Psyllid ID: psy8479

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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-------620-------630-------640-------650
Protein Sequence
MDPITPDPNHRDQQAADSKSLDSGVENNFSVDDALDETSPHVTDEEFYQSDKENVPESWLRPKGTFLDLAEKETFSPLESGPFSRCWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGSNFRWSDFSAKTRFGWDYLPYINTGKRLPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLRKENSDGCHRAEMTLSECDATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLPST
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccHHHHHHHHHcccccccccccccccEEEEEEEEEEEEccEEEcccccHHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEEEcccccccccccHHHHHHcccccEEEccccccccccHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHccccccccccccEEEcccccccEEEEcccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHccccccccccEEEccccccEEEccccEEEEEcccccccccccEEEEccccEEEEcEEEcccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEcccccccccHHHHHHHHHHcccccEEEEEEccccccHHHHHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccEEEEEEEEEEccccccHHHHHHHHHccccccccHHcccccEEEEEEEEEEEccccEcccHcHHHHHHHHHHHHHHHHHHHHHHcHHHcccccccEEEEEEEEcccccccccccHHHHHHHHccccEEEEEEccccccHHHHHHHHHHHHHHHHHcccEEEEcccccccHHHHHHHccccHEcccccEEEEEEcccEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHcccEEccccccEEEccccccccccccEccccccccEEEEEEccccEccccEEEccccccEEEEEEHHHHHHHcccccccEEEEcccccccccccccEEccccccHHHHHHHHHHcccccccccccccccccccccccccEcccccEEEEEEEEccccccccccccHHHHHHHHcEEcEEEEEEEcccccHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
mdpitpdpnhrdqqaadsksldsgvennfsvddaldetsphvtdeefyqsdkenvpeswlrpkgtfldlaeketfsplesgpfsrcwvntrtpppnflekswnfipgkaykpcetglgkstlmdslfntsfestpsphslpsvklkAHTYELQEnnvklkedSFKSIVDYIDNQFEAYLQEELKIKRSLntyhdnrihVCLYficptghglksldLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTEltsngvhiyefptddetmsdVNAAMTIFssipcdrslihtifppclrstspsspphfhslnilamqkvpgsnptidknlysffdckyfngleeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeEEEEEEEKEleneghcdfVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEeesnvigsnfrwsdfsaktrfgwdylpyintgkrlPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLRkensdgchraemtlsecdatttlgrgivrspgerkeknAEFFsragvnnnvtsslngagmppardwspvripttrlrcasknsdlplaeCLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQkfkvsktrvlpst
Flexible Loop (DISEMBL)
mdpitpdpnhrdqqaadsksldsgVENNFSVDDALDETSPHVTdeefyqsdkenvpeswlRPKGTFLDLAEKETfsplesgpfsrcWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEnnvklkedsfKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPiiakadtisksELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeekeleneghcdfvkLREMLIRTnmedmrektHCRHYELYrkkrleeesnvigsnfrwsdfsaktrFGWDYLPYINTGKRLPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLRKEnsdgchraemtlsecdatttlgrgivrspgerkeknaeffsragvnnnvtsslngagmppardwspvrIPTTRlrcasknsdlplAECLKSLDLVCMKKLDSKVNIIPiiakadtiskselqkfkvsktrvlpst
Low Complexity Region (SEG)
MDPITPDPNHRDQQAADSKSLDSGVENNFSVDDALDETSPHVTDEEFYQSDKENVPESWLRPKGTFLDLAEKETFSPLESGPFSRCWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTspssppHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeeKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGSNFRWSDFSAKTRFGWDYLPYINTGKRLPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLRKENSDGCHRAEMTLSECDATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLPST
Disordered region (IsUnstruct)
***************************************************************GTFLDLAE***F**LESGPFSRCWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMD*L***********************YEL***NVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLR***********SLNILAMQKVPGSNPTIDKNLYSFFDCKYFN***************************************************************HCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGSNFRWSDFSAKTRFGWDYLPYINTGKRLPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLR****************CDATTTL*********************************************VRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTI*******************
Disordered Region (DISOPRED)
***************************************************************************************VNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFN***************KLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLE*********************************************************NEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYR**********************************NTGKRLPKIILHLSG***********G*SAHRVAVLSAEVLRKENSDGCHRAEMTLSECDATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGA************IPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP**
Disordered Region (DISEMBL)
**********************SGVENNFSVDDALDE*****************VPESWLRPKGTFLDLAEKETFSPLESGPFSRCWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTS**********PSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNG************************************************************EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGSNFRWSDFSAKTRFGWDYLPYINTGKRLPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLRKENSDGCHRAEMTLSECDATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK**********
Disordered Region (DISPRO)
************************************************************************************RCWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEE*******EEEEE**EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGSNFRWSDFSAKTRFGWDYLPYINTGKRLPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLRKENSDGCHRAEMTLSECDATTTLGRGIVRSPGERKEKNAEFFSRA***************PPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDPITPDPNHRDQQAADSKSLDSGVENNFSVDDALDETSPHVTDEEFYQSDKENVPESWLRPKGTFLDLAEKETFSPLESGPFSRCWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGSNFRWSDFSAKTRFGWDYLPYINTGKRLPKIILHLSGSTLEAGSLVYTGGSAHRVAVLSAEVLRKENSDGCHRAEMTLSECDATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLPST
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	650	2.2.26 [Sep-21-2011]
P54359	419	Septin-2 OS=Drosophila me	yes	N/A	0.456	0.708	0.486	5e-77
A2VE99	425	Septin-11 OS=Bos taurus G	yes	N/A	0.256	0.392	0.681	3e-67
Q9NVA2	429	Septin-11 OS=Homo sapiens	yes	N/A	0.256	0.389	0.681	3e-67
Q5R8U3	425	Septin-11 OS=Pongo abelii	yes	N/A	0.256	0.392	0.681	3e-67
Q5REG8	467	Septin-10 OS=Pongo abelii	no	N/A	0.253	0.353	0.688	5e-67
B3GNI6	431	Septin-11 OS=Rattus norve	yes	N/A	0.256	0.387	0.681	5e-67
Q8C1B7	431	Septin-11 OS=Mus musculus	yes	N/A	0.256	0.387	0.681	5e-67
Q9P0V9	454	Septin-10 OS=Homo sapiens	no	N/A	0.253	0.363	0.688	6e-67
Q4R555	432	Septin-11 OS=Macaca fasci	N/A	N/A	0.256	0.386	0.675	3e-66
Q14141	434	Septin-6 OS=Homo sapiens	no	N/A	0.253	0.380	0.672	1e-65

>sp|P54359|SEPT2_DROME Septin-2 OS=Drosophila melanogaster GN=Sep2 PE=2 SV=2

 Score =  289 bits (740), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 175/360 (48%), Positives = 219/360 (60%), Gaps = 63/360 (17%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMD+LFNTSFESTPSPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct: 51  ETGLGKSTLMDTLFNTSFESTPSPHTLPSVKLKAHTYELQESNVRLKLTICDTVGYGDQI 110

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DSFK++VDYID QFE YLQEELKIKRSL T HD+RIH+CLYFICPTGHGLKSLDLVC
Sbjct: 111 NKDDSFKAVVDYIDAQFENYLQEELKIKRSLVTCHDSRIHICLYFICPTGHGLKSLDLVC 170

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIP+IAKADTISK ELQ+FK  I+ EL +NGVHIY+FPTDDET+++ N +M
Sbjct: 171 MKKLDSKVNIIPVIAKADTISKVELQRFKAKIIQELNANGVHIYQFPTDDETVAETNTSM 230

Query: 279 TIFSSIP----------------------------------CD-----RSLIHTIFPPCL 299
              S IP                                  CD       LI T      
Sbjct: 231 N--SHIPFAVVGSTEFIKVGNKLIRARQYPWGTVQVENETHCDFVKLREMLIRTNMEDMR 288

Query: 300 RSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSF---FDCKYFNGLEEEEEEEEEEEE 356
             T      H+       ++++  S+   D    SF   F+ K  N L E + +EEE  +
Sbjct: 289 EKTHTR---HYELYRQKRLEQMGFSDVDSDNKPISFQQTFEAKRSNHLAELQSKEEEVRQ 345

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREML 416
              +  +E+E E +E E++   + E+ + +  EE+ + EE  K LE E + DF + ++ L
Sbjct: 346 MFVQRVKEKEAELKESEKDLHAKFEKLKRDHAEEKRKLEESRKALE-EDYLDFQRRKQQL 404

Involved in cytokinesis.
Drosophila melanogaster (taxid: 7227)

>sp|A2VE99|SEP11_BOVIN Septin-11 OS=Bos taurus GN=SEPT11 PE=2 SV=1

 Score =  256 bits (655), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 124/182 (68%), Positives = 147/182 (80%), Gaps = 15/182 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct: 49  ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct: 109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct: 169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query: 279 TI 280
           ++
Sbjct: 229 SV 230

Filament-forming cytoskeletal GTPase (By similarity). May play a role in cytokinesis (Potential). May play a role in the cytoarchitecture of neurons, including dendritic arborization and dendritic spines, and in GABAergic synaptic connectivity.

Bos taurus (taxid: 9913)

>sp|Q9NVA2|SEP11_HUMAN Septin-11 OS=Homo sapiens GN=SEPT11 PE=1 SV=3

 Score =  256 bits (655), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 124/182 (68%), Positives = 147/182 (80%), Gaps = 15/182 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct: 49  ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct: 109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct: 169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query: 279 TI 280
           ++
Sbjct: 229 SV 230

Filament-forming cytoskeletal GTPase. May play a role in cytokinesis (Potential). May play a role in the cytoarchitecture of neurons, including dendritic arborization and dendritic spines, and in GABAergic synaptic connectivity (By similarity). During Listeria monocytogenes infection, not required for the bacterial entry process, but restricts its efficacy.

Homo sapiens (taxid: 9606)

>sp|Q5R8U3|SEP11_PONAB Septin-11 OS=Pongo abelii GN=SEPT11 PE=2 SV=3

 Score =  256 bits (655), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 124/182 (68%), Positives = 147/182 (80%), Gaps = 15/182 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct: 49  ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct: 109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct: 169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query: 279 TI 280
           ++
Sbjct: 229 SV 230

Filament-forming cytoskeletal GTPase. May play a role in cytokinesis (Potential). May play a role in the cytoarchitecture of neurons, including dendritic arborization and dendritic spines, and in GABAergic synaptic connectivity.

Pongo abelii (taxid: 9601)

>sp|Q5REG8|SEP10_PONAB Septin-10 OS=Pongo abelii GN=SEPT10 PE=2 SV=1

 Score =  256 bits (653), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 124/180 (68%), Positives = 146/180 (81%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTL+D+LFNT+FE   S H  P+VKLKA TYELQE+NV+LK             
Sbjct: 74  ETGIGKSTLIDTLFNTNFEDYESSHFCPNVKLKAQTYELQESNVQLKLTIVNTVGFGDQI 133

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             E+S++ IVDYID QFEAYLQEELKIKRSL TYHD+RIHVCLYFI PTGH LK+LDL+ 
Sbjct: 134 NKEESYQPIVDYIDAQFEAYLQEELKIKRSLFTYHDSRIHVCLYFISPTGHSLKTLDLLT 193

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MK LDSKVNIIP+IAKADT+SK+ELQKFK  +M+EL SNGV IY+FPTDD+T++ VNAAM
Sbjct: 194 MKNLDSKVNIIPVIAKADTVSKTELQKFKIKLMSELVSNGVQIYQFPTDDDTIAKVNAAM 253

Filament-forming cytoskeletal GTPase (By similarity). May play a role in cytokinesis.

Pongo abelii (taxid: 9601)

>sp|B3GNI6|SEP11_RAT Septin-11 OS=Rattus norvegicus GN=Sept11 PE=1 SV=1

 Score =  256 bits (653), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 124/182 (68%), Positives = 147/182 (80%), Gaps = 15/182 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct: 49  ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct: 109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct: 169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query: 279 TI 280
           ++
Sbjct: 229 SV 230

Filament-forming cytoskeletal GTPase. May play a role in cytokinesis (Potential). May play a role in the cytoarchitecture of neurons, including dendritic arborization and dendritic spines, and in GABAergic synaptic connectivity.

Rattus norvegicus (taxid: 10116)

>sp|Q8C1B7|SEP11_MOUSE Septin-11 OS=Mus musculus GN=Sept11 PE=1 SV=4

 Score =  256 bits (653), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 124/182 (68%), Positives = 147/182 (80%), Gaps = 15/182 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct: 49  ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct: 109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct: 169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query: 279 TI 280
           ++
Sbjct: 229 SV 230

Filament-forming cytoskeletal GTPase. May play a role in cytokinesis (Potential). May play a role in the cytoarchitecture of neurons, including dendritic arborization and dendritic spines, and in GABAergic synaptic connectivity.

Mus musculus (taxid: 10090)

>sp|Q9P0V9|SEP10_HUMAN Septin-10 OS=Homo sapiens GN=SEPT10 PE=1 SV=2

 Score =  255 bits (652), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 124/180 (68%), Positives = 146/180 (81%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTL+D+LFNT+FE   S H  P+VKLKA TYELQE+NV+LK             
Sbjct: 74  ETGIGKSTLIDTLFNTNFEDYESSHFCPNVKLKAQTYELQESNVQLKLTIVNTVGFGDQI 133

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             E+S++ IVDYID QFEAYLQEELKIKRSL TYHD+RIHVCLYFI PTGH LK+LDL+ 
Sbjct: 134 NKEESYQPIVDYIDAQFEAYLQEELKIKRSLFTYHDSRIHVCLYFISPTGHSLKTLDLLT 193

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MK LDSKVNIIP+IAKADT+SK+ELQKFK  +M+EL SNGV IY+FPTDD+T++ VNAAM
Sbjct: 194 MKNLDSKVNIIPVIAKADTVSKTELQKFKIKLMSELVSNGVQIYQFPTDDDTIAKVNAAM 253

Filament-forming cytoskeletal GTPase. May play a role in cytokinesis.

Homo sapiens (taxid: 9606)

>sp|Q4R555|SEP11_MACFA Septin-11 OS=Macaca fascicularis GN=SEPT11 PE=2 SV=3

 Score =  253 bits (646), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 123/182 (67%), Positives = 146/182 (80%), Gaps = 15/182 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct: 49  ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct: 109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
            KKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct: 169 TKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query: 279 TI 280
           ++
Sbjct: 229 SV 230

Filament-forming cytoskeletal GTPase. May play a role in cytokinesis (Potential). May play a role in the cytoarchitecture of neurons, including dendritic arborization and dendritic spines, and in GABAergic synaptic connectivity.

Macaca fascicularis (taxid: 9541)

>sp|Q14141|SEPT6_HUMAN Septin-6 OS=Homo sapiens GN=SEPT6 PE=1 SV=4

 Score =  251 bits (641), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 121/180 (67%), Positives = 144/180 (80%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMD+LFNT FE  P+ H+ P V+L+++TY+LQE+NV+LK             
Sbjct: 50  ETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQI 109

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDS+K IV++ID QFEAYLQEELKI+R L+TYHD+RIHVCLYFI PTGH LKSLDLV 
Sbjct: 110 NKEDSYKPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDLVT 169

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIPIIAKAD ISKSEL KFK  I +EL SNGV IY+FPTDDE+++++N  M
Sbjct: 170 MKKLDSKVNIIPIIAKADAISKSELTKFKIKITSELVSNGVQIYQFPTDDESVAEINGTM 229

Filament-forming cytoskeletal GTPase. Required for normal organization of the actin cytoskeleton. Involved in cytokinesis. May play a role in HCV RNA replication.

Homo sapiens (taxid: 9606)

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	650
307205104	421	Septin-2 [Harpegnathos saltator]	0.253	0.391	0.777	3e-77
383855620	421	PREDICTED: septin-2-like [Megachile rotu	0.253	0.391	0.777	5e-77
307174186	444	Septin-2 [Camponotus floridanus]	0.253	0.371	0.772	6e-77
322794608	468	hypothetical protein SINV_05914 [Solenop	0.253	0.352	0.761	7e-77
328785637	416	PREDICTED: septin-2 [Apis mellifera] gi|	0.253	0.396	0.777	8e-77
242006660	426	Septin-2, putative [Pediculus humanus co	0.253	0.387	0.772	1e-76
340715020	421	PREDICTED: septin-2-like [Bombus terrest	0.253	0.391	0.777	1e-76
332025336	421	Septin-2 [Acromyrmex echinatior]	0.253	0.391	0.75	2e-75
357605321	420	hypothetical protein KGM_13256 [Danaus p	0.253	0.392	0.761	3e-75
17738071	419	septin 2, isoform A [Drosophila melanoga	0.456	0.708	0.486	3e-75

>gi|307205104|gb|EFN83569.1| Septin-2 [Harpegnathos saltator]

 Score =  296 bits (758), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 140/180 (77%), Positives = 160/180 (88%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFES+PSPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct: 51  ETGLGKSTLMDSLFNTSFESSPSPHNLPSVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 110

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID QFEAYLQEELKIKRSL+TYHD+RIHVCLYFICPTGHGLKS+DLVC
Sbjct: 111 NKEDSFKAVVDYIDAQFEAYLQEELKIKRSLSTYHDSRIHVCLYFICPTGHGLKSIDLVC 170

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFK+ I++EL +NG+HIY+FPTDDE++S+VN  M
Sbjct: 171 MKKLDTKVNIIPIIAKADTISKTELQKFKSKIISELQNNGIHIYQFPTDDESVSEVNGTM 230

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383855620|ref|XP_003703308.1| PREDICTED: septin-2-like [Megachile rotundata]

 Score =  295 bits (755), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 140/180 (77%), Positives = 160/180 (88%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFEST SPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct: 51  ETGLGKSTLMDSLFNTSFESTQSPHNLPSVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 110

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID QFEAYLQEELKIKRSL TYHD+RIHVCLYFICPTGHGLKS+DLVC
Sbjct: 111 NKEDSFKAVVDYIDAQFEAYLQEELKIKRSLATYHDSRIHVCLYFICPTGHGLKSIDLVC 170

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFK+ I++EL +NGVHIY+FPTDDE++++VN++M
Sbjct: 171 MKKLDTKVNIIPIIAKADTISKTELQKFKSKIISELQNNGVHIYQFPTDDESVAEVNSSM 230

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307174186|gb|EFN64831.1| Septin-2 [Camponotus floridanus]

 Score =  295 bits (754), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 139/180 (77%), Positives = 158/180 (87%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFES+PSPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct: 74  ETGLGKSTLMDSLFNTSFESSPSPHNLPSVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 133

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID QFEAYLQEELKIKR+L TYHD+RIHVCLYFICPTGHGLKS+DLVC
Sbjct: 134 NKEDSFKAVVDYIDAQFEAYLQEELKIKRNLATYHDSRIHVCLYFICPTGHGLKSIDLVC 193

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFK+ I++EL +NG+HIY+FP DDET+SD+N  M
Sbjct: 194 MKKLDTKVNIIPIIAKADTISKTELQKFKSKIISELQNNGIHIYQFPIDDETVSDINTTM 253

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322794608|gb|EFZ17616.1| hypothetical protein SINV_05914 [Solenopsis invicta]

