidence            4678888877                9999999999986542  2233222222 22345677777766544444

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=92.32  E-value=0.055  Score=47.84  Aligned_cols=56  Identities=18%  Similarity=0.202  Sum_probs=36.7

Q ss_pred             eeeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         332 FEANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       332 ~~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      +++++|..++||||+++++++.... ....+++..+.....+...+..+.+--++|+
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~   63 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGL   63 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeecccccc
Confidence            3455555599999999999976532 2233434445545567778888777666665

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=91.20  E-value=0.036  Score=48.30  Aligned_cols=21  Identities=10%  Similarity=-0.107  Sum_probs=15.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~  128 (617)
                      .+.|.|.|||||||+...|..
T Consensus         8 ~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           8 TIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            333445599999999988853

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=91.11  E-value=0.037  Score=48.17  Aligned_cols=20  Identities=15%  Similarity=-0.130  Sum_probs=15.7

Q ss_pred             cCCCCCCCCHHHHHHHHHcC
Q psy3029         110 ANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~  129 (617)
                      .|.|++|+||||+.+.|...
T Consensus         7 ~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           7 ILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEECCTTSSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHH
Confidence            33355999999999999753

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=90.92  E-value=0.072  Score=47.67  Aligned_cols=14  Identities=21%  Similarity=0.342  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+..+|..
T Consensus        15 pGSGKsT~a~~La~   28 (194)
T d1qf9a_          15 PGSGKGTQCANIVR   28 (194)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999975

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.87  E-value=0.06  Score=47.16  Aligned_cols=55  Identities=13%  Similarity=0.016  Sum_probs=30.7

Q ss_pred             eeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecCC
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTGL  387 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~  387 (617)
                      ++++|..++||||+++++++.... ....+..........+...+..+.+.-++|+
T Consensus         3 V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~   58 (171)
T d1mkya1           3 VLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGV   58 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTT
T ss_pred             EEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccccccccccccce
Confidence            344455599999999999876543 2223333344445567777888887766664

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=90.76  E-value=0.069  Score=47.67  Aligned_cols=14  Identities=21%  Similarity=0.304  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      |||||||+..+|..
T Consensus        12 pGSGKsT~a~~La~   25 (190)
T d1ak2a1          12 PGAGKGTQAPKLAK   25 (190)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999974

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=90.76  E-value=0.065  Score=47.21  Aligned_cols=14  Identities=21%  Similarity=0.415  Sum_probs=12.7

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+...|..
T Consensus         9 pGSGKsT~a~~La~   22 (182)
T d1zina1           9 PGAGKGTQAEKIVA   22 (182)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999998864

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=90.73  E-value=0.079  Score=50.22  Aligned_cols=60  Identities=23%  Similarity=0.210  Sum_probs=44.1

Q ss_pred             hhheeeeccCCCCCCCcceeeeeeecccccccceeccccCc-ccCccCCccceeeEEEEEEECCEEEEEEeecCCCc
Q psy3029         314 ETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM-FSHHISPTIGASFFTAKINVGENKVKLQLRTGLKV  389 (617)
Q Consensus       314 ~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~-f~~~~~pTIg~df~~k~v~~d~~~v~LqI~~~~~~  389 (617)
                      +++|+++|++                |+|||++++.+++.. |.....+....+.......+++..+.+--++|+..
T Consensus        32 ~l~I~LvG~t----------------g~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g~~i~viDTPGl~~   92 (257)
T d1h65a_          32 SLTILVMGKG----------------GVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIE   92 (257)
T ss_dssp             EEEEEEEEST----------------TSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTEEEEEEECCCSEE
T ss_pred             CcEEEEECCC----------------CCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEeccEEEEEEeeecccC
Confidence            4678888888                999999999999654 44333333333444567788999999999999854

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=90.73  E-value=0.063  Score=45.73  Aligned_cols=17  Identities=29%  Similarity=0.397  Sum_probs=14.4

Q ss_pred             CCCCCCHHHHHHHHHcC
Q psy3029         113 FWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       113 G~~nVGKSSLinrl~~~  129 (617)
                      |+||||||||+++|+..
T Consensus         9 G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           9 GCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             CCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHh
Confidence            44999999999999753

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.70  E-value=0.08  Score=46.38  Aligned_cols=54  Identities=15%  Similarity=0.082  Sum_probs=32.5