 Score =  295 bits (754), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 137/180 (76%), Positives = 160/180 (88%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFES+PSPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct: 98  ETGLGKSTLMDSLFNTSFESSPSPHNLPSVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 157

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID QFEAYLQEELKIKR+L TYHD+RIH+CLYFICPTGHGLKS+DLVC
Sbjct: 158 NKEDSFKAVVDYIDAQFEAYLQEELKIKRNLATYHDSRIHICLYFICPTGHGLKSIDLVC 217

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFK+ I++EL +NG+HIY+FPTDDE+++D+N+ M
Sbjct: 218 MKKLDTKVNIIPIIAKADTISKTELQKFKSKIISELQNNGIHIYQFPTDDESVADINSTM 277

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328785637|ref|XP_392412.2| PREDICTED: septin-2 [Apis mellifera] gi|380019980|ref|XP_003693877.1| PREDICTED: septin-2-like [Apis florea]

 Score =  294 bits (753), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 140/180 (77%), Positives = 159/180 (88%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFESTPS H+LP+VKLKAHTYELQE+NV+LK             
Sbjct: 51  ETGLGKSTLMDSLFNTSFESTPSSHNLPAVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 110

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID QFEAYLQEELKIKRSL TYHD+RIHVCLYFICPTGHGLKS+DLVC
Sbjct: 111 NKEDSFKAVVDYIDAQFEAYLQEELKIKRSLATYHDSRIHVCLYFICPTGHGLKSIDLVC 170

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFKT I++EL +NGVHIY+FPTDDE++++VN +M
Sbjct: 171 MKKLDTKVNIIPIIAKADTISKTELQKFKTKIISELQNNGVHIYQFPTDDESVAEVNTSM 230

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242006660|ref|XP_002424165.1| Septin-2, putative [Pediculus humanus corporis] gi|212507506|gb|EEB11427.1| Septin-2, putative [Pediculus humanus corporis]

 Score =  294 bits (752), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 139/180 (77%), Positives = 157/180 (87%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFESTPSPH+L +VKLKAHTYELQE+NV+LK             
Sbjct: 54  ETGLGKSTLMDSLFNTSFESTPSPHNLTTVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 113

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             E+SFK++VDYID QFEAYLQEELKIKRSL+TYHD RIHVCLYFICPTGHGLKS+DLVC
Sbjct: 114 NKENSFKAVVDYIDAQFEAYLQEELKIKRSLSTYHDTRIHVCLYFICPTGHGLKSIDLVC 173

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNI+PIIAKADTISK+ELQKFKT IM EL +NGVHIY+FPTDDE +++ NA+M
Sbjct: 174 MKKLDAKVNIVPIIAKADTISKTELQKFKTKIMGELQNNGVHIYQFPTDDENVAETNASM 233

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340715020|ref|XP_003396019.1| PREDICTED: septin-2-like [Bombus terrestris] gi|350417197|ref|XP_003491304.1| PREDICTED: septin-2-like [Bombus impatiens]

 Score =  294 bits (752), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 140/180 (77%), Positives = 158/180 (87%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFES PSPH+LP+VKLKAHTYELQE+NV+LK             
Sbjct: 51  ETGLGKSTLMDSLFNTSFESMPSPHNLPAVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 110

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID QFEAYLQEELKIKRSL TYHD+RIHVCLYFICPTGHGLKS+DLVC
Sbjct: 111 NKEDSFKAVVDYIDAQFEAYLQEELKIKRSLPTYHDSRIHVCLYFICPTGHGLKSIDLVC 170

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFKT I++EL +NGVHIY+FPTDDE +++VN +M
Sbjct: 171 MKKLDTKVNIIPIIAKADTISKTELQKFKTKIISELQNNGVHIYQFPTDDENVAEVNTSM 230

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332025336|gb|EGI65504.1| Septin-2 [Acromyrmex echinatior]

 Score =  290 bits (741), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 135/180 (75%), Positives = 157/180 (87%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNTSFES+PSPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct: 51  ETGLGKSTLMDSLFNTSFESSPSPHNLPSVKLKAHTYELQESNVRLKLTIVDTVGYGDQI 110

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID+QFEAYLQEELKIKR+L  YHD+RIH+CLYFICPTGHGLKS+DLVC
Sbjct: 111 NKEDSFKAVVDYIDSQFEAYLQEELKIKRNLAIYHDSRIHICLYFICPTGHGLKSIDLVC 170

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFK+ I++EL +NG+HIY+FP DDE ++D+N  M
Sbjct: 171 MKKLDTKVNIIPIIAKADTISKTELQKFKSKIISELQNNGIHIYQFPIDDENVADINTTM 230

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357605321|gb|EHJ64558.1| hypothetical protein KGM_13256 [Danaus plexippus]

 Score =  289 bits (740), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 137/180 (76%), Positives = 157/180 (87%), Gaps = 15/180 (8%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMDSLFNT+FESTPSPH+LP+VKLKAHTYELQE+NV+LK             
Sbjct: 52  ETGLGKSTLMDSLFNTNFESTPSPHNLPTVKLKAHTYELQESNVRLKLTICDTVGYGDQV 111

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDSFK++VDYID QFEAYLQEELKIKRSL +YHD+R+HVCLYFICPTGHGLKS+DLVC
Sbjct: 112 NKEDSFKAVVDYIDAQFEAYLQEELKIKRSLPSYHDSRLHVCLYFICPTGHGLKSIDLVC 171

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLD+KVNIIPIIAKADTISK+ELQKFK+ I+ EL +NGV IY+FP DD+++SDVN AM
Sbjct: 172 MKKLDTKVNIIPIIAKADTISKTELQKFKSKIIQELQANGVEIYQFPVDDDSVSDVNGAM 231

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17738071|ref|NP_524417.1| septin 2, isoform A [Drosophila melanogaster] gi|195353951|ref|XP_002043465.1| GM23178 [Drosophila sechellia] gi|2507386|sp|P54359.2|SEPT2_DROME RecName: Full=Septin-2 gi|1374719|gb|AAB52512.1| septin [Drosophila melanogaster] gi|7300634|gb|AAF55783.1| septin 2, isoform A [Drosophila melanogaster] gi|16769220|gb|AAL28829.1| LD20082p [Drosophila melanogaster] gi|194127606|gb|EDW49649.1| GM23178 [Drosophila sechellia]

 Score =  289 bits (740), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 175/360 (48%), Positives = 219/360 (60%), Gaps = 63/360 (17%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMD+LFNTSFESTPSPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct: 51  ETGLGKSTLMDTLFNTSFESTPSPHTLPSVKLKAHTYELQESNVRLKLTICDTVGYGDQI 110

Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             +DSFK++VDYID QFE YLQEELKIKRSL T HD+RIH+CLYFICPTGHGLKSLDLVC
Sbjct: 111 NKDDSFKAVVDYIDAQFENYLQEELKIKRSLVTCHDSRIHICLYFICPTGHGLKSLDLVC 170

Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIP+IAKADTISK ELQ+FK  I+ EL +NGVHIY+FPTDDET+++ N +M
Sbjct: 171 MKKLDSKVNIIPVIAKADTISKVELQRFKAKIIQELNANGVHIYQFPTDDETVAETNTSM 230

Query: 279 TIFSSIP----------------------------------CD-----RSLIHTIFPPCL 299
              S IP                                  CD       LI T      
Sbjct: 231 N--SHIPFAVVGSTEFIKVGNKLIRARQYPWGTVQVENETHCDFVKLREMLIRTNMEDMR 288

Query: 300 RSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSF---FDCKYFNGLEEEEEEEEEEEE 356
             T      H+       ++++  S+   D    SF   F+ K  N L E + +EEE  +
Sbjct: 289 EKTHTR---HYELYRQKRLEQMGFSDVDSDNKPISFQQTFEAKRSNHLAELQSKEEEVRQ 345

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREML 416
              +  +E+E E +E E++   + E+ + +  EE+ + EE  K LE E + DF + ++ L
Sbjct: 346 MFVQRVKEKEAELKESEKDLHAKFEKLKRDHAEEKRKLEESRKALE-EDYLDFQRRKQQL 404

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

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	650
FB|FBgn0014029	419	Sep2 "Septin 2" [Drosophila me	0.261	0.405	0.743	1e-88
FB|FBgn0026361	422	Sep5 "Septin 5" [Drosophila me	0.253	0.390	0.672	5.8e-82
UNIPROTKB|A2VE99	425	SEPT11 "Septin-11" [Bos taurus	0.256	0.392	0.681	2.5e-79
UNIPROTKB|D6RER5	432	SEPT11 "Septin-11" [Homo sapie	0.256	0.386	0.681	2.5e-79
UNIPROTKB|D6RGI3	425	SEPT11 "Septin-11" [Homo sapie	0.256	0.392	0.681	2.5e-79
UNIPROTKB|Q9NVA2	429	SEPT11 "Septin-11" [Homo sapie	0.256	0.389	0.681	2.5e-79
UNIPROTKB|F1RYS5	433	SEPT11 "Uncharacterized protei	0.256	0.385	0.681	2.5e-79
UNIPROTKB|F1P0X3	427	SEPT11 "Uncharacterized protei	0.256	0.391	0.681	2.5e-79
UNIPROTKB|D6RDU5	372	SEPT11 "Septin-11" [Homo sapie	0.256	0.448	0.681	2.5e-79
MGI|MGI:1277214	431	Sept11 "septin 11" [Mus muscul	0.256	0.387	0.681	2.5e-79

FB|FBgn0014029 Sep2 "Septin 2" [Drosophila melanogaster (taxid:7227)]

 Score = 696 (250.1 bits), Expect = 1.0e-88, Sum P(2) = 1.0e-88
 Identities = 139/187 (74%), Positives = 157/187 (83%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETGLGKSTLMD+LFNTSFESTPSPH+LPSVKLKAHTYELQE+NV+LK             
Sbjct:    51 ETGLGKSTLMDTLFNTSFESTPSPHTLPSVKLKAHTYELQESNVRLKLTICDTVGYGDQI 110

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DSFK++VDYID QFE YLQEELKIKRSL T HD+RIH+CLYFICPTGHGLKSLDLVC
Sbjct:   111 NKDDSFKAVVDYIDAQFENYLQEELKIKRSLVTCHDSRIHICLYFICPTGHGLKSLDLVC 170

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIP+IAKADTISK ELQ+FK  I+ EL +NGVHIY+FPTDDET+++ N +M
Sbjct:   171 MKKLDSKVNIIPVIAKADTISKVELQRFKAKIIQELNANGVHIYQFPTDDETVAETNTSM 230

Query:   279 TIFSSIP 285
                S IP
Sbjct:   231 N--SHIP 235

GO:0005525 "GTP binding" evidence=ISS

GO:0003924 "GTPase activity" evidence=IDA;NAS

GO:0000910 "cytokinesis" evidence=ISS;IMP;NAS

GO:0005940 "septin ring" evidence=ISS

GO:0045172 "germline ring canal" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0007349 "cellularization" evidence=TAS

GO:0007049 "cell cycle" evidence=IEA

GO:0005875 "microtubule associated complex" evidence=IDA

GO:0031105 "septin complex" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IDA

GO:0022008 "neurogenesis" evidence=IMP

FB|FBgn0026361 Sep5 "Septin 5" [Drosophila melanogaster (taxid:7227)]

 Score = 621 (223.7 bits), Expect = 5.8e-82, Sum P(3) = 5.8e-82
 Identities = 121/180 (67%), Positives = 147/180 (81%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ET LGKSTLMD+LFNTSF STPSPH+LP+VKLKA+TYELQE+NV+LK             
Sbjct:    54 ETALGKSTLMDTLFNTSFGSTPSPHNLPNVKLKANTYELQESNVRLKLTVCDTIGYGDQV 113

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
                DS+K++V+Y+D+QFEAYLQEELKI+R++ + HD R+H CLYFICPTGHGLK++DLVC
Sbjct:   114 NKADSYKALVEYVDSQFEAYLQEELKIQRAMASAHDGRVHACLYFICPTGHGLKAMDLVC 173

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MK+LD++VNIIP+IAKADTISKSEL  FK  IM EL  N V IY+FP DDET+S+ NAAM
Sbjct:   174 MKQLDTRVNIIPVIAKADTISKSELSGFKERIMDELRRNNVSIYQFPMDDETVSETNAAM 233

GO:0003924 "GTPase activity" evidence=NAS

GO:0000910 "cytokinesis" evidence=ISS;NAS

GO:0005940 "septin ring" evidence=ISS

GO:0031105 "septin complex" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005875 "microtubule associated complex" evidence=IDA

UNIPROTKB|A2VE99 SEPT11 "Septin-11" [Bos taurus (taxid:9913)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    49 ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query:   279 TI 280
             ++
Sbjct:   229 SV 230

GO:0045202 "synapse" evidence=IEA

GO:0043197 "dendritic spine" evidence=IEA

GO:0030424 "axon" evidence=IEA

GO:0051291 "protein heterooligomerization" evidence=IEA

GO:0001725 "stress fiber" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0031105 "septin complex" evidence=IEA

UNIPROTKB|D6RER5 SEPT11 "Septin-11" [Homo sapiens (taxid:9606)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    49 ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query:   279 TI 280
             ++
Sbjct:   229 SV 230

GO:0007049 "cell cycle" evidence=IEA

GO:0031105 "septin complex" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|D6RGI3 SEPT11 "Septin-11" [Homo sapiens (taxid:9606)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    49 ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query:   279 TI 280
             ++
Sbjct:   229 SV 230

GO:0007049 "cell cycle" evidence=IEA

GO:0031105 "septin complex" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|Q9NVA2 SEPT11 "Septin-11" [Homo sapiens (taxid:9606)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    49 ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query:   279 TI 280
             ++
Sbjct:   229 SV 230

GO:0031105 "septin complex" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0030424 "axon" evidence=IEA

GO:0043197 "dendritic spine" evidence=IEA

GO:0045202 "synapse" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0001725 "stress fiber" evidence=IDA

GO:0051291 "protein heterooligomerization" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F1RYS5 SEPT11 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    50 ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 109

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   110 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 169

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   170 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 229

Query:   279 TI 280
             ++
Sbjct:   230 SV 231

GO:0051291 "protein heterooligomerization" evidence=IEA

GO:0001725 "stress fiber" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0031105 "septin complex" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

UNIPROTKB|F1P0X3 SEPT11 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    51 ETGIGKSTLMDTLFNTKFESEPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 110

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   111 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 170

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   171 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 230

Query:   279 TI 280
             ++
Sbjct:   231 SV 232

GO:0007049 "cell cycle" evidence=IEA

GO:0031105 "septin complex" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0001725 "stress fiber" evidence=IEA

GO:0051291 "protein heterooligomerization" evidence=IEA

UNIPROTKB|D6RDU5 SEPT11 "Septin-11" [Homo sapiens (taxid:9606)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    41 ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 100

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   101 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 160

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   161 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 220

Query:   279 TI 280
             ++
Sbjct:   221 SV 222

GO:0007049 "cell cycle" evidence=IEA

GO:0031105 "septin complex" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

MGI|MGI:1277214 Sept11 "septin 11" [Mus musculus (taxid:10090)]

 Score = 624 (224.7 bits), Expect = 2.5e-79, Sum P(2) = 2.5e-79
 Identities = 124/182 (68%), Positives = 147/182 (80%)

Query:   114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
             ETG+GKSTLMD+LFNT FES P+ H+ P V+LKA +YELQE+NV+LK             
Sbjct:    49 ETGIGKSTLMDTLFNTKFESDPATHNEPGVRLKARSYELQESNVRLKLTIVDTVGFGDQI 108

Query:   161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
               +DS+K IV+YID QFEAYLQEELKIKRSL  YHD RIH CLYFI PTGH LKSLDLV 
Sbjct:   109 NKDDSYKPIVEYIDAQFEAYLQEELKIKRSLFNYHDTRIHACLYFIAPTGHSLKSLDLVT 168

Query:   219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
             MKKLDSKVNIIPIIAKADTI+K+EL KFK+ IM+EL SNGV IY+FPTD+ET++++NA M
Sbjct:   169 MKKLDSKVNIIPIIAKADTIAKNELHKFKSKIMSELVSNGVQIYQFPTDEETVAEINATM 228

Query:   279 TI 280
             ++
Sbjct:   229 SV 230

GO:0000166 "nucleotide binding" evidence=IEA

GO:0001725 "stress fiber" evidence=ISO

GO:0003674 "molecular_function" evidence=ND

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0031105 "septin complex" evidence=IEA