Q ss_pred             eeeeeecccccccceeccccCccc-CccCCccceeeEEEEEEECCEEEEEEeecC
Q psy3029         333 EANWFWLGVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINVGENKVKLQLRTG  386 (617)
Q Consensus       333 ~~~~g~~~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~d~~~v~LqI~~~  386 (617)
                      ++++|.++|||||+++++++..+. ..+.++............+...+.+-..++
T Consensus         8 I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~   62 (179)
T d1egaa1           8 IAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPG   62 (179)
T ss_dssp             EEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTEEEEEESSSS
T ss_pred             EEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCCceeEeecCCC
Confidence            344455599999999999965443 334444444554445555666655544443

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=90.34  E-value=0.036  Score=49.38  Aligned_cols=47  Identities=13%  Similarity=0.037  Sum_probs=26.9

Q ss_pred             ccccccceeccccCccc-CccCCccceeeEEEEEEE-CCEEEEEEeecCC
Q psy3029         340 GVGKTSMVVRYIGKMFS-HHISPTIGASFFTAKINV-GENKVKLQLRTGL  387 (617)
Q Consensus       340 ~vGKssi~~~~~~~~f~-~~~~pTIg~df~~k~v~~-d~~~v~LqI~~~~  387 (617)
                      +|||||+++++++.... ..+.+++ .+.......+ +++.+.+--++|+
T Consensus        11 nvGKSSLin~L~~~~~~~~~~~~~T-~~~~~~~~~~~~~~~~~~~DtpG~   59 (185)
T d1lnza2          11 SVGKSTLLSVVSSAKPKIADYHFTT-LVPNLGMVETDDGRSFVMADLPGL   59 (185)
T ss_dssp             TSSHHHHHHHSEEECCEESSTTSSC-CCCCEEEEECSSSCEEEEEEHHHH
T ss_pred             CCCHHHHHHHHhCCCCceecCCCce-EeeeeceeEecCCcEEEEecCCCc
Confidence            99999999999864432 2232222 2222223333 5567776666665

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.30  E-value=0.042  Score=51.49  Aligned_cols=22  Identities=23%  Similarity=0.161  Sum_probs=17.4

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4555555999999999988763

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=90.26  E-value=0.076  Score=47.07  Aligned_cols=14  Identities=29%  Similarity=0.408  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+..+|..
T Consensus         9 pGSGKsT~a~~La~   22 (182)
T d1s3ga1           9 PGAGKGTQADRIVE   22 (182)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999875

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=90.19  E-value=0.049  Score=49.82  Aligned_cols=23  Identities=13%  Similarity=-0.224  Sum_probs=17.0

Q ss_pred             CccccCCCCCCCCHHHHHHHHHc
Q psy3029         106 NCFEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       106 ~~~~~i~G~~nVGKSSLinrl~~  128 (617)
                      ..+++|-|+|||||||+..+|..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34444445599999999999864

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=90.14  E-value=0.079  Score=46.87  Aligned_cols=14  Identities=29%  Similarity=0.434  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+..+|..
T Consensus         9 pGsGKsT~a~~La~   22 (181)
T d2cdna1           9 PGAGKGTQAVKLAE   22 (181)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999874

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=90.07  E-value=0.078  Score=46.33  Aligned_cols=46  Identities=20%  Similarity=0.242  Sum_probs=30.0

Q ss_pred             eeecccccccceeccccCcccCccCCccceeeEEEEEEECCEEEEEEee
Q psy3029         336 WFWLGVGKTSMVVRYIGKMFSHHISPTIGASFFTAKINVGENKVKLQLR  384 (617)
Q Consensus       336 ~g~~~vGKssi~~~~~~~~f~~~~~pTIg~df~~k~v~~d~~~v~LqI~  384 (617)
                      +|..++|||++++|+..+.+.... ++.+...  +.+...+..+.+...
T Consensus        21 vG~~~~GKSsLi~rl~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~~d~   66 (177)
T d1zj6a1          21 VGLDNAGKTTILYQFSMNEVVHTS-PTIGSNV--EEIVINNTRFLMWDI   66 (177)
T ss_dssp             EESTTSSHHHHHHHHHTTSCEEEE-CCSCSSC--EEEEETTEEEEEEEC
T ss_pred             ECCCCCCHHHHHHHHhcCCCCccc-cccceeE--EEEeecceEEEEecc
Confidence            333399999999999988876543 5454433  455566655555543

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=89.96  E-value=0.047  Score=51.39  Aligned_cols=22  Identities=18%  Similarity=0.098  Sum_probs=18.0

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4556666999999999999874

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.88  E-value=0.039  Score=49.38  Aligned_cols=15  Identities=33%  Similarity=0.479  Sum_probs=13.7

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      +||||+||+++|+..
T Consensus        12 sg~GK~tl~~~L~~~   26 (178)
T d1kgda_          12 HGVGRRHIKNTLITK   26 (178)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHh
Confidence            999999999999854

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=89.85  E-value=0.045  Score=51.20  Aligned_cols=21  Identities=24%  Similarity=0.047  Sum_probs=16.5

Q ss_pred             cccCCCCCCCCHHHHHHHHHc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~  128 (617)
                      +++|+|++|+|||||++.+.+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCcchhhHhccC
Confidence            445555599999999998876

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=89.82  E-value=0.053  Score=49.58  Aligned_cols=22  Identities=18%  Similarity=0.022  Sum_probs=17.3

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+++-
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            4445555999999999999873

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=89.77  E-value=0.051  Score=51.23  Aligned_cols=15  Identities=20%  Similarity=0.186  Sum_probs=13.7

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      +|+|||||++.+.+-
T Consensus        38 sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          38 SGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TTSSHHHHHHHHTTS
T ss_pred             CCCCHHHHHHHHHhc
Confidence            999999999999873

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=89.75  E-value=0.053  Score=47.24  Aligned_cols=20  Identities=15%  Similarity=0.006  Sum_probs=15.4

Q ss_pred             cCCCCCCCCHHHHHHHHHcC
Q psy3029         110 ANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~  129 (617)
                      +|.|++|+||||+.+.|...
T Consensus         8 ~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           8 LLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEECTTSCHHHHHHHHHTC
T ss_pred             EEECCCCCCHHHHHHHHHHH
Confidence            34455999999999988653

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.74  E-value=0.093  Score=46.49  Aligned_cols=14  Identities=21%  Similarity=0.228  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+...|..
T Consensus        11 pGSGKtT~a~~La~   24 (180)
T d1akya1          11 PGAGKGTQAPNLQE   24 (180)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999975

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.66  E-value=0.031  Score=49.82  Aligned_cols=24  Identities=21%  Similarity=0.105  Sum_probs=18.0

Q ss_pred             CCccccCCCCCCCCHHHHHHHHHc
Q psy3029         105 PNCFEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       105 ~~~~~~i~G~~nVGKSSLinrl~~  128 (617)
                      +.+.+.|.|+||||||||.+.|..
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            344455556699999999999864

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.66  E-value=0.084  Score=45.91  Aligned_cols=16  Identities=31%  Similarity=0.274  Sum_probs=13.5

Q ss_pred             CCCCCCHHHHHHHHHc
Q psy3029         113 FWLGVGKTSMVVRYIG  128 (617)
Q Consensus       113 G~~nVGKSSLinrl~~  128 (617)
                      |++|+|||||+..++.
T Consensus         8 G~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           8 GPPGVGKTTLIHKASE   23 (189)
T ss_dssp             SCCSSCHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHH
Confidence            3399999999999863

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=89.62  E-value=0.069  Score=49.93  Aligned_cols=22  Identities=23%  Similarity=0.155  Sum_probs=18.7

Q ss_pred             ccccCCCCCCCCHHHHHHHHHc
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~  128 (617)
                      -+++|+|+.|+|||||++.+.+
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            3666777799999999999987

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=89.59  E-value=0.087  Score=45.34  Aligned_cols=16  Identities=31%  Similarity=0.283  Sum_probs=13.9

Q ss_pred             CCCCCCHHHHHHHHHc
Q psy3029         113 FWLGVGKTSMVVRYIG  128 (617)
Q Consensus       113 G~~nVGKSSLinrl~~  128 (617)
                      |+|||||||+.++|..
T Consensus         9 G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           9 GPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             CSTTSSHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHH
Confidence            4499999999999975

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=89.55  E-value=0.082  Score=47.18  Aligned_cols=25  Identities=12%  Similarity=0.169  Sum_probs=17.8

Q ss_pred             eEEEEcCCCCCCHHHHHHHHHHHHHHh
Q psy3029         244 TYYETSALQDQGIEDVFLNVSKGLICL  270 (617)
Q Consensus       244 ~~~evSAktg~gI~eLf~~I~~~l~~~  270 (617)
                      .++.+.+.  ..++++++.|.+.+...
T Consensus       154 ~~~~Id~~--~~idev~~~I~~~l~~i  178 (189)
T d1zaka1         154 IIVKVQGD--ATVDAVFAKIDELLGSI  178 (189)
T ss_dssp             CEEEEECS--SCHHHHHHHHHHHHHHH
T ss_pred             CEEEEECC--CCHHHHHHHHHHHHHHH
Confidence            46677753  58899998887776544