GO:0042995 "cell projection" evidence=IEA

GO:0045202 "synapse" evidence=IEA

GO:0051291 "protein heterooligomerization" evidence=ISO

GO:0051301 "cell division" 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	650
cd01850	275	cd01850, CDC_Septin, CDC/Septin GTPase family	9e-73
pfam00735	280	pfam00735, Septin, Septin	4e-53
COG5019	373	COG5019, CDC3, Septin family protein [Cell divisio	1e-44
cd01850	275	cd01850, CDC_Septin, CDC/Septin GTPase family	8e-16
cd01850	275	cd01850, CDC_Septin, CDC/Septin GTPase family	3e-13
pfam00735	280	pfam00735, Septin, Septin	6e-13
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-12
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-12
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-12
pfam04147	809	pfam04147, Nop14, Nop14-like family	4e-12
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	4e-12
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-11
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-11
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-11
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-11
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	8e-11
COG5019	373	COG5019, CDC3, Septin family protein [Cell divisio	1e-10
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-10
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	1e-10
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	1e-10
pfam03344	715	pfam03344, Daxx, Daxx Family	1e-10
pfam00735	280	pfam00735, Septin, Septin	2e-10
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-10
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	2e-10
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	2e-10
pfam03344	715	pfam03344, Daxx, Daxx Family	2e-10
pfam03344	715	pfam03344, Daxx, Daxx Family	2e-10
pfam03344	715	pfam03344, Daxx, Daxx Family	2e-10
PRK14160	211	PRK14160, PRK14160, heat shock protein GrpE; Provi	2e-10
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	2e-10
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-10
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-10
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-10
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-10
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	3e-10
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	4e-10
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	4e-10
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	4e-10
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	5e-10
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	5e-10
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	5e-10
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	9e-10
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-09
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	1e-09
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	1e-09
pfam03985	431	pfam03985, Paf1, Paf1	1e-09
pfam03985	431	pfam03985, Paf1, Paf1	1e-09
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	1e-09
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	1e-09
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-09
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-09
pfam04147	809	pfam04147, Nop14, Nop14-like family	2e-09
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-09
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	2e-09
pfam04050	171	pfam04050, Upf2, Up-frameshift suppressor 2	2e-09
pfam05285	317	pfam05285, SDA1, SDA1	2e-09
pfam05285	317	pfam05285, SDA1, SDA1	2e-09
pfam05285	317	pfam05285, SDA1, SDA1	2e-09
pfam09756	189	pfam09756, DDRGK, DDRGK domain	2e-09
pfam04147	809	pfam04147, Nop14, Nop14-like family	3e-09
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	3e-09
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	3e-09
pfam03985	431	pfam03985, Paf1, Paf1	3e-09
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	3e-09
pfam05285	317	pfam05285, SDA1, SDA1	3e-09
pfam05285	317	pfam05285, SDA1, SDA1	3e-09
pfam05285	317	pfam05285, SDA1, SDA1	3e-09
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	3e-09
pfam05285	317	pfam05285, SDA1, SDA1	4e-09
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	5e-09
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	5e-09
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	5e-09
pfam03985	431	pfam03985, Paf1, Paf1	5e-09
pfam03985	431	pfam03985, Paf1, Paf1	5e-09
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	6e-09
pfam05285	317	pfam05285, SDA1, SDA1	6e-09
pfam09756	189	pfam09756, DDRGK, DDRGK domain	6e-09
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	6e-09
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	7e-09
pfam03985	431	pfam03985, Paf1, Paf1	7e-09
pfam05285	317	pfam05285, SDA1, SDA1	7e-09
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	8e-09
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	8e-09
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-08
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-08
pfam03985	431	pfam03985, Paf1, Paf1	1e-08
pfam05285	317	pfam05285, SDA1, SDA1	1e-08
pfam09756	189	pfam09756, DDRGK, DDRGK domain	1e-08
pfam09756	189	pfam09756, DDRGK, DDRGK domain	1e-08
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	1e-08
COG5019	373	COG5019, CDC3, Septin family protein [Cell divisio	2e-08
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	2e-08
pfam03985	431	pfam03985, Paf1, Paf1	2e-08
pfam05285	317	pfam05285, SDA1, SDA1	2e-08
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	2e-08
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	2e-08
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	2e-08
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-08
pfam03985	431	pfam03985, Paf1, Paf1	3e-08
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	3e-08
pfam05285	317	pfam05285, SDA1, SDA1	3e-08
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	3e-08
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	4e-08
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	4e-08
pfam03985	431	pfam03985, Paf1, Paf1	4e-08
pfam05285	317	pfam05285, SDA1, SDA1	4e-08
pfam05285	317	pfam05285, SDA1, SDA1	4e-08
pfam00183	529	pfam00183, HSP90, Hsp90 protein	4e-08
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	4e-08
pfam00183	529	pfam00183, HSP90, Hsp90 protein	5e-08
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	5e-08
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	6e-08
pfam09747	178	pfam09747, DUF2052, Coiled-coil domain containing	6e-08
pfam00183	529	pfam00183, HSP90, Hsp90 protein	7e-08
pfam04546	211	pfam04546, Sigma70_ner, Sigma-70, non-essential re	7e-08
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	8e-08
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	8e-08
pfam09747	178	pfam09747, DUF2052, Coiled-coil domain containing	8e-08
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	8e-08
pfam04147	809	pfam04147, Nop14, Nop14-like family	9e-08
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	9e-08
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	1e-07
pfam09747	178	pfam09747, DUF2052, Coiled-coil domain containing	1e-07
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	1e-07
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	1e-07
COG5406	1001	COG5406, COG5406, Nucleosome binding factor SPN, S	1e-07
pfam02029	431	pfam02029, Caldesmon, Caldesmon	1e-07
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	1e-07
PLN03142	1033	PLN03142, PLN03142, Probable chromatin-remodeling	1e-07
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	1e-07
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	2e-07
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	2e-07
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	2e-07
pfam09747	178	pfam09747, DUF2052, Coiled-coil domain containing	2e-07
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-07
COG0576	193	COG0576, GrpE, Molecular chaperone GrpE (heat shoc	2e-07
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	2e-07
pfam02724	583	pfam02724, CDC45, CDC45-like protein	2e-07
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	3e-07
pfam03985	431	pfam03985, Paf1, Paf1	3e-07
PRK14140	191	PRK14140, PRK14140, heat shock protein GrpE; Provi	3e-07
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	3e-07
pfam05764	238	pfam05764, YL1, YL1 nuclear protein	3e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	3e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	3e-07
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	3e-07
COG0576	193	COG0576, GrpE, Molecular chaperone GrpE (heat shoc	3e-07
COG5414	392	COG5414, COG5414, TATA-binding protein-associated	3e-07
pfam04931	784	pfam04931, DNA_pol_phi, DNA polymerase phi	3e-07
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-07
pfam04774	106	pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA bindi	3e-07
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	4e-07
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	4e-07
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	4e-07
pfam04931	784	pfam04931, DNA_pol_phi, DNA polymerase phi	4e-07
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-07
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	5e-07
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	5e-07
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	5e-07
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	6e-07
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	6e-07
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	6e-07
pfam04931	784	pfam04931, DNA_pol_phi, DNA polymerase phi	6e-07
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	7e-07
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	7e-07
pfam03247	106	pfam03247, Prothymosin, Prothymosin/parathymosin f	7e-07
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	8e-07
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	8e-07
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	8e-07
pfam03962	188	pfam03962, Mnd1, Mnd1 family	8e-07
pfam03985	431	pfam03985, Paf1, Paf1	9e-07
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	9e-07
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	9e-07
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	9e-07
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	9e-07
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	9e-07
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	9e-07
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	9e-07
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-06
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	1e-06
pfam03985	431	pfam03985, Paf1, Paf1	1e-06
pfam03985	431	pfam03985, Paf1, Paf1	1e-06
pfam00183	529	pfam00183, HSP90, Hsp90 protein	1e-06
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	1e-06
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	1e-06
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	1e-06
pfam02029	431	pfam02029, Caldesmon, Caldesmon	1e-06
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	1e-06
COG0576	193	COG0576, GrpE, Molecular chaperone GrpE (heat shoc	1e-06
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	1e-06
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	1e-06
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	1e-06
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	1e-06
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	1e-06
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	1e-06
COG3343	175	COG3343, RpoE, DNA-directed RNA polymerase, delta	1e-06
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	1e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-06
pfam03985	431	pfam03985, Paf1, Paf1	2e-06
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	2e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-06
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-06
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	2e-06
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	2e-06
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	2e-06
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	2e-06
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	2e-06
pfam03247	106	pfam03247, Prothymosin, Prothymosin/parathymosin f	2e-06
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	2e-06
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-06
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-06
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	2e-06
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	2e-06
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	2e-06
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	2e-06
pfam04889	241	pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle cont	2e-06
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	3e-06
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	3e-06
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	3e-06
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	3e-06
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	3e-06
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	3e-06
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	3e-06
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	3e-06
COG3343	175	COG3343, RpoE, DNA-directed RNA polymerase, delta	3e-06
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	3e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	3e-06
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	3e-06
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	3e-06
pfam09538	104	pfam09538, FYDLN_acid, Protein of unknown function	3e-06
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	3e-06
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	3e-06
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	3e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-06
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	3e-06
pfam05672	171	pfam05672, MAP7, MAP7 (E-MAP-115) family	3e-06
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	3e-06
PRK14160	211	PRK14160, PRK14160, heat shock protein GrpE; Provi	4e-06
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	4e-06
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	4e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	4e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	4e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	4e-06
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	4e-06
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	4e-06
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	4e-06
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	4e-06
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	4e-06
pfam02724	583	pfam02724, CDC45, CDC45-like protein	4e-06
pfam02724	583	pfam02724, CDC45, CDC45-like protein	4e-06
pfam04931	784	pfam04931, DNA_pol_phi, DNA polymerase phi	4e-06
COG3343	175	COG3343, RpoE, DNA-directed RNA polymerase, delta	4e-06
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-06
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	4e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	4e-06
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	4e-06
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	4e-06
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	4e-06
pfam11942	92	pfam11942, Spt5_N, Spt5 transcription elongation f	4e-06
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	4e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	5e-06
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	5e-06
pfam09756	189	pfam09756, DDRGK, DDRGK domain	5e-06
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	5e-06
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	5e-06
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	5e-06
pfam09747	178	pfam09747, DUF2052, Coiled-coil domain containing	5e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	5e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	5e-06
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	5e-06
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	5e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-06
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	5e-06
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	5e-06
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	5e-06
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	5e-06
cd02988	192	cd02988, Phd_like_VIAF, Phosducin (Phd)-like famil	5e-06
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	6e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	6e-06
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	6e-06
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	6e-06
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	6e-06
pfam04889	241	pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle cont	6e-06
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	6e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	7e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	7e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	7e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	7e-06
PRK05901	509	PRK05901, PRK05901, RNA polymerase sigma factor; P	7e-06
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	7e-06
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	7e-06
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	7e-06
pfam09538	104	pfam09538, FYDLN_acid, Protein of unknown function	7e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-06
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	7e-06
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	8e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	8e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	8e-06
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	8e-06
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	8e-06
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	8e-06
COG2433	652	COG2433, COG2433, Uncharacterized conserved protei	8e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	9e-06
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	9e-06
pfam11705	221	pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polym	9e-06
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	9e-06
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	9e-06
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	9e-06
PTZ00415	2849	PTZ00415, PTZ00415, transmission-blocking target a	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	9e-06
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	9e-06
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	9e-06
pfam04147	809	pfam04147, Nop14, Nop14-like family	1e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-05
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	1e-05
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	1e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-05
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	1e-05
pfam02724	583	pfam02724, CDC45, CDC45-like protein	1e-05
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	1e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	1e-05
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	1e-05
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	1e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	1e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	1e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-05
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	1e-05
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	1e-05
pfam05672	171	pfam05672, MAP7, MAP7 (E-MAP-115) family	1e-05
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	1e-05
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	1e-05
PRK05658	619	PRK05658, PRK05658, RNA polymerase sigma factor Rp	1e-05
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	1e-05
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	1e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-05
pfam04050	171	pfam04050, Upf2, Up-frameshift suppressor 2	2e-05
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	2e-05
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-05
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-05
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-05
PLN03142	1033	PLN03142, PLN03142, Probable chromatin-remodeling	2e-05
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	2e-05
pfam02724	583	pfam02724, CDC45, CDC45-like protein	2e-05
pfam02724	583	pfam02724, CDC45, CDC45-like protein	2e-05
pfam04774	106	pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA bindi	2e-05
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	2e-05
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	2e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-05
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	2e-05
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	2e-05
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	2e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	2e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	2e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	2e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	2e-05
cd02988	192	cd02988, Phd_like_VIAF, Phosducin (Phd)-like famil	2e-05
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	2e-05
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	2e-05
PRK14150	193	PRK14150, PRK14150, heat shock protein GrpE; Provi	2e-05
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	2e-05
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	2e-05
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	2e-05
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	2e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-05
PTZ00438	374	PTZ00438, PTZ00438, gamete antigen 27/25-like prot	2e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-05
pfam03985	431	pfam03985, Paf1, Paf1	3e-05
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	3e-05
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	3e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-05
pfam04774	106	pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA bindi	3e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-05
pfam03247	106	pfam03247, Prothymosin, Prothymosin/parathymosin f	3e-05
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	3e-05
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	3e-05
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	3e-05
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	3e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	3e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-05
pfam11942	92	pfam11942, Spt5_N, Spt5 transcription elongation f	3e-05
pfam08597	242	pfam08597, eIF3_subunit, Translation initiation fa	3e-05
PRK05658	619	PRK05658, PRK05658, RNA polymerase sigma factor Rp	3e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	3e-05
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	3e-05
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	3e-05
pfam11748	115	pfam11748, DUF3306, Protein of unknown function (D	3e-05
pfam11748	115	pfam11748, DUF3306, Protein of unknown function (D	3e-05
pfam11748	115	pfam11748, DUF3306, Protein of unknown function (D	3e-05
pfam05758	832	pfam05758, Ycf1, Ycf1	3e-05
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	3e-05
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	3e-05
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	3e-05
pfam05285	317	pfam05285, SDA1, SDA1	4e-05
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	4e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	4e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	4e-05
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	4e-05
pfam02724	583	pfam02724, CDC45, CDC45-like protein	4e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-05
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	4e-05
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	4e-05
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	4e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-05
cd02988	192	cd02988, Phd_like_VIAF, Phosducin (Phd)-like famil	4e-05
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	4e-05
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	4e-05
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	4e-05
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	4e-05
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	4e-05
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	4e-05
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	4e-05
pfam09731	493	pfam09731, Mitofilin, Mitochondrial inner membrane	4e-05
PRK06669	281	PRK06669, fliH, flagellar assembly protein H; Vali	4e-05
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	4e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	5e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	5e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	5e-05
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	5e-05
PTZ00248	319	PTZ00248, PTZ00248, eukaryotic translation initiat	5e-05
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	5e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	5e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	5e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	5e-05
pfam04774	106	pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA bindi	5e-05
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	5e-05
pfam04889	241	pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle cont	5e-05
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	5e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	5e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	5e-05
pfam05758	832	pfam05758, Ycf1, Ycf1	5e-05
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	5e-05
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	5e-05
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	5e-05
pfam06991	277	pfam06991, Prp19_bind, Splicing factor, Prp19-bind	5e-05
pfam05432	291	pfam05432, BSP_II, Bone sialoprotein II (BSP-II)	5e-05
pfam09073	424	pfam09073, BUD22, BUD22	5e-05
pfam09184	285	pfam09184, PPP4R2, PPP4R2	5e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	6e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	6e-05
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	6e-05
pfam02459	548	pfam02459, Adeno_terminal, Adenoviral DNA terminal	6e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	6e-05
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	6e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-05
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	6e-05
pfam11748	115	pfam11748, DUF3306, Protein of unknown function (D	6e-05
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	6e-05
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	6e-05
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	6e-05
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	6e-05
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	6e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	7e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	7e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	7e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	7e-05
pfam04774	106	pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA bindi	7e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	7e-05
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	7e-05
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	7e-05
pfam09184	285	pfam09184, PPP4R2, PPP4R2	7e-05
pfam03343	603	pfam03343, SART-1, SART-1 family	7e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	8e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	8e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	8e-05
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	8e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	8e-05
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	8e-05
pfam05432	291	pfam05432, BSP_II, Bone sialoprotein II (BSP-II)	8e-05
pfam03343	603	pfam03343, SART-1, SART-1 family	8e-05
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	8e-05
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	8e-05
pfam04147	809	pfam04147, Nop14, Nop14-like family	9e-05
pfam06213	282	pfam06213, CobT, Cobalamin biosynthesis protein Co	9e-05
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	9e-05
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	9e-05
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	9e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	9e-05
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	9e-05
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	9e-05
pfam11748	115	pfam11748, DUF3306, Protein of unknown function (D	9e-05
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	9e-05
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	9e-05
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	1e-04
pfam09756	189	pfam09756, DDRGK, DDRGK domain	1e-04
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	1e-04
PRK14891	131	PRK14891, PRK14891, 50S ribosomal protein L24e/unk	1e-04
pfam09747	178	pfam09747, DUF2052, Coiled-coil domain containing	1e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	1e-04
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	1e-04
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	1e-04
pfam02029	431	pfam02029, Caldesmon, Caldesmon	1e-04
pfam02029	431	pfam02029, Caldesmon, Caldesmon	1e-04
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	1e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	1e-04
COG3343	175	COG3343, RpoE, DNA-directed RNA polymerase, delta	1e-04
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	1e-04
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	1e-04
pfam09538	104	pfam09538, FYDLN_acid, Protein of unknown function	1e-04
pfam09538	104	pfam09538, FYDLN_acid, Protein of unknown function	1e-04
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	1e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-04
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	1e-04
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	1e-04
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	1e-04
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	1e-04
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	1e-04
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	1e-04
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	1e-04
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	1e-04
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	1e-04
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	1e-04
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	1e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	1e-04
pfam09184	285	pfam09184, PPP4R2, PPP4R2	1e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	1e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	1e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-04
pfam13476	204	pfam13476, AAA_23, AAA domain	1e-04
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	1e-04
pfam06512	230	pfam06512, Na_trans_assoc, Sodium ion transport-as	1e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-04
pfam04615	728	pfam04615, Utp14, Utp14 protein	1e-04
pfam04615	728	pfam04615, Utp14, Utp14 protein	1e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	1e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	1e-04
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-04
pfam04111	356	pfam04111, APG6, Autophagy protein Apg6	1e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	2e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-04
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	2e-04
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	2e-04
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	2e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	2e-04
pfam02029	431	pfam02029, Caldesmon, Caldesmon	2e-04
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	2e-04
COG0576	193	COG0576, GrpE, Molecular chaperone GrpE (heat shoc	2e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	2e-04
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	2e-04
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	2e-04
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	2e-04
pfam14181	155	pfam14181, YqfQ, YqfQ-like protein	2e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	2e-04
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	2e-04
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	2e-04
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	2e-04
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	2e-04
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	2e-04
pfam04874	97	pfam04874, Mak16, Mak16 protein C-terminal region	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	2e-04
pfam11942	92	pfam11942, Spt5_N, Spt5 transcription elongation f	2e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	2e-04
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	2e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	2e-04
PTZ00438	374	PTZ00438, PTZ00438, gamete antigen 27/25-like prot	2e-04
pfam05758	832	pfam05758, Ycf1, Ycf1	2e-04
pfam05758	832	pfam05758, Ycf1, Ycf1	2e-04
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	2e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	2e-04
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	2e-04
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	2e-04
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	2e-04
pfam09073	424	pfam09073, BUD22, BUD22	2e-04
pfam09073	424	pfam09073, BUD22, BUD22	2e-04
pfam09073	424	pfam09073, BUD22, BUD22	2e-04
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	2e-04
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	2e-04
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	2e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	2e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	2e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	2e-04
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	2e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	2e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-04
PRK14149	191	PRK14149, PRK14149, heat shock protein GrpE; Provi	2e-04
pfam05279	240	pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylas	2e-04
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	2e-04
TIGR02907	338	TIGR02907, spore_VI_D, stage VI sporulation protei	2e-04
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	2e-04
pfam11711	377	pfam11711, Tim54, Inner membrane protein import co	2e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	3e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-04
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	3e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	3e-04
pfam07767	387	pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)	3e-04
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	3e-04
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	3e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	3e-04
pfam03066	146	pfam03066, Nucleoplasmin, Nucleoplasmin	3e-04
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	3e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	3e-04
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	3e-04
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	3e-04
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	3e-04
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	3e-04
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	3e-04
COG5238	388	COG5238, RNA1, Ran GTPase-activating protein (RanG	3e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	3e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	3e-04
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	3e-04
pfam09073	424	pfam09073, BUD22, BUD22	3e-04
pfam11831	363	pfam11831, Myb_Cef, pre-mRNA splicing factor compo	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	3e-04
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	3e-04
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	3e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	3e-04
TIGR02794	346	TIGR02794, tolA_full, TolA protein	3e-04
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	3e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	3e-04
pfam04156	186	pfam04156, IncA, IncA protein	3e-04
PRK05687	246	PRK05687, fliH, flagellar assembly protein H; Vali	3e-04
COG5177	769	COG5177, COG5177, Uncharacterized conserved protei	3e-04
PTZ00423	193	PTZ00423, PTZ00423, glideosome-associated protein	3e-04
COG3351	214	COG3351, FlaD, Putative archaeal flagellar protein	3e-04
COG2811	108	COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase su	3e-04
COG5167	776	COG5167, VID27, Protein involved in vacuole import	3e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	4e-04
pfam03344	715	pfam03344, Daxx, Daxx Family	4e-04
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	4e-04
pfam03247	106	pfam03247, Prothymosin, Prothymosin/parathymosin f	4e-04
COG3343	175	COG3343, RpoE, DNA-directed RNA polymerase, delta	4e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	4e-04
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	4e-04
pfam09538	104	pfam09538, FYDLN_acid, Protein of unknown function	4e-04
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	4e-04
pfam03896	281	pfam03896, TRAP_alpha, Translocon-associated prote	4e-04
PRK04019	330	PRK04019, rplP0, acidic ribosomal protein P0; Vali	4e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	4e-04
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	4e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	4e-04
pfam09073	424	pfam09073, BUD22, BUD22	4e-04
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	4e-04
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	4e-04
pfam13476	204	pfam13476, AAA_23, AAA domain	4e-04
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	4e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	4e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	4e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	4e-04
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	4e-04
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	4e-04
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	4e-04
pfam11711	377	pfam11711, Tim54, Inner membrane protein import co	4e-04
COG3351	214	COG3351, FlaD, Putative archaeal flagellar protein	4e-04
COG3351	214	COG3351, FlaD, Putative archaeal flagellar protein	4e-04
COG5167	776	COG5167, VID27, Protein involved in vacuole import	4e-04
COG5167	776	COG5167, VID27, Protein involved in vacuole import	4e-04
pfam12118	261	pfam12118, SprA-related, SprA-related family	4e-04
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	4e-04
PRK14145	196	PRK14145, PRK14145, heat shock protein GrpE; Provi	4e-04
PRK12329	449	PRK12329, nusA, transcription elongation factor Nu	5e-04
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	5e-04
pfam00183	529	pfam00183, HSP90, Hsp90 protein	5e-04
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	5e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	5e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	5e-04
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	5e-04
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	5e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	5e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	5e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	5e-04
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	5e-04
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	5e-04
pfam06991	277	pfam06991, Prp19_bind, Splicing factor, Prp19-bind	5e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	5e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	5e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	5e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	5e-04
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	5e-04
COG3351	214	COG3351, FlaD, Putative archaeal flagellar protein	5e-04
COG5167	776	COG5167, VID27, Protein involved in vacuole import	5e-04
COG5167	776	COG5167, VID27, Protein involved in vacuole import	5e-04
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	5e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	5e-04
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	6e-04
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	6e-04
pfam02029	431	pfam02029, Caldesmon, Caldesmon	6e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	6e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	6e-04
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	6e-04
pfam04889	241	pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle cont	6e-04
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	6e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-04
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	6e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	6e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	6e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	6e-04
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	6e-04
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	6e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	6e-04
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	6e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	6e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	6e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	6e-04
pfam05279	240	pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylas	6e-04
PRK05687	246	PRK05687, fliH, flagellar assembly protein H; Vali	6e-04
COG5167	776	COG5167, VID27, Protein involved in vacuole import	6e-04
pfam10211	189	pfam10211, Ax_dynein_light, Axonemal dynein light	6e-04
PRK14156	177	PRK14156, PRK14156, heat shock protein GrpE; Provi	6e-04
pfam02029	431	pfam02029, Caldesmon, Caldesmon	7e-04
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	7e-04
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	7e-04
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	7e-04
PRK14150	193	PRK14150, PRK14150, heat shock protein GrpE; Provi	7e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	7e-04
pfam09073	424	pfam09073, BUD22, BUD22	7e-04
pfam04111	356	pfam04111, APG6, Autophagy protein Apg6	7e-04
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	7e-04
PTZ00423	193	PTZ00423, PTZ00423, glideosome-associated protein	7e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	7e-04
pfam09110	109	pfam09110, HAND, HAND	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	7e-04
pfam02841	297	pfam02841, GBP_C, Guanylate-binding protein, C-ter	7e-04
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	8e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	8e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	8e-04
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	8e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	8e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	8e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	8e-04
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	8e-04
pfam09073	424	pfam09073, BUD22, BUD22	8e-04
pfam09073	424	pfam09073, BUD22, BUD22	8e-04
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	8e-04
pfam06512	230	pfam06512, Na_trans_assoc, Sodium ion transport-as	8e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	8e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	8e-04
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	8e-04
PRK05687	246	PRK05687, fliH, flagellar assembly protein H; Vali	8e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	8e-04
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	8e-04
COG3064	387	COG3064, TolA, Membrane protein involved in colici	8e-04
cd11486	635	cd11486, SLC5sbd_SGLT1, Na(+)/glucose cotransporte	8e-04
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	9e-04
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	9e-04
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	9e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	9e-04
pfam05279	240	pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylas	9e-04
COG5167	776	COG5167, VID27, Protein involved in vacuole import	9e-04
COG1390	194	COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase su	9e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	9e-04
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.001
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.001
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam04712	481	pfam04712, Radial_spoke, Radial spokehead-like pro	0.001
pfam07423	214	pfam07423, DUF1510, Protein of unknown function (D	0.001
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	0.001
PHA03169	413	PHA03169, PHA03169, hypothetical protein; Provisio	0.001
COG5406	1001	COG5406, COG5406, Nucleosome binding factor SPN, S	0.001
PRK09510	387	PRK09510, tolA, cell envelope integrity inner memb	0.001
pfam11861	154	pfam11861, DUF3381, Domain of unknown function (DU	0.001
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.001
pfam04931	784	pfam04931, DNA_pol_phi, DNA polymerase phi	0.001
COG4547	620	COG4547, CobT, Cobalamin biosynthesis protein CobT	0.001
pfam11081	172	pfam11081, DUF2890, Protein of unknown function (D	0.001
COG3343	175	COG3343, RpoE, DNA-directed RNA polymerase, delta	0.001
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.001
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.001
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	0.001
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	0.001
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	0.001
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.001
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.001
PTZ00438	374	PTZ00438, PTZ00438, gamete antigen 27/25-like prot	0.001
PRK09202	470	PRK09202, nusA, transcription elongation factor Nu	0.001
pfam09073	424	pfam09073, BUD22, BUD22	0.001
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.001
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.001
pfam07946	322	pfam07946, DUF1682, Protein of unknown function (D	0.001
pfam13476	204	pfam13476, AAA_23, AAA domain	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.001
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.001
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.001
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.001
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.001
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	0.001
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.001
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.001
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.001
pfam04111	356	pfam04111, APG6, Autophagy protein Apg6	0.001
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.001
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.001
TIGR02907	338	TIGR02907, spore_VI_D, stage VI sporulation protei	0.001
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	0.001
COG2811	108	COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase su	0.001
COG5167	776	COG5167, VID27, Protein involved in vacuole import	0.001
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.001
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.001
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.001
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.001
pfam10211	189	pfam10211, Ax_dynein_light, Axonemal dynein light	0.001
PRK14156	177	PRK14156, PRK14156, heat shock protein GrpE; Provi	0.001
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	0.001
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.001
COG1390	194	COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase su	0.001
COG1317	234	COG1317, FliH, Flagellar biosynthesis/type III sec	0.001
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.001
TIGR03779	410	TIGR03779, Bac_Flav_CT_M, Bacteroides conjugative	0.001
TIGR03779	410	TIGR03779, Bac_Flav_CT_M, Bacteroides conjugative	0.001
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.001
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.001
TIGR03825	255	TIGR03825, FliH_bacil, flagellar assembly protein	0.001
TIGR03825	255	TIGR03825, FliH_bacil, flagellar assembly protein	0.001
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.001
COG5129	303	COG5129, MAK16, Nuclear protein with HMG-like acid	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.001
PRK14520	155	PRK14520, rpsP, 30S ribosomal protein S16; Provisi	0.001
PRK14520	155	PRK14520, rpsP, 30S ribosomal protein S16; Provisi	0.001
COG5163	591	COG5163, NOP7, Protein required for biogenesis of	0.001
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	0.001
pfam09736	141	pfam09736, Bud13, Pre-mRNA-splicing factor of RES	0.001
pfam07222	243	pfam07222, PBP_sp32, Proacrosin binding protein sp	0.001
COG1667	254	COG1667, COG1667, Uncharacterized protein conserve	0.001
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.002
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.002
PRK14160	211	PRK14160, PRK14160, heat shock protein GrpE; Provi	0.002
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	0.002
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	0.002
COG5406	1001	COG5406, COG5406, Nucleosome binding factor SPN, S	0.002
pfam02029	431	pfam02029, Caldesmon, Caldesmon	0.002
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	0.002
pfam14153	185	pfam14153, Spore_coat_CotO, Spore coat protein Cot	0.002
PTZ00121	2084	PTZ00121, PTZ00121, MAEBL; Provisional	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.002
PRK12585	197	PRK12585, PRK12585, putative monovalent cation/H+	0.002
pfam05793	528	pfam05793, TFIIF_alpha, Transcription initiation f	0.002
PRK02363	129	PRK02363, PRK02363, DNA-directed RNA polymerase su	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
pfam09805	134	pfam09805, Nop25, Nucleolar protein 12 (25kDa)	0.002
pfam04006	613	pfam04006, Mpp10, Mpp10 protein	0.002
pfam11942	92	pfam11942, Spt5_N, Spt5 transcription elongation f	0.002
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	0.002
pfam05887	145	pfam05887, Trypan_PARP, Procyclic acidic repetitiv	0.002
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	0.002
PTZ00438	374	PTZ00438, PTZ00438, gamete antigen 27/25-like prot	0.002
pfam11748	115	pfam11748, DUF3306, Protein of unknown function (D	0.002
PRK14521	186	PRK14521, rpsP, 30S ribosomal protein S16; Provisi	0.002
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	0.002
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	0.002
PRK12298	390	PRK12298, obgE, GTPase CgtA; Reviewed	0.002
pfam09507	427	pfam09507, CDC27, DNA polymerase subunit Cdc27	0.002
pfam09073	424	pfam09073, BUD22, BUD22	0.002
pfam03343	603	pfam03343, SART-1, SART-1 family	0.002
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	0.002
pfam13476	204	pfam13476, AAA_23, AAA domain	0.002
pfam09026	101	pfam09026, Cenp-B_dimeris, Centromere protein B di	0.002
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.002
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.002
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	0.002
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	0.002
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.002
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.002
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.002
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.002
pfam05279	240	pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylas	0.002
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	0.002
TIGR01554	384	TIGR01554, major_cap_HK97, phage major capsid prot	0.002
PRK05687	246	PRK05687, fliH, flagellar assembly protein H; Vali	0.002
COG2811	108	COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase su	0.002
COG5167	776	COG5167, VID27, Protein involved in vacuole import	0.002
COG5167	776	COG5167, VID27, Protein involved in vacuole import	0.002
COG5167	776	COG5167, VID27, Protein involved in vacuole import	0.002
pfam12118	261	pfam12118, SprA-related, SprA-related family	0.002
PRK14145	196	PRK14145, PRK14145, heat shock protein GrpE; Provi	0.002
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.002
PRK14156	177	PRK14156, PRK14156, heat shock protein GrpE; Provi	0.002
pfam09110	109	pfam09110, HAND, HAND	0.002
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.002
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.002
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.002
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.002
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.002
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.002
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.002
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
pfam12253	76	pfam12253, CAF1A, Chromatin assembly factor 1 subu	0.002
PRK14520	155	PRK14520, rpsP, 30S ribosomal protein S16; Provisi	0.002
PRK14520	155	PRK14520, rpsP, 30S ribosomal protein S16; Provisi	0.002
COG5163	591	COG5163, NOP7, Protein required for biogenesis of	0.002
pfam07222	243	pfam07222, PBP_sp32, Proacrosin binding protein sp	0.002
PLN00152	130	PLN00152, PLN00152, DNA-directed RNA polymerase; P	0.002
pfam04502	321	pfam04502, DUF572, Family of unknown function (DUF	0.002
COG1269	660	COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase su	0.002
pfam05327	554	pfam05327, RRN3, RNA polymerase I specific transcr	0.002
pfam04194	165	pfam04194, PDCD2_C, Programmed cell death protein	0.002
pfam08208	193	pfam08208, RNA_polI_A34, DNA-directed RNA polymera	0.002
pfam05340	565	pfam05340, DUF740, Protein of unknown function (DU	0.002
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.003
pfam04050	171	pfam04050, Upf2, Up-frameshift suppressor 2	0.003
pfam08553	794	pfam08553, VID27, VID27 cytoplasmic protein	0.003
COG0576	193	COG0576, GrpE, Molecular chaperone GrpE (heat shoc	0.003
pfam02724	583	pfam02724, CDC45, CDC45-like protein	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
pfam02463	1162	pfam02463, SMC_N, RecF/RecN/SMC N terminal domain	0.003
COG4499	434	COG4499, COG4499, Predicted membrane protein [Func	0.003
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	0.003
pfam04889	241	pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle cont	0.003
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
pfam11942	92	pfam11942, Spt5_N, Spt5 transcription elongation f	0.003
pfam14265	125	pfam14265, DUF4355, Domain of unknown function (DU	0.003
pfam10446	449	pfam10446, DUF2457, Protein of unknown function (D	0.003
PTZ00438	374	PTZ00438, PTZ00438, gamete antigen 27/25-like prot	0.003
PTZ00341	1136	PTZ00341, PTZ00341, Ring-infected erythrocyte surf	0.003
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.003
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.003
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.003
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	0.003
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.003
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.003
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.003
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.003
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.003
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	0.003
pfam04111	356	pfam04111, APG6, Autophagy protein Apg6	0.003
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.003
pfam05279	240	pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylas	0.003
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	0.003
PRK05687	246	PRK05687, fliH, flagellar assembly protein H; Vali	0.003
PTZ00423	193	PTZ00423, PTZ00423, glideosome-associated protein	0.003
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.003
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.003
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.003
pfam10211	189	pfam10211, Ax_dynein_light, Axonemal dynein light	0.003
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.003
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.003
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.003
PRK14520	155	PRK14520, rpsP, 30S ribosomal protein S16; Provisi	0.003
PRK08493	819	PRK08493, PRK08493, NADH dehydrogenase subunit G;	0.003
TIGR03319	514	TIGR03319, RNase_Y, ribonuclease Y	0.003
pfam00012	598	pfam00012, HSP70, Hsp70 protein	0.003
PRK00448	1437	PRK00448, polC, DNA polymerase III PolC; Validated	0.003
pfam12757	126	pfam12757, DUF3812, Protein of unknown function (D	0.003
pfam12757	126	pfam12757, DUF3812, Protein of unknown function (D	0.003
TIGR02031	589	TIGR02031, BchD-ChlD, magnesium chelatase ATPase s	0.003
pfam00769	244	pfam00769, ERM, Ezrin/radixin/moesin family	0.003
pfam03344	715	pfam03344, Daxx, Daxx Family	0.004
pfam03344	715	pfam03344, Daxx, Daxx Family	0.004
pfam07133	164	pfam07133, Merozoite_SPAM, Merozoite surface prote	0.004
pfam04050	171	pfam04050, Upf2, Up-frameshift suppressor 2	0.004
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	0.004
COG5137	279	COG5137, COG5137, Histone chaperone involved in ge	0.004
TIGR01651	600	TIGR01651, CobT, cobaltochelatase, CobT subunit	0.004
PHA00435	306	PHA00435, PHA00435, capsid assembly protein	0.004
COG2433	652	COG2433, COG2433, Uncharacterized conserved protei	0.004
PRK13108	460	PRK13108, PRK13108, prolipoprotein diacylglyceryl	0.004
PRK13406	584	PRK13406, bchD, magnesium chelatase subunit D; Pro	0.004
pfam09073	424	pfam09073, BUD22, BUD22	0.004
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.004
COG5271	4600	COG5271, MDN1, AAA ATPase containing von Willebran	0.004
pfam14283	213	pfam14283, DUF4366, Domain of unknown function (DU	0.004
pfam06512	230	pfam06512, Na_trans_assoc, Sodium ion transport-as	0.004
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.004
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.004
pfam04615	728	pfam04615, Utp14, Utp14 protein	0.004
PRK05299	258	PRK05299, rpsB, 30S ribosomal protein S2; Provisio	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
TIGR02794	346	TIGR02794, tolA_full, TolA protein	0.004
pfam08432	182	pfam08432, DUF1742, Fungal protein of unknown func	0.004
COG2811	108	COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase su	0.004
COG5167	776	COG5167, VID27, Protein involved in vacuole import	0.004
pfam12118	261	pfam12118, SprA-related, SprA-related family	0.004
COG1614	470	COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthas	0.004
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.004
pfam10211	189	pfam10211, Ax_dynein_light, Axonemal dynein light	0.004
PRK14156	177	PRK14156, PRK14156, heat shock protein GrpE; Provi	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
pfam04281	136	pfam04281, Tom22, Mitochondrial import receptor su	0.004
COG3064	387	COG3064, TolA, Membrane protein involved in colici	0.004
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.004
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.004
PRK10811	1068	PRK10811, rne, ribonuclease E; Reviewed	0.004
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.004
PRK05657	325	PRK05657, PRK05657, RNA polymerase sigma factor Rp	0.004
TIGR03825	255	TIGR03825, FliH_bacil, flagellar assembly protein	0.004
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	0.004
pfam07222	243	pfam07222, PBP_sp32, Proacrosin binding protein sp	0.004
pfam07222	243	pfam07222, PBP_sp32, Proacrosin binding protein sp	0.004
pfam07222	243	pfam07222, PBP_sp32, Proacrosin binding protein sp	0.004
pfam05340	565	pfam05340, DUF740, Protein of unknown function (DU	0.004
pfam05395	170	pfam05395, DARPP-32, Protein phosphatase inhibitor	0.004
pfam12619	145	pfam12619, MCM2_N, Mini-chromosome maintenance pro	0.004
pfam06246	253	pfam06246, Isy1, Isy1-like splicing family	0.004
PTZ00254	249	PTZ00254, PTZ00254, 40S ribosomal protein SA; Prov	0.004
PHA02644	112	PHA02644, PHA02644, hypothetical protein; Provisio	0.004
PRK14715	1627	PRK14715, PRK14715, DNA polymerase II large subuni	0.004