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.40  E-value=0.056  Score=51.25  Aligned_cols=16  Identities=19%  Similarity=0.071  Sum_probs=13.9

Q ss_pred             CCCCCCHHHHHHHHHc
Q psy3029         113 FWLGVGKTSMVVRYIG  128 (617)
Q Consensus       113 G~~nVGKSSLinrl~~  128 (617)
                      |++|+|||||++-+.+
T Consensus        47 G~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          47 GPNGSGKSTVAALLQN   62 (251)
T ss_dssp             CSTTSSHHHHHHHHTT
T ss_pred             CCCCCcHHHHHHHHhc
Confidence            3399999999999876

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=89.34  E-value=0.11  Score=46.64  Aligned_cols=32  Identities=16%  Similarity=0.104  Sum_probs=20.4

Q ss_pred             HHHHhcCCeEEEEcCCCCCCHHHHHHHHHHHHHHhh
Q psy3029         236 HYSKSIGGTYYETSALQDQGIEDVFLNVSKGLICLS  271 (617)
Q Consensus       236 ~~~~~~g~~~~evSAktg~gI~eLf~~I~~~l~~~~  271 (617)
                      +++++.+ .++.+.   +..++++++.|...+..+.
T Consensus       147 ~~Y~~~~-~l~~id---g~~~~eV~~~I~~~i~~~l  178 (189)
T d2ak3a1         147 EYYRKKG-VLETFS---GTETNKIWPHVYAFLQTKL  178 (189)
T ss_dssp             HHHHHHT-CEEEEE---CSSHHHHHHHHHHHHHTTS
T ss_pred             HHHHhcC-CEEEEC---CCChHHHHHHHHHHHHHHh
Confidence            3444444 355565   4568999999998886543

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=89.29  E-value=0.1  Score=46.08  Aligned_cols=14  Identities=14%  Similarity=0.005  Sum_probs=12.7

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+..+|..
T Consensus         9 pGSGKsT~~~~La~   22 (179)
T d1e4va1           9 PVAGKGTQAQFIME   22 (179)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999998864

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=89.28  E-value=0.062  Score=50.49  Aligned_cols=22  Identities=27%  Similarity=0.141  Sum_probs=17.6

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            4555555999999999999874

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.19  E-value=0.12  Score=45.62  Aligned_cols=14  Identities=21%  Similarity=0.432  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+|||||+.++..
T Consensus        23 pGsGKST~a~~l~~   36 (172)
T d1yj5a2          23 PGAGKSTFIQEHLV   36 (172)
T ss_dssp             TTSSHHHHHHHHTG
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999964

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=89.16  E-value=0.059  Score=47.14  Aligned_cols=19  Identities=21%  Similarity=0.085  Sum_probs=14.5

Q ss_pred             cCCCCCCCCHHHHHHHHHc
Q psy3029         110 ANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~  128 (617)
                      +++|.+||||||+.+.|..
T Consensus         5 vliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           5 VLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EEECSTTSSHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHH
Confidence            3445599999999888853

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=89.13  E-value=0.051  Score=47.75  Aligned_cols=27  Identities=19%  Similarity=0.114  Sum_probs=20.9

Q ss_pred             hhheeeeccCCCCCCCcceeeeeeecccccccceeccccCccc
Q psy3029         314 ETAKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKMFS  356 (617)
Q Consensus       314 ~~~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~f~  356 (617)
                      ..+|+++|.|                ++||||++++++...+.
T Consensus        16 ~~~I~lvG~~----------------NvGKSSL~n~L~~~~~~   42 (188)
T d1puia_          16 GIEVAFAGRS----------------NAGKSSALNTLTNQKSL   42 (188)
T ss_dssp             SEEEEEEECT----------------TSSHHHHHTTTCCC---
T ss_pred             CCEEEEECCC----------------CCCHHHHHHHHhCCCce
Confidence            4678888888                99999999999876543

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.01  E-value=0.1  Score=45.93  Aligned_cols=19  Identities=16%  Similarity=0.132  Sum_probs=14.9

Q ss_pred             eecccccccceeccccCcc
Q psy3029         337 FWLGVGKTSMVVRYIGKMF  355 (617)
Q Consensus       337 g~~~vGKssi~~~~~~~~f  355 (617)
                      |.++|||||+++++++...
T Consensus         8 G~~nvGKSTLin~L~~~~~   26 (180)
T d1udxa2           8 GYPNAGKSSLLAAMTRAHP   26 (180)
T ss_dssp             CCGGGCHHHHHHHHCSSCC
T ss_pred             CCCCCCHHHHHHHHhCCCC
Confidence            3339999999999986543

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=88.94  E-value=0.06  Score=50.77  Aligned_cols=14  Identities=21%  Similarity=0.233  Sum_probs=13.1

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++-+.+
T Consensus        37 sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          37 SGGGKSTIFSLLER   50 (242)
T ss_dssp             TTSSHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999976

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=88.74  E-value=0.072  Score=50.07  Aligned_cols=23  Identities=26%  Similarity=0.091  Sum_probs=18.4

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      -+++|+|+.|+|||||++.+.+-
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCChHHHHHHHHhcC
Confidence            35556666999999999999874

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=88.59  E-value=0.12  Score=45.34  Aligned_cols=13  Identities=31%  Similarity=0.603  Sum_probs=12.2

Q ss_pred             CCCCHHHHHHHHH
Q psy3029         115 LGVGKTSMVVRYI  127 (617)
Q Consensus       115 ~nVGKSSLinrl~  127 (617)
                      +||||||+++.|.
T Consensus        10 ~GsGKTT~~~~La   22 (194)
T d1nksa_          10 PGVGKSTVLAKVK   22 (194)
T ss_dssp             TTSCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            9999999999885

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=88.44  E-value=0.048  Score=50.98  Aligned_cols=22  Identities=23%  Similarity=0.067  Sum_probs=17.6

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4455555999999999999874

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=88.41  E-value=0.059  Score=50.73  Aligned_cols=22  Identities=14%  Similarity=-0.078  Sum_probs=17.3

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4455555999999999999773

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=88.06  E-value=0.12  Score=45.03  Aligned_cols=17  Identities=24%  Similarity=-0.015  Sum_probs=13.9

Q ss_pred             CCCCCCCCHHHHHHHHH
Q psy3029         111 NWFWLGVGKTSMVVRYI  127 (617)
Q Consensus       111 i~G~~nVGKSSLinrl~  127 (617)
                      |.|.+||||||++++|.
T Consensus         6 i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           6 VTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             EECCTTSCHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            33559999999999885

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=87.95  E-value=0.081  Score=49.75  Aligned_cols=23  Identities=22%  Similarity=0.057  Sum_probs=19.0

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      -+++|+|+.|+|||||++.+.+-
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCC
Confidence            45666677999999999999874

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=87.75  E-value=0.17  Score=44.64  Aligned_cols=14  Identities=21%  Similarity=0.219  Sum_probs=12.8

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||.++|..
T Consensus        31 ~GSGKSTla~~L~~   44 (198)
T d1rz3a_          31 SRSGKTTLANQLSQ   44 (198)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999963

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=87.68  E-value=0.14  Score=43.36  Aligned_cols=14  Identities=21%  Similarity=0.458  Sum_probs=12.9

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +||||||+.+.|..
T Consensus        11 ~GsGKSTvak~La~   24 (169)
T d1kaga_          11 MGAGKSTIGRQLAQ   24 (169)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999975

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=87.43  E-value=0.09  Score=49.99  Aligned_cols=23  Identities=13%  Similarity=-0.187  Sum_probs=18.3

Q ss_pred             ccccCCCCCCCCHHHHHHHHHcC
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      -+++|+|+.|+|||||++.+.+-
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHcC
Confidence            45556666999999999999763

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=87.13  E-value=0.086  Score=48.85  Aligned_cols=15  Identities=27%  Similarity=0.381  Sum_probs=13.5

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      ||+|||||++.+.+.
T Consensus        44 pG~GKTtla~~la~~   58 (239)
T d1ixsb2          44 PGLGKTTLAHVIAHE   58 (239)
T ss_dssp             TTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            999999999999753

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=86.32  E-value=0.076  Score=46.79  Aligned_cols=33  Identities=21%  Similarity=0.227  Sum_probs=21.7

Q ss_pred             eeeeecccccccceeccccCcccCccCCcccee
Q psy3029         334 ANWFWLGVGKTSMVVRYIGKMFSHHISPTIGAS  366 (617)
Q Consensus       334 ~~~g~~~vGKssi~~~~~~~~f~~~~~pTIg~d  366 (617)
                      +++|.++||||++++++++........|++..+
T Consensus         4 ~lvG~~nvGKSsLin~l~~~~~~~~~~~g~T~~   36 (184)
T d2cxxa1           4 IFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRK   36 (184)
T ss_dssp             EEEEBTTSSHHHHHHHHHSCCCSSSSSTTCTTS
T ss_pred             EEECCCCCCHHHHHHHHhCCCceeeCCCCEeec
Confidence            334444999999999998766554444533333