>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family

 Score =  235 bits (602), Expect = 9e-73
 Identities = 88/192 (45%), Positives = 117/192 (60%), Gaps = 21/192 (10%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSP-----HSLPSVKLKAHTYELQENNVKLK-------- 160
           E+GLGKST +++LF T    +  P     H   +V++K    EL+EN VKLK        
Sbjct: 12  ESGLGKSTFINTLFGTKLYPSKYPPAPGEHITKTVEIKISKAELEENGVKLKLTVIDTPG 71

Query: 161 -------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKS 213
                   D +K IVDYID+QFE+YL+EE +I R+     D R+H CLYFI PTGHGLK 
Sbjct: 72  FGDNINNSDCWKPIVDYIDDQFESYLREESRINRNRR-IPDTRVHCCLYFIPPTGHGLKP 130

Query: 214 LDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSD 273
           LD+  MKKL  KVNIIP+IAKADT++  EL +FK  IM ++  N + IY+FP D+E   +
Sbjct: 131 LDIEFMKKLSKKVNIIPVIAKADTLTPEELTEFKKRIMEDIEENNIKIYKFPEDEEDEEE 190

Query: 274 VNAAMTIFSSIP 285
           +     + S IP
Sbjct: 191 IEENKKLKSLIP 202

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. Length = 275

>gnl|CDD|201420 pfam00735, Septin, Septin

 Score =  183 bits (467), Expect = 4e-53
 Identities = 83/193 (43%), Positives = 115/193 (59%), Gaps = 23/193 (11%)