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=86.26  E-value=0.07  Score=50.68  Aligned_cols=14  Identities=21%  Similarity=0.268  Sum_probs=12.7

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++-+.+
T Consensus        53 sGsGKSTLl~ll~g   66 (255)
T d2hyda1          53 SGGGKSTLINLIPR   66 (255)
T ss_dssp             TTSSHHHHHTTTTT
T ss_pred             CCCcHHHHHHHHHh
Confidence            99999999997765

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.23  E-value=0.18  Score=44.84  Aligned_cols=18  Identities=17%  Similarity=0.226  Sum_probs=14.8

Q ss_pred             CCCCCCCHHHHHHHHHcC
Q psy3029         112 WFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~~  129 (617)
                      +|++||||+||+++|+..
T Consensus         7 ~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           7 SGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHh
Confidence            344999999999999754

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=86.21  E-value=0.12  Score=48.57  Aligned_cols=22  Identities=18%  Similarity=-0.130  Sum_probs=17.6

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      .++|+|+.|+|||||++.+.+-
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4455555999999999999874

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=86.18  E-value=0.11  Score=48.11  Aligned_cols=14  Identities=29%  Similarity=0.413  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+|||||++.+..
T Consensus        44 pGtGKT~lA~~la~   57 (238)
T d1in4a2          44 PGLGKTTLAHIIAS   57 (238)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHh
Confidence            99999999999875

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=85.89  E-value=0.065  Score=50.42  Aligned_cols=22  Identities=23%  Similarity=0.001  Sum_probs=17.1

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|++|+|||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4444455999999999999873

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=85.83  E-value=0.19  Score=47.41  Aligned_cols=14  Identities=21%  Similarity=0.321  Sum_probs=13.1

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||++-+++
T Consensus        50 sGsGKSTLl~ll~g   63 (253)
T d3b60a1          50 SGSGKSTIASLITR   63 (253)
T ss_dssp             TTSSHHHHHHHHTT
T ss_pred             CCChHHHHHHHHhc
Confidence            99999999999876

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=85.69  E-value=0.13  Score=48.75  Aligned_cols=22  Identities=18%  Similarity=0.049  Sum_probs=17.7

Q ss_pred             cccCCCCCCCCHHHHHHHHHcC
Q psy3029         108 FEANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~~  129 (617)
                      +++|+|+.|+|||||++.+.+-
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHCC
Confidence            4455566999999999999874

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.57  E-value=0.21  Score=44.11  Aligned_cols=21  Identities=19%  Similarity=-0.051  Sum_probs=16.5

Q ss_pred             ccCCCCCCCCHHHHHHHHHcC
Q psy3029         109 EANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~~  129 (617)
                      ++|+|++|||||||+++|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            334466999999999999754

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.24  E-value=0.23  Score=47.67  Aligned_cols=15  Identities=40%  Similarity=0.727  Sum_probs=13.8

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      .|+|||||++.+++-
T Consensus        71 nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          71 TGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTSSHHHHHHHHHTS
T ss_pred             CCChHHHHHHHHhCC
Confidence            999999999999873

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.24  E-value=0.25  Score=43.82  Aligned_cols=14  Identities=29%  Similarity=0.477  Sum_probs=12.8

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+..+|..
T Consensus        10 pGSGKsT~a~~La~   23 (194)
T d1teva_          10 PGAGKGTQCARIVE   23 (194)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999864

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=85.12  E-value=0.23  Score=42.76  Aligned_cols=16  Identities=19%  Similarity=0.125  Sum_probs=13.8

Q ss_pred             CCCCCCHHHHHHHHHc
Q psy3029         113 FWLGVGKTSMVVRYIG  128 (617)
Q Consensus       113 G~~nVGKSSLinrl~~  128 (617)
                      |++|+||||+.++|..
T Consensus        13 G~~GsGKsT~a~~La~   28 (171)
T d1knqa_          13 GVSGSGKSAVASEVAH   28 (171)
T ss_dssp             CSTTSCHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHH
Confidence            4499999999999865

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=85.04  E-value=0.28  Score=42.72  Aligned_cols=26  Identities=31%  Similarity=0.387  Sum_probs=17.8

Q ss_pred             CCCCHHHHHHHHHcCCC--CCccCCCcc
Q psy3029         115 LGVGKTSMVVRYIGKMF--SHHISPTIG  140 (617)
Q Consensus       115 ~nVGKSSLinrl~~~~~--~~~~~~t~g  140 (617)
                      -|+|||||++.|+..--  ....+||..
T Consensus        42 LGaGKTtfvr~~~~~lg~~~~V~SPTF~   69 (158)
T d1htwa_          42 LGAGKTTLTRGMLQGIGHQGNVKSPTYT   69 (158)
T ss_dssp             TTSSHHHHHHHHHHHTTCCSCCCCCTTT
T ss_pred             CCccHHHHHHHHHhhcccccccCCCceE
Confidence            99999999999974311  234456654

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=84.99  E-value=0.16  Score=47.52  Aligned_cols=15  Identities=27%  Similarity=0.581  Sum_probs=13.4

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      ||+|||++++.+...
T Consensus        55 pGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          55 VGIGKTTLAKFTVKR   69 (287)
T ss_dssp             CSSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            999999999998753

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.96  E-value=0.27  Score=43.90  Aligned_cols=17  Identities=18%  Similarity=0.188  Sum_probs=14.1

Q ss_pred             CCCCCCCHHHHHHHHHc
Q psy3029         112 WFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~  128 (617)
                      +|++||||+||+++|+.
T Consensus         6 ~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           6 SGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             ECCTTSSHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            34499999999999864

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=83.81  E-value=0.27  Score=44.68  Aligned_cols=20  Identities=20%  Similarity=0.170  Sum_probs=16.1

Q ss_pred             cCCCCCCCCHHHHHHHHHcC
Q psy3029         110 ANWFWLGVGKTSMVVRYIGK  129 (617)
Q Consensus       110 ~i~G~~nVGKSSLinrl~~~  129 (617)
                      +|+|++|||||||+++|+..
T Consensus         6 vi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           6 IVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEECCTTSCHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHhh
Confidence            34455999999999999864

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=83.59  E-value=0.14  Score=45.59  Aligned_cols=20  Identities=20%  Similarity=0.077  Sum_probs=15.3

Q ss_pred             ccCCCCCCCCHHHHHHHHHc
Q psy3029         109 EANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       109 ~~i~G~~nVGKSSLinrl~~  128 (617)
                      ++|-|..||||||+++.|..
T Consensus        12 I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1          12 VLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             EEEECSTTSCHHHHHHTTGG
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            33334499999999999865

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=83.33  E-value=0.18  Score=45.56  Aligned_cols=21  Identities=14%  Similarity=-0.103  Sum_probs=16.4

Q ss_pred             cccCCCCCCCCHHHHHHHHHc
Q psy3029         108 FEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       108 ~~~i~G~~nVGKSSLinrl~~  128 (617)
                      .++|.|+||+||+|+...|..
T Consensus         5 iI~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            344556699999999999864

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=82.94  E-value=0.34  Score=43.70  Aligned_cols=14  Identities=43%  Similarity=0.532  Sum_probs=12.6

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||||||+|+..|..
T Consensus        52 pGVGKTalv~~LA~   65 (195)
T d1jbka_          52 PGVGKTAIVEGLAQ   65 (195)
T ss_dssp             TTSCHHHHHHHHHH
T ss_pred             CCcccHHHHHHHHH
Confidence            99999999988864

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.52  E-value=0.39  Score=43.26  Aligned_cols=14  Identities=21%  Similarity=0.418  Sum_probs=12.7

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||.++|..
T Consensus        11 ~gSGKSTla~~L~~   24 (213)
T d1uj2a_          11 TASGKSSVCAKIVQ   24 (213)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999864

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=82.36  E-value=0.19  Score=48.81  Aligned_cols=14  Identities=43%  Similarity=0.586  Sum_probs=13.1

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||||||.|.+++..
T Consensus        58 pG~GKT~lAkalA~   71 (309)
T d1ofha_          58 TGVGKTEIARRLAK   71 (309)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHhh
Confidence            99999999999975

>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: D2 core SNRNP protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.01  E-value=3.2  Score=32.30  Aligned_cols=66  Identities=14%  Similarity=0.288  Sum_probs=46.0