Query: 114 ETGLGKSTLMDSLFNTSF-----ESTPSPHSLPSVKLKAHTYELQENNVKLK-------- 160
           E+GLGK+TL+++LF T          PS     +V++KA T E++E+ VKL         
Sbjct: 12  ESGLGKTTLINTLFLTDLIPERGIPGPSEKIKKTVEIKATTVEIEEDGVKLNLTVIDTPG 71

Query: 161 -------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKS 213
                   + +K IV+YID QFE YL++E ++ R+  +  DNR+H CLYFI PTGHGLK 
Sbjct: 72  FGDAIDNSNCWKPIVEYIDEQFEQYLRDESRLNRT--SIVDNRVHCCLYFISPTGHGLKP 129

Query: 214 LDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDE-TMS 272
           LD+  MKKL  KVNIIP+IAKADT++  ELQ+FK  I  E+    + IY FP ++     
Sbjct: 130 LDVEFMKKLHEKVNIIPVIAKADTLTPDELQRFKKRIRAEIERQNIKIYHFPDEESDEDE 189

Query: 273 DVNAAMTIFSSIP 285
           +      + SSIP
Sbjct: 190 EKEQTEQLKSSIP 202

Members of this family include CDC3, CDC10, CDC11 and CDC12/Septin. Members of this family bind GTP. As regards the septins, these are polypeptides of 30-65kDa with three characteristic GTPase motifs (G-1, G-3 and G-4) that are similar to those of the Ras family. The G-4 motif is strictly conserved with a unique septin consensus of AKAD. Most septins are thought to have at least one coiled-coil region, which in some cases is necessary for intermolecular interactions that allow septins to polymerise to form rod-shaped complexes. In turn, these are arranged into tandem arrays to form filaments. They are multifunctional proteins, with roles in cytokinesis, sporulation, germ cell development, exocytosis and apoptosis. Length = 280

>gnl|CDD|227352 COG5019, CDC3, Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

 Score =  163 bits (414), Expect = 1e-44
 Identities = 101/337 (29%), Positives = 160/337 (47%), Gaps = 36/337 (10%)

Query: 114 ETGLGKSTLMDSLFNTSFESTPSP------HSLPSVKLKAHTYELQENNVKLK------- 160
           E+GLGK+T +++LF TS              + P++++K    EL+E+   L        
Sbjct: 31  ESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTP 90

Query: 161 --------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLK 212
                      ++ IVDYID+QF+ YL EE KIKR+   + D R+H CLYFI PTGHGLK
Sbjct: 91  GFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRN-PKFKDTRVHACLYFIRPTGHGLK 149

Query: 213 SLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIY-EFPTDDETM 271
            LD+  MK+L  +VN+IP+IAKADT++  EL +FK  I  +L    + ++  +  +D+  
Sbjct: 150 PLDIEAMKRLSKRVNLIPVIAKADTLTDDELAEFKERIREDLEQYNIPVFDPYDPEDDED 209

Query: 272 SDVNAAMTIFSS-----IPCDRSLIHTIFPPCLRST-----SPSSPPH--FHSL-NILAM 318
             +     + S      I  +  + +       R             H  F  L N+L  
Sbjct: 210 ESLEENQDLRSLIPFAIIGSNTEIENGGEQVRGRKYPWGVVEIDDEEHSDFKKLRNLLIR 269

Query: 319 QKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 378
             +     T +  LY  +  +  +GL+   E   +E  E    EEE E +++  E+  E+
Sbjct: 270 THLQELKETTENLLYENYRTEKLSGLKNSGEPSLKEIHEARLNEEERELKKKFTEKIREK 329

Query: 379 EEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREM 415
           E+  EE E+   EE +E   K  E +   + ++ R  
Sbjct: 330 EKRLEELEQNLIEERKELNSKLEEIQKKLEDLEKRLE 366

Length = 373

>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family

 Score = 77.6 bits (192), Expect = 8e-16
 Identities = 27/44 (61%), Positives = 36/44 (81%)

Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
           E+ENE HCDFVKLR +LIRT+++D++E TH  HYE YR ++LE 
Sbjct: 230 EVENEEHCDFVKLRNLLIRTHLQDLKETTHNVHYENYRSEKLEA 273

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. Length = 275

>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family

 Score = 70.3 bits (173), Expect = 3e-13
 Identities = 24/37 (64%), Positives = 29/37 (78%)

Query: 604 LKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           LK LD+  MKKL  KVNIIP+IAKADT++  EL +FK
Sbjct: 128 LKPLDIEFMKKLSKKVNIIPVIAKADTLTPEELTEFK 164

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. Length = 275

>gnl|CDD|201420 pfam00735, Septin, Septin

 Score = 69.2 bits (170), Expect = 6e-13
 Identities = 25/51 (49%), Positives = 35/51 (68%)

Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGS 450
           E+EN  HCDF+KLR MLIRT+++D++E TH  HYE YR ++L        +
Sbjct: 230 EVENPSHCDFLKLRNMLIRTHLQDLKEVTHELHYENYRSEKLSALGRKAEN 280

Members of this family include CDC3, CDC10, CDC11 and CDC12/Septin. Members of this family bind GTP. As regards the septins, these are polypeptides of 30-65kDa with three characteristic GTPase motifs (G-1, G-3 and G-4) that are similar to those of the Ras family. The G-4 motif is strictly conserved with a unique septin consensus of AKAD. Most septins are thought to have at least one coiled-coil region, which in some cases is necessary for intermolecular interactions that allow septins to polymerise to form rod-shaped complexes. In turn, these are arranged into tandem arrays to form filaments. They are multifunctional proteins, with roles in cytokinesis, sporulation, germ cell development, exocytosis and apoptosis. Length = 280

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 70.8 bits (174), Expect = 1e-12
 Identities = 28/60 (46%), Positives = 51/60 (85%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G E+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EEEEEE++ +
Sbjct: 319 GEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEK 378

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 70.8 bits (173), Expect = 1e-12
 Identities = 33/58 (56%), Positives = 41/58 (70%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E + E +++E+  +     +  + EEEEEEEEEEEEEEEEEEEEEEEEEE EE   LE
Sbjct: 840 ENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLE 897

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 70.4 bits (173), Expect = 2e-12
 Identities = 29/64 (45%), Positives = 51/64 (79%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           D  +  G  EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EE
Sbjct: 311 DDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEE 370

Query: 397 EEKE 400
           EE+E
Sbjct: 371 EEEE 374

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 68.9 bits (169), Expect = 4e-12
 Identities = 29/59 (49%), Positives = 50/59 (84%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EEEEE+E E 
Sbjct: 320 EEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEK 378

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 69.3 bits (169), Expect = 4e-12
 Identities = 33/61 (54%), Positives = 42/61 (68%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L  E + E +++E+  +     +  + EEEEEEEEEEEEEEEEEEEEEEEEEE E+ L  
Sbjct: 837 LNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSL 896

Query: 404 E 404
           E
Sbjct: 897 E 897

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 67.3 bits (165), Expect = 1e-11
 Identities = 27/61 (44%), Positives = 51/61 (83%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EEEEEEE+E+K+ ++ 
Sbjct: 325 EEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSA 384

Query: 405 G 405
            
Sbjct: 385 E 385

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 67.3 bits (164), Expect = 1e-11
 Identities = 31/55 (56%), Positives = 39/55 (70%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           N   + E +++E+  +     +  + EEEEEEEEEEEEEEEEEEEEEEEEEE EE
Sbjct: 838 NAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 67.3 bits (165), Expect = 2e-11
 Identities = 28/62 (45%), Positives = 50/62 (80%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EEE+E E E
Sbjct: 318 QGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKE 377

Query: 405 GH 406
             
Sbjct: 378 KK 379

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 66.9 bits (163), Expect = 2e-11
 Identities = 32/65 (49%), Positives = 45/65 (69%), Gaps = 3/65 (4%)

Query: 343 GLEEEEEEEE---EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            +++E  E+E   E + E +++E+  +     +  + EEEEEEEEEEEEEEEEEEEEEE+
Sbjct: 827 EVKDETGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEE 886

Query: 400 ELENE 404
           E ENE
Sbjct: 887 EEENE 891

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 65.0 bits (158), Expect = 8e-11
 Identities = 31/63 (49%), Positives = 38/63 (60%)

Query: 338 CKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            +     +  +     +  + EEEEEEEEEEEEEEEEEEEEEEEEEE EE    E  E  
Sbjct: 843 GEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEPLSLEWPETR 902

Query: 398 EKE 400
           +K+
Sbjct: 903 QKQ 905

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|227352 COG5019, CDC3, Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

 Score = 63.5 bits (155), Expect = 1e-10
 Identities = 28/95 (29%), Positives = 47/95 (49%), Gaps = 22/95 (23%)

Query: 374 EEEEEEEEEEEEEE-------------EEEEEEEEEEEK---------ELENEGHCDFVK 411
           + E++E+E  EE +               E E   E+ +         E+++E H DF K
Sbjct: 203 DPEDDEDESLEENQDLRSLIPFAIIGSNTEIENGGEQVRGRKYPWGVVEIDDEEHSDFKK 262

Query: 412 LREMLIRTNMEDMREKTHCRHYELYRKKRLEEESN 446
           LR +LIRT++++++E T    YE YR ++L    N
Sbjct: 263 LRNLLIRTHLQELKETTENLLYENYRTEKLSGLKN 297

Length = 373

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 64.6 bits (158), Expect = 1e-10
 Identities = 25/63 (39%), Positives = 48/63 (76%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +     + EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E+++E 
Sbjct: 312 DNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEE 371

Query: 402 ENE 404
           E E
Sbjct: 372 EEE 374

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 63.7 bits (155), Expect = 1e-10
 Identities = 24/56 (42%), Positives = 32/56 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EEEE  + E EE  E E+ E  EE+    E     E+E E+E+E EE + EEEE+ 
Sbjct: 393 EEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEA 448

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 63.7 bits (155), Expect = 1e-10
 Identities = 24/56 (42%), Positives = 31/56 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EEE  + E EE  E E+ E  EE+    E     E+E E+E+E EE + EEEEE  
Sbjct: 394 EEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEAR 449

Length = 449

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 64.2 bits (156), Expect = 1e-10
 Identities = 38/56 (67%), Positives = 43/56 (76%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +E EEEE  EEEEEEEEEEEEEE+E EEEE E+EEEEEE E +   EEE E  +EG
Sbjct: 437 QESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSEG 492

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|201420 pfam00735, Septin, Septin

 Score = 61.9 bits (151), Expect = 2e-10
 Identities = 25/37 (67%), Positives = 30/37 (81%)

Query: 604 LKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           LK LD+  MKKL  KVNIIP+IAKADT++  ELQ+FK
Sbjct: 127 LKPLDVEFMKKLHEKVNIIPVIAKADTLTPDELQRFK 163

Members of this family include CDC3, CDC10, CDC11 and CDC12/Septin. Members of this family bind GTP. As regards the septins, these are polypeptides of 30-65kDa with three characteristic GTPase motifs (G-1, G-3 and G-4) that are similar to those of the Ras family. The G-4 motif is strictly conserved with a unique septin consensus of AKAD. Most septins are thought to have at least one coiled-coil region, which in some cases is necessary for intermolecular interactions that allow septins to polymerise to form rod-shaped complexes. In turn, these are arranged into tandem arrays to form filaments. They are multifunctional proteins, with roles in cytokinesis, sporulation, germ cell development, exocytosis and apoptosis. Length = 280

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 63.5 bits (155), Expect = 2e-10
 Identities = 24/59 (40%), Positives = 44/59 (74%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
             + EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E + E E  
Sbjct: 316 LGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEE 374

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 62.9 bits (153), Expect = 2e-10
 Identities = 23/64 (35%), Positives = 32/64 (50%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
              L  + EEEE  + E EE  E E+ E  EE+    E     E+E E+E+E EE + +E
Sbjct: 385 VAELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEE 444

Query: 401 LENE 404
            E  
Sbjct: 445 EEEA 448

Length = 449

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 62.9 bits (153), Expect = 2e-10
 Identities = 24/57 (42%), Positives = 32/57 (56%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EEEE  + E EE  E E+ E  EE+    E     E+E E+E+E EE + EEE+E  
Sbjct: 393 EEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEAR 449

Length = 449

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 63.8 bits (155), Expect = 2e-10
 Identities = 38/58 (65%), Positives = 43/58 (74%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +E EEEE  EEEEEEEEEEEEEE+E EEEE E+EEEEEE E +   EEE E   E +G
Sbjct: 437 QESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSEGDG 494

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 63.4 bits (154), Expect = 2e-10
 Identities = 39/88 (44%), Positives = 48/88 (54%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
               E EEEE  EEEEEEEEEEEEEE+E EEEE E+EEEEEE E +   EEE E   E +
Sbjct: 434 MASQESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSEGD 493

Query: 401 LENEGHCDFVKLREMLIRTNMEDMREKT 428
            + E   +  + R   +         + 
Sbjct: 494 GDGEEPEEDAERRNSEMAGISRMSEGQQ 521

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 63.4 bits (154), Expect = 2e-10
 Identities = 36/84 (42%), Positives = 49/84 (58%)

Query: 332 LYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
             +  + +    +EEEEEEEEEEEEEE+E EEEE E+EEEEEE E +   EEE E   E 
Sbjct: 433 SMASQESEEEESVEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSEG 492

Query: 392 EEEEEEEKELENEGHCDFVKLREM 415
           + + EE +E     + +   +  M
Sbjct: 493 DGDGEEPEEDAERRNSEMAGISRM 516

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional

 Score = 60.9 bits (148), Expect = 2e-10
 Identities = 38/107 (35%), Positives = 61/107 (57%), Gaps = 17/107 (15%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE---EEEEKE 400
           +EE+  +E E +EE++ +EE+ E EE E+EE  E+ EE  E + EE ++E    +EE K+
Sbjct: 13  MEEDCCKENENKEEDKGKEEDLEFEEIEKEEIIEDSEESNEVKIEELKDENNKLKEENKK 72

Query: 401 LENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV 447
           LENE       L++ L+RT  E          Y+ YRK+  +E+  +
Sbjct: 73  LENE----LEALKDRLLRTVAE----------YDNYRKRTAKEKEGI 105

Length = 211

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 60.9 bits (148), Expect = 2e-10
 Identities = 25/58 (43%), Positives = 45/58 (77%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           GL  EEEE+ +E+    E++ +E E E+ +EE+E++EEEEEEEEEE+E+ ++++++ +
Sbjct: 140 GLFTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDD 197

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 63.0 bits (154), Expect = 2e-10
 Identities = 30/57 (52%), Positives = 50/57 (87%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +E+ E++ EEE++E++++    +++EEEEEEE+E++EEE+EEEEEE EEE+EEEE++
Sbjct: 416 VEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEK 472

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 63.0 bits (154), Expect = 2e-10
 Identities = 31/56 (55%), Positives = 50/56 (89%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E++ EEE++E++++    +++EEEEEEE+E++EEE+EEEEEE EEE+EEEEE++K+
Sbjct: 420 EKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKK 475

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 62.6 bits (153), Expect = 3e-10
 Identities = 31/55 (56%), Positives = 48/55 (87%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            E++ EEE++E++++    +++EEEEEEE+E++EEE+EEEEEE EEE+EEEEE+K
Sbjct: 419 AEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKK 473

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 62.6 bits (153), Expect = 3e-10
 Identities = 31/57 (54%), Positives = 49/57 (85%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            + E++ EEE++E++++    +++EEEEEEE+E++EEE+EEEEEE EEE+EEEEEK+
Sbjct: 417 EKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKK 473

Length = 482

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 62.4 bits (152), Expect = 3e-10
 Identities = 38/90 (42%), Positives = 45/90 (50%), Gaps = 32/90 (35%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEE--------------------------------EE 371
           LEEEEEEEEEEE  E +E EE  + E                                E+
Sbjct: 287 LEEEEEEEEEEEPAERDELEENPDFEGLEVRELADSLDNWVHHVQHILPQGRCTWVNPEQ 346

Query: 372 EEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           ++EEEE+E+EEEEEEEEE EE E EE   L
Sbjct: 347 KDEEEEQEDEEEEEEEEEPEEPEPEEGPPL 376

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 62.1 bits (151), Expect = 4e-10
 Identities = 23/61 (37%), Positives = 31/61 (50%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E   + EEEE  + E EE  E E+ E  EE+    E     E+E E+E+E EE +  E E
Sbjct: 387 ELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEE 446

Query: 405 G 405
            
Sbjct: 447 E 447

Length = 449

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 62.2 bits (152), Expect = 4e-10
 Identities = 29/61 (47%), Positives = 48/61 (78%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
             E+ E++ EEE++E++++    +++EEEEEEE+E++EEE+EEEEEE EEE+E+E E + 
Sbjct: 415 IVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKK 474

Query: 406 H 406
            
Sbjct: 475 K 475

Length = 482

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 61.9 bits (151), Expect = 4e-10
 Identities = 28/63 (44%), Positives = 50/63 (79%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             +++  E+ E++ EEE++E++++    +++EEEEEEE+E++EEE+EEEEEE EEE++E 
Sbjct: 410 KKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEE 469

Query: 402 ENE 404
           E +
Sbjct: 470 EEK 472

Length = 482

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 62.7 bits (152), Expect = 5e-10
 Identities = 31/45 (68%), Positives = 34/45 (75%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
           D K  +G    +  + EEEEEEEEEEEEEEEEEEEEEEEEEE EE
Sbjct: 848 DEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 59.8 bits (145), Expect = 5e-10
 Identities = 24/63 (38%), Positives = 47/63 (74%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           F   EE+ +E+    E++ +E E E+ +EE+E++EEEEEEEEEE+E+ ++++++++++  
Sbjct: 142 FTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDDDYN 201

Query: 401 LEN 403
            EN
Sbjct: 202 AEN 204

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 58.3 bits (141), Expect = 5e-10
 Identities = 30/57 (52%), Positives = 46/57 (80%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E++E++EEEEEE+EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ EK+  N+
Sbjct: 45  DEKQEDDEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNIND 101

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 60.8 bits (148), Expect = 9e-10
 Identities = 37/89 (41%), Positives = 45/89 (50%), Gaps = 31/89 (34%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEE------------------------------ 372
           GL + EEEEEEEEEEE  E +E EE  + E                              
Sbjct: 283 GLYQLEEEEEEEEEEEPAERDELEENPDFEGLEVRELADSLDNWVHHVQHILPQGRCTWV 342

Query: 373 -EEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             E+++EEEE+E+EEEEEEEEE EE E E
Sbjct: 343 NPEQKDEEEEQEDEEEEEEEEEPEEPEPE 371

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 60.8 bits (148), Expect = 1e-09
 Identities = 24/61 (39%), Positives = 48/61 (78%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EEEEEEE+E+++++  E    
Sbjct: 330 VDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRS 389

Query: 405 G 405
            
Sbjct: 390 E 390

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 60.2 bits (146), Expect = 1e-09
 Identities = 23/66 (34%), Positives = 32/66 (48%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +Y    E+ +  E   + EEEE  + E EE  E E+ E  EE+    E     E+E E+E
Sbjct: 375 EYDQEAEDAKVAELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDE 434

Query: 399 KELENE 404
            ELE  
Sbjct: 435 DELEEA 440

Length = 449

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 57.2 bits (138), Expect = 1e-09
 Identities = 31/60 (51%), Positives = 49/60 (81%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E E+ ++E++E++EEEEEE+EEE EE E+ E+EEE  E+EEEEEE+EE+  + K++E +
Sbjct: 38  KENEDVKDEKQEDDEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKK 97