Q ss_pred             CCEEEEEEeCCcEEEEEEeeecCCceEEEEeeeecCCCCCCC-C--C------CCcccceeeeecCceeEEEecc
Q psy3029         461 GDKVTVYTVHGKQFEGYLKTFSKQFELVISMTHQVDPENPQC-I--D------PNTVVDMKIFKLDDIVRIEAKN  526 (617)
Q Consensus       461 G~~v~v~~~~G~~y~Gi~~~~s~~~~~~l~~~~~~~~~~~~~-~--~------~~~~~~~l~~~~~d~v~~~~~~  526 (617)
                      +..|.|.+++|..|.|.+.++..=+-+||.=|...-...... .  .      ..-....+++-+..|+.|....
T Consensus        14 ~~rV~V~lr~~r~~~G~L~afD~~~NlVL~d~~E~~~~~~~~~~~~~~~~~~~~~R~lg~~liRGdnVv~I~~~p   88 (93)
T d1b34b_          14 NTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSVIVVLRNP   88 (93)
T ss_dssp             TCEEEEEETTSCEEEEEEEEECTTCCEEEEEEEEC-------------------CEEEEEEEECGGGEEEEEECC
T ss_pred             CcEEEEEECCCCEEEEEEEEeccceeEEeeceEEEEEecCCccccccccccceeEEEeceEEEeCCEEEEEEcCh
Confidence            899999999999999999999988889998877652211100 0  0      0112246888999998876543

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.47  E-value=0.38  Score=42.68  Aligned_cols=14  Identities=21%  Similarity=0.392  Sum_probs=13.1

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||+||||+..+|..
T Consensus        17 pGSGKsT~a~~La~   30 (196)
T d1ukza_          17 PGAGKGTQCEKLVK   30 (196)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999999975

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=81.44  E-value=0.36  Score=44.56  Aligned_cols=14  Identities=29%  Similarity=0.292  Sum_probs=13.0

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      +|+|||||+.+++.
T Consensus        38 ~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          38 RRTGKSSIIKIGIN   51 (283)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999999999875

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=81.18  E-value=0.23  Score=44.85  Aligned_cols=22  Identities=18%  Similarity=-0.017  Sum_probs=17.1

Q ss_pred             ccccCCCCCCCCHHHHHHHHHc
Q psy3029         107 CFEANWFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       107 ~~~~i~G~~nVGKSSLinrl~~  128 (617)
                      .|++|-|..||||||+++.|..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3555567799999999998863

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=81.02  E-value=0.37  Score=41.61  Aligned_cols=17  Identities=18%  Similarity=0.319  Sum_probs=13.6

Q ss_pred             CCCCCCCHHHHHHHHHc
Q psy3029         112 WFWLGVGKTSMVVRYIG  128 (617)
Q Consensus       112 ~G~~nVGKSSLinrl~~  128 (617)
                      +|.+||||||+...|..
T Consensus         6 iG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           6 IGFMGSGKSTLARALAK   22 (161)
T ss_dssp             ECCTTSCHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            34499999999988853

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=80.99  E-value=0.33  Score=45.10  Aligned_cols=15  Identities=33%  Similarity=0.395  Sum_probs=13.6

Q ss_pred             CCCCHHHHHHHHHcC
Q psy3029         115 LGVGKTSMVVRYIGK  129 (617)
Q Consensus       115 ~nVGKSSLinrl~~~  129 (617)
                      ||+|||||+.++.+.
T Consensus        41 PGtGKT~la~~la~~   55 (273)
T d1gvnb_          41 PGSGKTSLRSAIFEE   55 (273)
T ss_dssp             TTSCTHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
Confidence            999999999999764

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=80.89  E-value=0.16  Score=45.27  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=19.2

Q ss_pred             heeeeccCCCCCCCcceeeeeeecccccccceeccccCc
Q psy3029         316 AKFVVGLSINSRVPNCFEANWFWLGVGKTSMVVRYIGKM  354 (617)
Q Consensus       316 ~v~ivG~~~~s~~~~~~~~~~g~~~vGKssi~~~~~~~~  354 (617)
                      +|+++|.|                ++||||+++++++..
T Consensus        25 ~I~lvG~~----------------n~GKSTLin~L~g~~   47 (195)
T d1svia_          25 EIALAGRS----------------NVGKSSFINSLINRK   47 (195)
T ss_dssp             EEEEEEBT----------------TSSHHHHHHHHHTC-
T ss_pred             EEEEECCC----------------CCCHHHHHHHhcCCC
Confidence            57888888                999999999998654

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=80.79  E-value=0.43  Score=45.23  Aligned_cols=14  Identities=36%  Similarity=0.387  Sum_probs=12.6

Q ss_pred             CCCCHHHHHHHHHc
Q psy3029         115 LGVGKTSMVVRYIG  128 (617)
Q Consensus       115 ~nVGKSSLinrl~~  128 (617)
                      ||||||+|+..|..
T Consensus        48 ~GvGKTalv~~la~   61 (268)
T d1r6bx2          48 SGVGKTAIAEGLAW   61 (268)
T ss_dssp             TTSSHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999999988864