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 60.5 bits (147), Expect = 1e-09
 Identities = 20/61 (32%), Positives = 32/61 (52%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + E +  +    
Sbjct: 367 FEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKESAS 426

Query: 405 G 405
            
Sbjct: 427 D 427

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 60.5 bits (147), Expect = 1e-09
 Identities = 22/58 (37%), Positives = 34/58 (58%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + E + +KE
Sbjct: 366 DFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKE 423

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 57.7 bits (140), Expect = 1e-09
 Identities = 26/52 (50%), Positives = 33/52 (63%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE+ E+ EEE EE E EE  E+E EEE  EEE E E  +EE+ +  ELE +
Sbjct: 1   MEEKNEQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAK 52

Length = 191

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 57.7 bits (140), Expect = 1e-09
 Identities = 28/58 (48%), Positives = 35/58 (60%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            EE+ E+ EEE EE E EE  E+E EEE  EEE E E  +EE+ +  E E +  ELE 
Sbjct: 1   MEEKNEQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAKLDELEE 58

Length = 191

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 60.8 bits (148), Expect = 2e-09
 Identities = 23/66 (34%), Positives = 48/66 (72%), Gaps = 2/66 (3%)

Query: 342 NGLEEEEEEE--EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +  E ++++     + EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ 
Sbjct: 304 DEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDS 363

Query: 400 ELENEG 405
           + E++ 
Sbjct: 364 DDEDDE 369

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 60.8 bits (148), Expect = 2e-09
 Identities = 25/62 (40%), Positives = 52/62 (83%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G+++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EEEEEEE+E+++++  +   
Sbjct: 329 GVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTR 388

Query: 403 NE 404
           +E
Sbjct: 389 SE 390

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 60.4 bits (147), Expect = 2e-09
 Identities = 23/56 (41%), Positives = 47/56 (83%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
              ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ ++E++EEEEEEE+E+++++ 
Sbjct: 328 DGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKS 383

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 59.9 bits (146), Expect = 2e-09
 Identities = 30/58 (51%), Positives = 49/58 (84%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             EEE++E++++    +++EEEEEEE+E++EEE+EEEEEE EEE+EEEEE+++++  L
Sbjct: 422 KREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKKKKQATL 479

Length = 482

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 27/56 (48%), Positives = 35/56 (62%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EE+ E+ EEE EE E EE  E+E EEE  EEE E E  +EE+ +  E E + +E E
Sbjct: 2   EEKNEQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAKLDELE 57

Length = 191

>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2

 Score = 57.0 bits (138), Expect = 2e-09
 Identities = 25/62 (40%), Positives = 40/62 (64%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G E+EE  EE+E++E  +EEE +  ++E++EE + EEE+     +EEE + E E E + E
Sbjct: 10  GEEDEELPEEDEDDESSDEEEVDLPDDEQDEESDSEEEQIFVTRQEEEVDPEAEAEFDRE 69

Query: 403 NE 404
            E
Sbjct: 70  FE 71

Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay. Length = 171

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 59.3 bits (144), Expect = 2e-09
 Identities = 23/62 (37%), Positives = 43/62 (69%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LE+ +EEE +++E E+  E +++++EEEE E EE+E+ ++E E  + E ++E E  + E+
Sbjct: 75  LEKWKEEERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSED 134

Query: 404 EG 405
           E 
Sbjct: 135 EE 136

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 58.9 bits (143), Expect = 2e-09
 Identities = 22/63 (34%), Positives = 44/63 (69%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            GLE +++++EEEE E EE+E+ ++E E  + E ++E E  + E+EEE++E  ++ +++ 
Sbjct: 90  QGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKKAKEDS 149

Query: 402 ENE 404
           + E
Sbjct: 150 DEE 152

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 58.9 bits (143), Expect = 2e-09
 Identities = 21/56 (37%), Positives = 39/56 (69%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E+  E +++++EEEE E EE+E+ ++E E  + E ++E E  + E+EEE++E  K+
Sbjct: 89  EQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKK 144

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 57.0 bits (138), Expect = 2e-09
 Identities = 29/60 (48%), Positives = 43/60 (71%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++ E EEEE EE ++ EE+ E E +EEEE EEE E+++EEEE +E EE+  +E++E E  
Sbjct: 19  QQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKEREEQARKEQEEYEKL 78

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 60.0 bits (146), Expect = 3e-09
 Identities = 23/65 (35%), Positives = 45/65 (69%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +    ++     + EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE+EE+E+ + 
Sbjct: 306 FEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDD 365

Query: 400 ELENE 404
           E + E
Sbjct: 366 EDDEE 370

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 59.4 bits (144), Expect = 3e-09
 Identities = 22/52 (42%), Positives = 29/52 (55%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           L+ E EE  E E+ E  EE+    E     E+E E+E+E EE + EEEEE  
Sbjct: 398 LQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEAR 449

Length = 449

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 56.4 bits (136), Expect = 3e-09
 Identities = 29/60 (48%), Positives = 46/60 (76%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E++E++EEEEEE+EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++   ++ N 
Sbjct: 46  EKQEDDEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNINDIFNS 105

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 59.4 bits (144), Expect = 3e-09
 Identities = 21/73 (28%), Positives = 37/73 (50%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           +     +  D   F  ++E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +  
Sbjct: 354 MRDKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVG 413

Query: 388 EEEEEEEEEEEKE 400
            + E + ++E   
Sbjct: 414 SDSESKADKESAS 426

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 56.9 bits (138), Expect = 3e-09
 Identities = 27/57 (47%), Positives = 35/57 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            E+ EEE EE E EE  E+E EEE  EEE E E  +EE+ +  E E + +E EE+ L
Sbjct: 5   NEQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAKLDELEERYL 61

Length = 191

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 58.9 bits (143), Expect = 3e-09
 Identities = 29/77 (37%), Positives = 45/77 (58%), Gaps = 5/77 (6%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
              + E ++E E  + E+EEE++E  ++ +E+ +EE  EE+EEE  EEEE E E+EK  E
Sbjct: 117 EWIDVESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAEAEKEKASE 176

Query: 403 NEGH-----CDFVKLRE 414
                     DF K++E
Sbjct: 177 LATTRILTPADFAKIQE 193

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 58.5 bits (142), Expect = 3e-09
 Identities = 21/58 (36%), Positives = 39/58 (67%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E E+  E +++++EEEE E EE+E+ ++E E  + E ++E E  + E+EEE++E   +
Sbjct: 87  EAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKK 144

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 58.5 bits (142), Expect = 3e-09
 Identities = 21/63 (33%), Positives = 40/63 (63%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
              ++E E+  E +++++EEEE E EE+E+ ++E E  + E ++E E  + E+EEE+ E 
Sbjct: 82  ERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEEEKDEA 141

Query: 402 ENE 404
             +
Sbjct: 142 AKK 144

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 57.4 bits (139), Expect = 3e-09
 Identities = 33/64 (51%), Positives = 45/64 (70%), Gaps = 3/64 (4%)

Query: 344 LEEEEEEEEEEEEE---EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           LEEE EE+E        EEEE++EE E EEEEEEEE + + ++ E++E E ++EEE EKE
Sbjct: 18  LEEELEEDEFFWTYLLFEEEEDDEEFEIEEEEEEEEVDSDFDDSEDDEPESDDEEEGEKE 77

Query: 401 LENE 404
           L+ E
Sbjct: 78  LQRE 81

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 58.1 bits (141), Expect = 4e-09
 Identities = 23/60 (38%), Positives = 40/60 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE+E+ ++E E  + E ++E E  + E+EEE++E  ++ +E+ +EE  EE+EEE   E E
Sbjct: 107 EEDEDSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEE 166

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 59.2 bits (143), Expect = 5e-09
 Identities = 27/62 (43%), Positives = 39/62 (62%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
             E ++E  E+E   E + E +++E+  +     +  + EEEEEEEEEEEEEEEEE+E E
Sbjct: 825 DTEVKDETGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEEE 884

Query: 403 NE 404
            E
Sbjct: 885 EE 886

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 55.2 bits (133), Expect = 5e-09
 Identities = 28/58 (48%), Positives = 45/58 (77%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +E++E++EEEEEE+EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++   + 
Sbjct: 45  DEKQEDDEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNINDI 102

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 55.2 bits (133), Expect = 5e-09
 Identities = 28/54 (51%), Positives = 44/54 (81%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            +E++E++EEEEEE+EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++
Sbjct: 44  KDEKQEDDEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKK 97

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 58.6 bits (142), Expect = 5e-09
 Identities = 21/59 (35%), Positives = 33/59 (55%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + E K  +  
Sbjct: 366 DFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKES 424

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 58.2 bits (141), Expect = 5e-09
 Identities = 19/60 (31%), Positives = 34/60 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + E + +++   + 
Sbjct: 369 EVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKESASDS 428

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 56.3 bits (136), Expect = 6e-09
 Identities = 23/57 (40%), Positives = 42/57 (73%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
             EEEE+ +E+    E++ +E E E+ +EE+E++EEEEEEEEEE+E+ ++ + +++ 
Sbjct: 142 FTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDD 198

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 57.7 bits (140), Expect = 6e-09
 Identities = 19/61 (31%), Positives = 41/61 (67%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             E +++++EEEE E EE+E+ ++E E  + E ++E E  + E+EEE++E  ++ + +++
Sbjct: 91  GLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKKAKEDSD 150

Query: 405 G 405
            
Sbjct: 151 E 151

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 55.9 bits (135), Expect = 6e-09
 Identities = 35/91 (38%), Positives = 56/91 (61%), Gaps = 14/91 (15%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE----------EEEEEEEEE 393
           LEE+ E E +EEEE EEE E+++EEEE +E EE+  +E+EE          EEE  ++  
Sbjct: 34  LEEKREGERKEEEELEEEREKKKEEEERKEREEQARKEQEEYEKLKSSFVVEEEGTDKLS 93

Query: 394 EEEEEKELENEGHCDFVKLREMLIRTNMEDM 424
            +EE  EL  E   +++KL+++    N+E++
Sbjct: 94  ADEESNEL-LEDFINYIKLKKV---VNLEEL 120

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 56.3 bits (136), Expect = 6e-09
 Identities = 28/59 (47%), Positives = 42/59 (71%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +EEE+E    E++E++ + E+E+EE EEE EEE+EE  +E E+E EE+ E   EKE+ N
Sbjct: 66  KEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEESSDENEKETEEKTESNVEKEITN 124

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 58.0 bits (141), Expect = 7e-09
 Identities = 25/66 (37%), Positives = 50/66 (75%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           ++  G ++  ++ ++  E+ E++ EEE++E++++    +++EEEEEEE+E++EEE+EEEE
Sbjct: 400 EFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEE 459

Query: 399 KELENE 404
           +E E E
Sbjct: 460 EEAEEE 465

Length = 482

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 57.8 bits (140), Expect = 7e-09
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+  + EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + +   +
Sbjct: 362 LDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKAD 421

Query: 404 EG 405
           + 
Sbjct: 422 KE 423

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 57.4 bits (139), Expect = 7e-09
 Identities = 21/59 (35%), Positives = 40/59 (67%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
              +++E E+  E +++++EEEE E EE+E+ ++E E  + E ++E E  + E+EEEK+
Sbjct: 81  EERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEEEKD 139

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 57.9 bits (140), Expect = 8e-09
 Identities = 21/59 (35%), Positives = 30/59 (50%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            E   + EEEE  + E EE  E E+ E  EE+    E     E+E E+E+E +E + E 
Sbjct: 386 AELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEFEDEDELEEAQPEE 444

Length = 449

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 55.4 bits (134), Expect = 8e-09
 Identities = 28/57 (49%), Positives = 34/57 (59%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE+ E+ EEE EE E EE  E+E EEE  EEE E E  +EE+ +  E E K  E E
Sbjct: 1   MEEKNEQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAKLDELE 57

Length = 191

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 58.1 bits (141), Expect = 1e-08
 Identities = 22/61 (36%), Positives = 44/61 (72%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L++E E ++++     + EE+EEEEE+  ++E+EE+++++ EEEEE+ +  +EEE E + 
Sbjct: 302 LDDEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEEEEEDVDLSDEEEDEEDE 361

Query: 404 E 404
           +
Sbjct: 362 D 362

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 57.7 bits (140), Expect = 1e-08
 Identities = 27/83 (32%), Positives = 48/83 (57%), Gaps = 15/83 (18%)

Query: 342 NGLEEEEEEEEEEEEEEE---------------EEEEEEEEEEEEEEEEEEEEEEEEEEE 386
            G EE++EEEE+ +E  +                 + EE+EEEEE+  ++E+EE+++++ 
Sbjct: 283 RGEEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDL 342

Query: 387 EEEEEEEEEEEEKELENEGHCDF 409
           EEEEE+ +  +E+E E +   D 
Sbjct: 343 EEEEEDVDLSDEEEDEEDEDSDD 365

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 57.1 bits (138), Expect = 1e-08
 Identities = 19/61 (31%), Positives = 35/61 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + E + ++E   +++
Sbjct: 370 VDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKESASDSD 429

Query: 405 G 405
            
Sbjct: 430 S 430

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 56.6 bits (137), Expect = 1e-08
 Identities = 23/60 (38%), Positives = 40/60 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + ++E E  + E ++E E  + E+EEE++E  ++ +E+ +EE  EE+EEE  EE+E E E
Sbjct: 111 DSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAEAE 170

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 55.1 bits (133), Expect = 1e-08
 Identities = 29/56 (51%), Positives = 41/56 (73%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EEE EE ++ EE+ E E +EEEE EEE E+++EEEE +E EE+  +E+EE E+ K 
Sbjct: 25  EEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKEREEQARKEQEEYEKLKS 80

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 54.7 bits (132), Expect = 1e-08
 Identities = 31/74 (41%), Positives = 49/74 (66%), Gaps = 1/74 (1%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LEE++   ++ E EEEE EE ++ EE+ E E +EEEE EEE E+++EEEE +E E++   
Sbjct: 11  LEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKEREEQARK 70

Query: 404 EGHCDFVKLREMLI 417
           E   ++ KL+   +
Sbjct: 71  E-QEEYEKLKSSFV 83

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 53.8 bits (129), Expect = 1e-08
 Identities = 22/56 (39%), Positives = 35/56 (62%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E E  + +E+ +E  E +  +E +EEEE +E  +E  +E + E EE +EEE+EE E
Sbjct: 75  EAEAADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAE 130

Length = 131

>gnl|CDD|227352 COG5019, CDC3, Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

 Score = 56.2 bits (136), Expect = 2e-08
 Identities = 22/42 (52%), Positives = 30/42 (71%)

Query: 599 PLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           P    LK LD+  MK+L  +VN+IP+IAKADT++  EL +FK
Sbjct: 143 PTGHGLKPLDIEAMKRLSKRVNLIPVIAKADTLTDDELAEFK 184

Length = 373

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 54.8 bits (132), Expect = 2e-08
 Identities = 21/58 (36%), Positives = 43/58 (74%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           E+    E++ +E E E+ +EE+E++EEEEEEEEEE+E+ ++++++++++   E   +N
Sbjct: 151 EKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDDDYNAENYFDN 208

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 56.7 bits (137), Expect = 2e-08
 Identities = 19/65 (29%), Positives = 31/65 (47%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +      +  + EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +    
Sbjct: 356 DKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSD 415

Query: 402 ENEGH 406
                
Sbjct: 416 SESKA 420

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 56.2 bits (136), Expect = 2e-08
 Identities = 21/66 (31%), Positives = 42/66 (63%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           K+     +++E E+  E +++++EEEE E EE+E+ ++E E  + E ++E E  + E+EE
Sbjct: 77  KWKEEERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESSDSEDEE 136

Query: 399 KELENE 404
           ++ E  
Sbjct: 137 EKDEAA 142

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 54.7 bits (132), Expect = 2e-08
 Identities = 28/58 (48%), Positives = 40/58 (68%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E EE +EEE+E    E++E++ + E+E+EE EEE EEE+EE  +E E+E EEK   N 
Sbjct: 61  EIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEESSDENEKETEEKTESNV 118

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 53.0 bits (127), Expect = 2e-08
 Identities = 22/57 (38%), Positives = 36/57 (63%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EE E  + +E+ +E  E +  +E +EEEE +E  +E  +E + E EE +EEE++E E
Sbjct: 74  EEAEAADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAE 130

Length = 131

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 52.6 bits (126), Expect = 2e-08
 Identities = 22/60 (36%), Positives = 36/60 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  EE E  + +E+ +E  E +  +E +EEEE +E  +E  +E + E EE +EE++ E E
Sbjct: 71  EAAEEAEAADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAE 130

Length = 131

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 56.1 bits (136), Expect = 3e-08
 Identities = 30/76 (39%), Positives = 48/76 (63%), Gaps = 14/76 (18%)

Query: 343 GLEEEEEE--------------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
            L EEE E                E+ E++ EEE++E++++    +++EEEEEEE+E++E
Sbjct: 393 ELTEEEIEFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKE 452

Query: 389 EEEEEEEEEEKELENE 404
           EE+EEEEEE +E + E
Sbjct: 453 EEKEEEEEEAEEEKEE 468

Length = 482

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 55.9 bits (135), Expect = 3e-08
 Identities = 20/60 (33%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + E + ++E   + ++E
Sbjct: 372 EDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKESASDSDSE 431

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 53.8 bits (130), Expect = 3e-08
 Identities = 29/74 (39%), Positives = 43/74 (58%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLRE 414
            EE+ E+ EEE EE E EE  E+E EEE  EEE E E  +EE+ K  E E   D ++ R 
Sbjct: 1   MEEKNEQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAKLDELEERY 60

Query: 415 MLIRTNMEDMREKT 428
           + ++ + E+ + + 
Sbjct: 61  LRLQADFENYKRRI 74

Length = 191

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 55.4 bits (134), Expect = 3e-08
 Identities = 22/60 (36%), Positives = 40/60 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E+ ++E E  + E ++E E  + E+EEE++E  ++ +E+ +EE  EE+EEE  +E E E
Sbjct: 109 DEDSDDEGEWIDVESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAE 168

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 55.4 bits (134), Expect = 3e-08
 Identities = 24/47 (51%), Positives = 38/47 (80%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           G +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 273 GGDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 55.9 bits (135), Expect = 4e-08
 Identities = 21/63 (33%), Positives = 31/63 (49%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +  E ++E E+ +  E   + EEEE  + E EE  E E+ E  EE+    E     E E 
Sbjct: 372 DSAEYDQEAEDAKVAELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLPEDEF 431

Query: 402 ENE 404
           E+E
Sbjct: 432 EDE 434

Length = 449

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 54.0 bits (130), Expect = 4e-08
 Identities = 24/59 (40%), Positives = 42/59 (71%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDF 409
             EEEE+ +E+    E++ +E E E+ +EE+E++EEEEEEEEEE+E+  + +++   D+
Sbjct: 142 FTEEEEDIDEKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDDDDY 200

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 55.9 bits (135), Expect = 4e-08
 Identities = 18/57 (31%), Positives = 31/57 (54%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            E+EEEE+  +E EEEE E+ EEE  +  E+   E   +   + E + ++E   + +
Sbjct: 373 DEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKESASDSD 429

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 55.0 bits (133), Expect = 4e-08
 Identities = 23/62 (37%), Positives = 42/62 (67%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           GLE  E+ +EEE +++E E+  E +++++EEEE E EE+E+ ++E E  + E ++E E  
Sbjct: 71  GLELLEKWKEEERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDVESDKEIESS 130

Query: 403 NE 404
           + 
Sbjct: 131 DS 132

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 55.0 bits (133), Expect = 4e-08
 Identities = 25/60 (41%), Positives = 40/60 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++E E  + E ++E E  + E+EEE++E  ++ +E+ +EE  EE+EEE  EEEE E E E
Sbjct: 113 DDEGEWIDVESDKEIESSDSEDEEEKDEAAKKAKEDSDEELSEEDEEEAAEEEEAEAEKE 172

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 55.9 bits (135), Expect = 4e-08
 Identities = 29/60 (48%), Positives = 47/60 (78%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E+E  +EEEEEE+EE++EEEE+  ++EEE +EEEE+EE++++ ++ +E   E EL N+
Sbjct: 30  EVEKEVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTTEWELLNK 89

Length = 529

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 54.8 bits (132), Expect = 4e-08
 Identities = 19/58 (32%), Positives = 35/58 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EE  +E E  + E+ E+E++ +E+E++++ EEEE    +   E+ +   EE E  E+E
Sbjct: 210 EELGDEPESADSEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGEME 267

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 55.5 bits (134), Expect = 5e-08
 Identities = 28/58 (48%), Positives = 46/58 (79%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E+E E+E  +EEEEEE+EE++EEEE+  ++EEE +EEEE+EE++++ ++ +E   E E
Sbjct: 28  EKEVEKEVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTTEWE 85

Length = 529

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 55.9 bits (135), Expect = 5e-08
 Identities = 26/61 (42%), Positives = 41/61 (67%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           F+ LE E+   E ++EEEE+EEEEEEE+E+E   +E  ++EE EE++ E + E+ +    
Sbjct: 376 FSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYEDSDGNSS 435

Query: 401 L 401
           L
Sbjct: 436 L 436

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 51.5 bits (123), Expect = 6e-08
 Identities = 21/58 (36%), Positives = 34/58 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            E  EE E  + +E+ +E  E +  +E +EEEE +E  +E  +E + E EE +E+E E
Sbjct: 70  AEAAEEAEAADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDE 127

Length = 131

>gnl|CDD|220377 pfam09747, DUF2052, Coiled-coil domain containing protein (DUF2052)

 Score = 52.8 bits (127), Expect = 6e-08
 Identities = 30/59 (50%), Positives = 38/59 (64%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E++EEEE  EEEEE+ EEE EEEEEE +     EEEEE+ +  +E    EE +EL  E
Sbjct: 74  LEQQEEEESAEEEEEDPEEENEEEEEEYQRGPFGEEEEEDGDSYDELPTPEEREELREE 132

This entry is of sequences of two conserved domains separated by a region of low complexity, spanning some 200 residues. The function is unknown. Length = 178

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 55.2 bits (133), Expect = 7e-08
 Identities = 28/58 (48%), Positives = 46/58 (79%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+E E+E  +EEEEEE+EE++EEEE+  ++EEE +EEEE+EE++++ ++ +E   E E
Sbjct: 28  EKEVEKEVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTTEWE 85

Length = 529

>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region

 Score = 53.0 bits (128), Expect = 7e-08
 Identities = 22/90 (24%), Positives = 40/90 (44%), Gaps = 14/90 (15%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE------ 394
            +G  +             E E +EE+ E++++++E+E+E++EEE +   + EE      
Sbjct: 26  ISGFIDPNAAAAAATAAAIESELDEEDLEDDDDDDEDEDEDDEEEADLGPDPEEARERFA 85

Query: 395 ------EEEEKELENEG--HCDFVKLREML 416
                 E+  K +E  G       K RE L
Sbjct: 86  ELREQYEKTRKAIEKHGRGSKKAQKAREAL 115

The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 51.8 bits (124), Expect = 8e-08
 Identities = 32/84 (38%), Positives = 54/84 (64%)

Query: 321 VPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
            P   P  +K   +  +       ++E+  +E E+ ++E++E++EEEEEE+EEE EE E+
Sbjct: 8   APEKKPEEEKKDENLLEHVKITSWDKEDIIKENEDVKDEKQEDDEEEEEEDEEEIEEPED 67

Query: 381 EEEEEEEEEEEEEEEEEEKELENE 404
            E+EEE  E+EEEEEE+E++  + 
Sbjct: 68  IEDEEEIVEDEEEEEEDEEDNVDL 91

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 51.1 bits (122), Expect = 8e-08
 Identities = 20/54 (37%), Positives = 33/54 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
             + +E+ +E  E +  +E +EEEE +E  +E  +E + E EE +EEE+EE E 
Sbjct: 78  AADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAEA 131

Length = 131

>gnl|CDD|220377 pfam09747, DUF2052, Coiled-coil domain containing protein (DUF2052)

 Score = 52.0 bits (125), Expect = 8e-08
 Identities = 30/58 (51%), Positives = 38/58 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           LE  E++EEEE  EEEEE+ EEE EEEEEE +     EEEEE+ +  +E    EE+E 
Sbjct: 71  LELLEQQEEEESAEEEEEDPEEENEEEEEEYQRGPFGEEEEEDGDSYDELPTPEEREE 128

This entry is of sequences of two conserved domains separated by a region of low complexity, spanning some 200 residues. The function is unknown. Length = 178

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 54.6 bits (131), Expect = 8e-08
 Identities = 8/64 (12%), Positives = 11/64 (17%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G  EE       E       E                  E    E       ++    L+
Sbjct: 109 GSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQ 168

Query: 403 NEGH 406
               
Sbjct: 169 PSHE 172

Length = 413

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 55.0 bits (133), Expect = 9e-08
 Identities = 22/58 (37%), Positives = 44/58 (75%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +  +++++ EEEEE+ +  +EEE+EE+E+ ++E++EEEEEEE+E+++++  E    E 
Sbjct: 334 DEEDDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEEEEEKEKKKKKSAESTRSEL 391

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 54.1 bits (131), Expect = 9e-08
 Identities = 36/108 (33%), Positives = 53/108 (49%), Gaps = 15/108 (13%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE------EEEEEEEEE 397
             E+ E EEE E E  E +EE+E E      ++EE E+E EE +E      +EE E +E 
Sbjct: 159 QREKAEREEEREAERRERKEEKEREVARLRAQQEEAEDEREELDELRADLYQEEYERKER 218

Query: 398 EKEL-ENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
           +KE  E E      + ++ L R   E + EK         +++R EEE
Sbjct: 219 QKEKEEAEKRR---RQKQELQRAREEQIEEKEERL-----QEERAEEE 258

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 50.7 bits (121), Expect = 1e-07
 Identities = 21/60 (35%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              E  EE E  + +E+ +E  E +  +E +EEEE +E  +E  +E + E EE  E E+E
Sbjct: 68  AAAEAAEEAEAADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDE 127

Length = 131

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.9 bits (130), Expect = 1e-07
 Identities = 24/46 (52%), Positives = 37/46 (80%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E +K
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 23/46 (50%), Positives = 37/46 (80%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|220377 pfam09747, DUF2052, Coiled-coil domain containing protein (DUF2052)

 Score = 52.0 bits (125), Expect = 1e-07
 Identities = 29/64 (45%), Positives = 39/64 (60%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            + L+ EE   E  E++EEEE  EEEEE+ EEE EEEEEE +     EEEEE+ +  ++ 
Sbjct: 61  ESSLDREEARLELLEQQEEEESAEEEEEDPEEENEEEEEEYQRGPFGEEEEEDGDSYDEL 120

Query: 401 LENE 404
              E
Sbjct: 121 PTPE 124

This entry is of sequences of two conserved domains separated by a region of low complexity, spanning some 200 residues. The function is unknown. Length = 178

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 54.3 bits (131), Expect = 1e-07
 Identities = 29/106 (27%), Positives = 50/106 (47%), Gaps = 8/106 (7%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEE-----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           L+EE E+E + E++ +E E  EE+       E    +E  E   EE +++ EEE ++E  
Sbjct: 199 LQEEYEKEVKAEKKRQELERVEEKKLEKMAPEASRLDEMSEGLLEESDDDGEEESDDESA 258

Query: 399 KELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
            E     +    K      +T  +  +EK   R  EL R+ + E++
Sbjct: 259 WEGFESEYEPINKPVRPKRKTKAQRNKEK---RRKELEREAKEEKQ 301

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 53.5 bits (128), Expect = 1e-07
 Identities = 28/81 (34%), Positives = 39/81 (48%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +E    + + + EEEE  EE +  EEEE+EE   +   E   E  EEEEEE E   + E 
Sbjct: 165 DEAPPAQPDVDNEEEERLEESDGREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGED 224

Query: 406 HCDFVKLREMLIRTNMEDMRE 426
             D+   R    +   E+M E
Sbjct: 225 VVDYEGERIDKKQGEEEEMEE 245

Length = 279

>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]

 Score = 55.0 bits (132), Expect = 1e-07
 Identities = 29/84 (34%), Positives = 49/84 (58%), Gaps = 6/84 (7%)

Query: 327 TIDKNLYSFFDCKYFNGL------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
           +I K+  SFF+   ++ L      E +E EEE  E E   ++E +E +E+EE +E  E+ 
Sbjct: 906 SIMKDPISFFEDGGWSFLMVGSDDESDESEEEVSEYEASSDDESDETDEDEESDESSEDL 965

Query: 381 EEEEEEEEEEEEEEEEEEKELENE 404
            E+E E +  +EE+ E+  ELE++
Sbjct: 966 SEDESENDSSDEEDGEDWDELESK 989

Length = 1001

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 54.3 bits (130), Expect = 1e-07
 Identities = 35/108 (32%), Positives = 50/108 (46%), Gaps = 8/108 (7%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEEE+EE  EE EE EE E   + E++ +  + EE ++EE+E E EEEE+ +     EN 
Sbjct: 112 EEEEKEESREEREEVEETEGVTKSEQKNDWRDAEECQKEEKEPEPEEEEKPKRGSLEENN 171

Query: 405 GHCDFVKL--------REMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
           G     KL        R       +E  +E    +  +      LEE 
Sbjct: 172 GEFMTHKLKHTENTFSRGGAEGAQVEAGKEFEKLKQKQQEAALELEEL 219

Length = 431

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 54.0 bits (130), Expect = 1e-07
 Identities = 14/58 (24%), Positives = 39/58 (67%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EE+ +++E+++ EE ++++  E+E  ++ E+E    +E++++ EE  ++   ++K+ E
Sbjct: 78  EEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAE 135

Length = 387

>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional

 Score = 54.8 bits (132), Expect = 1e-07
 Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 5/85 (5%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE+   +  EEE+EEE E        + +++E   E+E+E+EE++EE E   + E+   
Sbjct: 1   EEEQVNTQANEEEDEEELEAVARSAGSDSDDDEVPAEDEDEDEEDDEEAESPAKAEI--- 57

Query: 405 GHCDFVKLREM--LIRTNMEDMREK 427
              +  +L+E+    +  ++ + E+
Sbjct: 58  SKREKARLKELKKQKKQEIQKILEQ 82

Length = 1033

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 51.1 bits (123), Expect = 1e-07
 Identities = 23/58 (39%), Positives = 38/58 (65%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +    +++E+EEEEEEE E EE +EEE+ +E  E+E  + + E+  E E ++KE+  E
Sbjct: 92  KLLGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEILKE 149

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 50.6 bits (121), Expect = 2e-07
 Identities = 26/60 (43%), Positives = 41/60 (68%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +EEEEEE+EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++   +      ++ 
Sbjct: 51  DEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNINDIFNSTQDDN 110

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 51.5 bits (124), Expect = 2e-07
 Identities = 25/53 (47%), Positives = 32/53 (60%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
             +EEE EE E EE  E+E EEE  EEE E E  +EE+ +  E E + +E EE
Sbjct: 6   EQVEEEVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAKLDELEE 58

Length = 191

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 52.9 bits (127), Expect = 2e-07
 Identities = 19/63 (30%), Positives = 34/63 (53%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G E E  + E+ E+E++ +E+E++++ EEEE    +   E+ +   EE E  E E  E  
Sbjct: 213 GDEPESADSEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGEMEAAEAS 272

Query: 403 NEG 405
            + 
Sbjct: 273 ADD 275

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|220377 pfam09747, DUF2052, Coiled-coil domain containing protein (DUF2052)

 Score = 50.9 bits (122), Expect = 2e-07
 Identities = 32/67 (47%), Positives = 41/67 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +EEEE  EEEEE+ EEE EEEEEE +     EEEEE+ +  +E    EE EE  +E  +E
Sbjct: 77  QEEEESAEEEEEDPEEENEEEEEEYQRGPFGEEEEEDGDSYDELPTPEEREELREEFISE 136

Query: 405 GHCDFVK 411
            H  F+ 
Sbjct: 137 MHQRFLS 143

This entry is of sequences of two conserved domains separated by a region of low complexity, spanning some 200 residues. The function is unknown. Length = 178

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 53.7 bits (129), Expect = 2e-07
 Identities = 12/59 (20%), Positives = 34/59 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +++ EE ++++  E+E  ++ E+E    +E++++ EE  ++   ++++ EE   K    
Sbjct: 86  QQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAA 144

Length = 387

>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]

 Score = 51.6 bits (124), Expect = 2e-07
 Identities = 30/57 (52%), Positives = 40/57 (70%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +E++ EE + EE EE E+ EEEE EEEE EEE E EEE++E  E E + EE ++K L
Sbjct: 4   KEQKTEEPDAEETEEAEKSEEEEAEEEEPEEENELEEEQQEIAELEAQLEELKDKYL 60

Length = 193

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 51.4 bits (123), Expect = 2e-07
 Identities = 25/71 (35%), Positives = 45/71 (63%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  +E  + +EEE++ E EE E+E+E  E E E+  E++E+EE  +EEE+EEE ++++ +
Sbjct: 44  ENSDEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAEDVKQQ 103

Query: 405 GHCDFVKLREM 415
               F + +  
Sbjct: 104 EVFSFKRKKPF 114

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 53.8 bits (130), Expect = 2e-07
 Identities = 18/83 (21%), Positives = 45/83 (54%), Gaps = 6/83 (7%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE ++E   ++   + EE+++++EE +EE+EE  + E++E++++++++++   +E   E
Sbjct: 107 EEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLE 166

Query: 405 GHCDFVKLREMLIRTNMEDMREK 427
                 + R            E 
Sbjct: 167 ------RRRRRREWEEKRAELEF 183

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 53.1 bits (128), Expect = 3e-07
 Identities = 21/37 (56%), Positives = 27/37 (72%)

Query: 338 CKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 374
           C + N  +++EEEE+E+EEEEEEEEE EE E EE   
Sbjct: 339 CTWVNPEQKDEEEEQEDEEEEEEEEEPEEPEPEEGPP 375

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 52.8 bits (127), Expect = 3e-07
 Identities = 20/61 (32%), Positives = 33/61 (54%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLRE 414
           +  + EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+   +   + G     K  +
Sbjct: 363 DPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADK 422

Query: 415 M 415
            
Sbjct: 423 E 423

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|237622 PRK14140, PRK14140, heat shock protein GrpE; Provisional

 Score = 50.8 bits (122), Expect = 3e-07
 Identities = 25/59 (42%), Positives = 33/59 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           E EE E EE  E+E EEE  EEE E E  +EE+ +  E E + +E EE     + + EN
Sbjct: 11  EVEETEVEEAVEDEVEEETVEEESEAELLDEEQAKIAELEAKLDELEERYLRLQADFEN 69

Length = 191

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 51.6 bits (124), Expect = 3e-07
 Identities = 27/58 (46%), Positives = 42/58 (72%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
             L EEEE++EE E EEEEEEEE + + ++ E++E E ++EEE E+E + EE  +++K
Sbjct: 31  YLLFEEEEDDEEFEIEEEEEEEEVDSDFDDSEDDEPESDDEEEGEKELQREERLKKKK 88

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|218737 pfam05764, YL1, YL1 nuclear protein

 Score = 51.6 bits (124), Expect = 3e-07
 Identities = 28/63 (44%), Positives = 44/63 (69%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           D  ++  L  EEEE++EE E EEEEEEEE + + ++ E++E E ++EEE E+E + EE  
Sbjct: 25  DEFFWTYLLFEEEEDDEEFEIEEEEEEEEVDSDFDDSEDDEPESDDEEEGEKELQREERL 84

Query: 397 EEK 399
           ++K
Sbjct: 85  KKK 87

The proteins in this family are designated YL1. These proteins have been shown to be DNA-binding and may be a transcription factor. Length = 238

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 52.7 bits (127), Expect = 3e-07
 Identities = 23/46 (50%), Positives = 36/46 (78%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E  +
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 52.4 bits (126), Expect = 3e-07
 Identities = 24/47 (51%), Positives = 37/47 (78%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
            G EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 273 GGDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 52.9 bits (127), Expect = 3e-07
 Identities = 12/60 (20%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E+++ EE ++++  E+E  ++ E+E    +E++++ EE  ++   ++++ EE       
Sbjct: 84  KEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAA 143

Length = 387

>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]

 Score = 51.2 bits (123), Expect = 3e-07
 Identities = 33/73 (45%), Positives = 45/73 (61%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           ++E++ EE + EE EE E+ EEEE EEEE EEE E EEE++E  E E + EE K+     
Sbjct: 3   DKEQKTEEPDAEETEEAEKSEEEEAEEEEPEEENELEEEQQEIAELEAQLEELKDKYLRA 62

Query: 406 HCDFVKLREMLIR 418
             +F  LR+   R
Sbjct: 63  QAEFENLRKRTER 75

Length = 193

>gnl|CDD|227701 COG5414, COG5414, TATA-binding protein-associated factor [Transcription]

 Score = 52.8 bits (126), Expect = 3e-07
 Identities = 33/113 (29%), Positives = 53/113 (46%), Gaps = 6/113 (5%)

Query: 322 PGSNPTIDKNLYSFFDCKYFNGLEEEE-----EEEEEEEEEEEEEEEEEEEEEEEEEEEE 376
           P S P + K      + +   G+ EE+      E E +E  E ++E+++EE E  E  +E
Sbjct: 251 PLSRPALKKEKQGA-EEEGEEGMSEEDLDVGAAEIENKEVSEGDKEQQQEEVENAEAHKE 309

Query: 377 EEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTH 429
           E + +  +E  EE+EE++E EE E   E   D +   E  I      M   T+
Sbjct: 310 EVQSDRPDEIGEEKEEDDENEENERHTELLADELNELEKGIEEKRRQMESATN 362

Length = 392

>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi

 Score = 53.3 bits (128), Expect = 3e-07
 Identities = 22/55 (40%), Positives = 36/55 (65%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
              L E EEE+E++ EE +++E+E E  E+ E E E + E+ EE+E+E++ E  E
Sbjct: 641 HQQLFEGEEEDEDDLEETDDDEDECEAIEDSESESESDGEDGEEDEQEDDAEANE 695

This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localised exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units. Length = 784

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 53.1 bits (128), Expect = 3e-07
 Identities = 12/81 (14%), Positives = 54/81 (66%)

Query: 325 NPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
               D +L    D    N  +++++++++++ ++++ ++++++E+++E++++++ ++E+E
Sbjct: 111 ALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDE 170

Query: 385 EEEEEEEEEEEEEEKELENEG 405
           E++E +E E+  ++ +   + 
Sbjct: 171 EKKEAKELEKLSDDDDFVWDE 191

Length = 509

>gnl|CDD|218258 pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA binding family

 Score = 48.6 bits (116), Expect = 3e-07
 Identities = 30/63 (47%), Positives = 40/63 (63%), Gaps = 2/63 (3%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEKE 400
           G  ++E  E  EE+ EEEE+ E EE++  EEE  +E   EEEE EEEE++E   EE EK 
Sbjct: 28  GSVKDEIAELTEEQGEEEEKNEVEEKQAVEEEANKEGVVEEEEVEEEEDKEMTLEEYEKA 87

Query: 401 LEN 403
           L+ 
Sbjct: 88  LQE 90

This family includes the HABP4 family of hyaluronan-binding proteins, and the PAI-1 mRNA-binding protein, PAI-RBP1. HABP4 has been observed to bind hyaluronan (a glucosaminoglycan), but it is not known whether this is its primary role in vivo. It has also been observed to bind RNA, but with a lower affinity than that for hyaluronan. PAI-1 mRNA-binding protein specifically binds the mRNA of type-1 plasminogen activator inhibitor (PAI-1), and is thought to be involved in regulation of mRNA stability. However, in both cases, the sequence motifs predicted to be important for ligand binding are not conserved throughout the family, so it is not known whether members of this family share a common function. Length = 106

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 53.1 bits (127), Expect = 4e-07
 Identities = 24/60 (40%), Positives = 38/60 (63%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++ E ++E  E+E   E + E +++E+  +     +  + EEEEEEEEEEEEEE+E E E
Sbjct: 824 DDTEVKDETGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEEEEEEEEEE 883

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 50.9 bits (122), Expect = 4e-07
 Identities = 27/60 (45%), Positives = 43/60 (71%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+E ++ +++E  E EE +EEE+E    E++E++ + E+E+EE EEE EEE+EE   ENE
Sbjct: 48  EQEAKKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEESSDENE 107

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 49.6 bits (119), Expect = 4e-07
 Identities = 23/55 (41%), Positives = 37/55 (67%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             +++E+EEEEEEE E EE +EEE+ +E  E+E  + + E+  E E +++E  KE
Sbjct: 95  GLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEILKE 149

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi

 Score = 53.0 bits (127), Expect = 4e-07
 Identities = 24/79 (30%), Positives = 47/79 (59%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+ +E +   ++  E EEE+E++ EE +++E+E E  E+ E E E + E+ EE+E+E + 
Sbjct: 632 LKADENKSRHQQLFEGEEEDEDDLEETDDDEDECEAIEDSESESESDGEDGEEDEQEDDA 691

Query: 404 EGHCDFVKLREMLIRTNME 422
           E +   V + + + R   +
Sbjct: 692 EANEGVVPIDKAVRRALPK 710

This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localised exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units. Length = 784

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 53.2 bits (127), Expect = 4e-07
 Identities = 27/100 (27%), Positives = 56/100 (56%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E EE+++ EE ++ EEE + +  EE ++ EE++++ EE ++ EE+E++  E  +KE E  
Sbjct: 1642 EAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEA 1701

Query: 405  GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
               + +K +E   +   E++++       +    K+  EE
Sbjct: 1702 KKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEE 1741

Length = 2084

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 51.5 bits (123), Expect = 5e-07
 Identities = 24/61 (39%), Positives = 34/61 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            + + + EEEE  EE +  EEEE+EE   +   E   E  EEEEEE E  ++ E  ++ E
Sbjct: 170 AQPDVDNEEEERLEESDGREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGEDVVDYE 229

Query: 405 G 405
           G
Sbjct: 230 G 230

Length = 279

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 49.2 bits (118), Expect = 5e-07
 Identities = 22/53 (41%), Positives = 36/53 (67%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           L  +++E+EEEEEEE E EE +EEE+ +E  E+E  + + E+  E E +++E 
Sbjct: 94  LGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEI 146

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 52.5 bits (126), Expect = 5e-07
 Identities = 28/115 (24%), Positives = 49/115 (42%), Gaps = 9/115 (7%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EKELE 402
           E+ E   EE E  +E EE+E E  + E EE E +  E  E+ E +E +E+ E   E    
Sbjct: 245 EDSEAGREESEGSDESEEDEAEATDGEGEEGEMDAAEASEDSESDESDEDTETPGEDARP 304

Query: 403 NEGHCDFVKLREMLIRTN-------MEDMREKTHCRHYELYRKKRLEEESNVIGS 450
                + ++  +  + T         E++ ++        +  K+L   S V+G 
Sbjct: 305 ATPFTELMEEVDYKVFTREFDEIVLAEELCDEAELDRLRAFLDKQLAHLSGVVGR 359

Length = 620

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 51.6 bits (124), Expect = 6e-07
 Identities = 22/46 (47%), Positives = 35/46 (76%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEEE+ +  ++
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 49.8 bits (119), Expect = 6e-07
 Identities = 28/71 (39%), Positives = 44/71 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E  + +EEE++ E EE E+E+E  E E E+  E++E+EE  +EEE+EEE E+ K+ E  
Sbjct: 47  DEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAEDVKQQEVF 106

Query: 405 GHCDFVKLREM 415
                   +EM
Sbjct: 107 SFKRKKPFKEM 117

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 49.8 bits (119), Expect = 6e-07
 Identities = 27/80 (33%), Positives = 48/80 (60%), Gaps = 3/80 (3%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE+E  +E  + +EEE++ E EE E+E+E  E E E+  E++E+EE  +EEE+E+E E+ 
Sbjct: 41  EEKENSDEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAEDV 100

Query: 405 GHCDFVKLREMLIRTNMEDM 424
              +    +    +   ++M
Sbjct: 101 KQQEVFSFK---RKKPFKEM 117

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi

 Score = 52.6 bits (126), Expect = 6e-07
 Identities = 21/61 (34%), Positives = 39/61 (63%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +  ++  E EEE+E++ EE +++E+E E  E+ E E E + E+ EE+E+E++ E  E  +
Sbjct: 639 SRHQQLFEGEEEDEDDLEETDDDEDECEAIEDSESESESDGEDGEEDEQEDDAEANEGVV 698

Query: 402 E 402
            
Sbjct: 699 P 699

This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localised exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units. Length = 784

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 50.1 bits (120), Expect = 7e-07
 Identities = 26/60 (43%), Positives = 41/60 (68%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E ++ +++E  E EE +EEE+E    E++E++ + E+E+EE EEE EEE+EE   E E E
Sbjct: 50  EAKKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEESSDENEKE 109

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 51.9 bits (124), Expect = 7e-07
 Identities = 8/61 (13%), Positives = 12/61 (19%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +GL  E       E                  E    E       ++     +   E   
Sbjct: 116 SGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSP 175

Query: 402 E 402
           E
Sbjct: 176 E 176

Length = 413

>gnl|CDD|217450 pfam03247, Prothymosin, Prothymosin/parathymosin family

 Score = 47.6 bits (113), Expect = 7e-07
 Identities = 30/59 (50%), Positives = 40/59 (67%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           NG E EE   +E ++E EEEEE +E++EEEE E EEEE EEEEE E    +   E+E++
Sbjct: 35  NGNENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEEEGEEEEETEGATGKRAAEDEED 93

Prothymosin alpha and parathymosin are two ubiquitous small acidic nuclear proteins that are thought to be involved in cell cycle progression, proliferation, and cell differentiation. Length = 106

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 50.1 bits (120), Expect = 8e-07
 Identities = 26/61 (42%), Positives = 42/61 (68%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++ +++E  E EE +EEE+E    E++E++ + E+E+EE EEE EEE+EE  +E E E E
Sbjct: 52  KKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEESSDENEKETE 111

Query: 405 G 405
            
Sbjct: 112 E 112

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 52.1 bits (125), Expect = 8e-07
 Identities = 24/60 (40%), Positives = 37/60 (61%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            Y        E E+   E ++EEEE+EEEEEEE+E+E   +E  ++EE EE++ E + E+
Sbjct: 370 DYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYED 429

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 48.8 bits (117), Expect = 8e-07
 Identities = 23/52 (44%), Positives = 37/52 (71%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           GL+++E+EEEEEEE E EE +EEE+ +E  E+E  + + E+  E E +++E 
Sbjct: 95  GLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEI 146

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family

 Score = 49.5 bits (119), Expect = 8e-07
 Identities = 24/87 (27%), Positives = 45/87 (51%), Gaps = 2/87 (2%)

Query: 331 NLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEE--EEEEEEEEEEEEEEEEEEEEE 388
           N Y  F  +  N L+   E+ ++E EE ++   E +   E+ ++  EE EE  E  EE +
Sbjct: 54  NYYWSFPSQALNKLKTRLEKLKKELEELKQRIAELQAQIEKLKKGREETEERTELLEELK 113

Query: 389 EEEEEEEEEEKELENEGHCDFVKLREM 415
           + E+E ++ + ELE     D  ++ ++
Sbjct: 114 QLEKELKKLKAELEKYEKNDPERIEKL 140

This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair. Length = 188

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 51.3 bits (123), Expect = 9e-07
 Identities = 19/63 (30%), Positives = 34/63 (53%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +  E +  ++     +  + EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+    
Sbjct: 348 STKESKMRDKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSE 407

Query: 402 ENE 404
            + 
Sbjct: 408 SSS 410

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 51.7 bits (124), Expect = 9e-07
 Identities = 23/56 (41%), Positives = 36/56 (64%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +     E E+   E ++EEEE+EEEEEEE+E+E   +E  ++EE EE++ E + E
Sbjct: 373 LDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYE 428

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 51.7 bits (124), Expect = 9e-07
 Identities = 24/60 (40%), Positives = 39/60 (65%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            +     E E+   E ++EEEE+EEEEEEE+E+E   +E  ++EE EE++ E K  +++G
Sbjct: 373 LDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYEDSDG 432

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 50.8 bits (121), Expect = 9e-07
 Identities = 24/64 (37%), Positives = 34/64 (53%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EEEE  EE +  EEEE+EE   +   E   E  EEEEEE E  ++ E+  + E E  ++
Sbjct: 176 NEEEERLEESDGREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGEDVVDYEGERIDK 235

Query: 405 GHCD 408
              +
Sbjct: 236 KQGE 239

Length = 279

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 51.3 bits (123), Expect = 9e-07
 Identities = 13/59 (22%), Positives = 38/59 (64%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE+ +++E+++ EE ++++  E+E  ++ E+E    +E++++ EE  ++   +++   E
Sbjct: 78  EEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEE 136

Length = 387

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 48.8 bits (117), Expect = 9e-07
 Identities = 21/59 (35%), Positives = 39/59 (66%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +    +++E+EEEEEEE E EE +EEE+ +E  E+E  + + E+  E E ++++ L+ +
Sbjct: 92  KLLGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEILKEQ 150

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 48.8 bits (117), Expect = 9e-07
 Identities = 22/55 (40%), Positives = 38/55 (69%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            +++E+EEEEEEE E EE +EEE+ +E  E+E  + + E+  E E +++E  +E+
Sbjct: 96  LDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKEILKEQ 150

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 51.5 bits (124), Expect = 9e-07
 Identities = 10/61 (16%), Positives = 48/61 (78%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            ++++++ ++++ ++++++E+++E++++++ ++E+EE++E +E E+  ++++    E ++
Sbjct: 135 DDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEKLSDDDDFVWDEDDS 194

Query: 404 E 404
           E
Sbjct: 195 E 195

Length = 509

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 51.2 bits (123), Expect = 1e-06
 Identities = 23/70 (32%), Positives = 44/70 (62%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE++EEEE+ +E  ++ ++E E ++++     + EE+EEEEE+  ++E+EE++ +   E
Sbjct: 285 EEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEEEEDGVDDEDEEDDDDDLEE 344

Query: 405 GHCDFVKLRE 414
              D     E
Sbjct: 345 EEEDVDLSDE 354

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 19/65 (29%), Positives = 32/65 (49%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +++  E ++E E+ +  E   + EEEE  + E EE  E E+ E  EE+    E     E+
Sbjct: 370 IKDSAEYDQEAEDAKVAELISQREEEEALQREAEERLEAEQAERAEEDARLRELYPLPED 429

Query: 404 EGHCD 408
           E   +
Sbjct: 430 EFEDE 434

Length = 449

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 20/77 (25%), Positives = 35/77 (45%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
            +E +  ++     +  + EE +E+E+EEEE+  +E EEEE E+ EEE  + +E  +   
Sbjct: 349 TKESKMRDKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSES 408

Query: 407 CDFVKLREMLIRTNMED 423
              V             
Sbjct: 409 SSDVGSDSESKADKESA 425

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 50.5 bits (121), Expect = 1e-06
 Identities = 20/61 (32%), Positives = 35/61 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E +  ++     +  + EE +E+E+EEEE+  +E EEEE E+ EEE  +  E+   E+ 
Sbjct: 350 KESKMRDKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSSESS 409

Query: 405 G 405
            
Sbjct: 410 S 410

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 25/55 (45%), Positives = 42/55 (76%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +EEEEEE+EE++EEEE+  ++EEE +EEEE+EE++++ ++ +E   E E   + K
Sbjct: 37  DEEEEEEKEEKKEEEEKTTDKEEEVDEEEEKEEKKKKTKKVKETTTEWELLNKTK 91

Length = 529

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 50.6 bits (121), Expect = 1e-06
 Identities = 17/55 (30%), Positives = 32/55 (58%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           L +E E  + E+ E+E++ +E+E++++ EEEE    +   E+ +   EE E  E 
Sbjct: 212 LGDEPESADSEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGEM 266

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 51.7 bits (124), Expect = 1e-06
 Identities = 23/57 (40%), Positives = 38/57 (66%)

Query: 332 LYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           L +F   +  +   E ++EEEE+EEEEEEE+E+E   +E  ++EE EE++ E + E+
Sbjct: 373 LDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYED 429

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 51.3 bits (123), Expect = 1e-06
 Identities = 23/57 (40%), Positives = 37/57 (64%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           + +     E E+   E ++EEEE+EEEEEEE+E+E   +E  ++EE EE++ E + E
Sbjct: 372 ILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYE 428

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 51.2 bits (122), Expect = 1e-06
 Identities = 25/60 (41%), Positives = 36/60 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E+   E E  EEEE+EE  EE EE EE E   + E++ +  + EE ++EE+E E E E
Sbjct: 100 MQEDSGAENETVEEEEKEESREEREEVEETEGVTKSEQKNDWRDAEECQKEEKEPEPEEE 159

Length = 431

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 48.1 bits (115), Expect = 1e-06
 Identities = 21/55 (38%), Positives = 36/55 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            +    +++E+EEEEEEE E EE +EEE+ +E  E+E  + + E+  E E +++E
Sbjct: 91  RKLLGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREKRRENERKQKE 145

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]

 Score = 48.9 bits (117), Expect = 1e-06
 Identities = 29/59 (49%), Positives = 38/59 (64%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           E + EE EE E+ EEEE EEEE EEE E EEE++E  E E + EE +++    + E EN
Sbjct: 10  EPDAEETEEAEKSEEEEAEEEEPEEENELEEEQQEIAELEAQLEELKDKYLRAQAEFEN 68

Length = 193

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 49.1 bits (117), Expect = 1e-06
 Identities = 23/58 (39%), Positives = 40/58 (68%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            +   + +EEE++ E EE E+E+E  E E E+  E++E+EE  +EEE+EEE E+ +++
Sbjct: 46  SDEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAEDVKQQ 103

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 51.1 bits (123), Expect = 1e-06
 Identities = 9/66 (13%), Positives = 51/66 (77%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L + +++++++++++ ++++ ++++++E+++E++++++ ++E+EE++E +E E+  + ++
Sbjct: 127 LNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEKLSDDDD 186

Query: 404 EGHCDF 409
               + 
Sbjct: 187 FVWDED 192

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 51.1 bits (123), Expect = 1e-06
 Identities = 12/71 (16%), Positives = 47/71 (66%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           +        D    + L++++ ++++++E+++E++++++ ++E+EE++E +E E+  +++
Sbjct: 126 VLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEKLSDDD 185

Query: 388 EEEEEEEEEEE 398
           +   +E++ E 
Sbjct: 186 DFVWDEDDSEA 196

Length = 509

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 49.1 bits (117), Expect = 1e-06
 Identities = 23/59 (38%), Positives = 34/59 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++EEE+ + + EE EE+EEE E+ E+  +EE+EE EE EEE     +      K    E
Sbjct: 18  KDEEEDWDSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSSKSSSQE 76

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 51.6 bits (124), Expect = 1e-06
 Identities = 23/34 (67%), Positives = 24/34 (70%)

Query: 371 EEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
               E EEEEEEEEE  EEEEEEEEEEE+  E E
Sbjct: 300 PSPPEPEEEEEEEEEVPEEEEEEEEEEERTFEEE 333

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 52.0 bits (124), Expect = 1e-06
 Identities = 26/74 (35%), Positives = 45/74 (60%), Gaps = 3/74 (4%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE---EEEEEEEEEEEEEEEKE 400
           L EE+    +    ++++E+E+E++++EE++EEEEEEEEE    ++E+EE+E  E+   E
Sbjct: 140 LAEEDMSPRDNFVIDDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGEDFTYE 199

Query: 401 LENEGHCDFVKLRE 414
                  D  K  E
Sbjct: 200 KSEVDKTDCFKFIE 213

Length = 2849

>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit [Transcription]

 Score = 48.6 bits (116), Expect = 1e-06
 Identities = 21/56 (37%), Positives = 45/56 (80%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            +E++EEEE++E +  ++E ++E+E+++E  E   E++E +E+E+++E+EE+EE+K
Sbjct: 120 YDEDKEEEEDDEVDSLDDENDDEDEDDDEIVEILIEDDEVDEDEDDDEDEEDEEDK 175

Length = 175

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 48.2 bits (115), Expect = 1e-06
 Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 2/66 (3%)

Query: 330 KNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           +NL + +  K F  L   ++EEEE EEE  +E E+E+  E + E +E+++ E  + + E+
Sbjct: 79  RNLPAMW--KIFRELSSSDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEK 136

Query: 390 EEEEEE 395
           E+ + E
Sbjct: 137 EKPKTE 142

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 51.1 bits (122), Expect = 2e-06
 Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 11/73 (15%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----------EEEEEEEE 391
           G ++E E + E + ++ E ++E  E+E   E + E +++E+           + EEEEEE
Sbjct: 810 GEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEE 869

Query: 392 EEEEEEEKELENE 404
           EEEEEEE+E E E
Sbjct: 870 EEEEEEEEEEEEE 882

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 50.5 bits (121), Expect = 2e-06
 Identities = 20/65 (30%), Positives = 36/65 (55%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
              +E +  ++     +  + EE +E+E+EEEE+  +E EEEE E+ EEE  +  ++  +
Sbjct: 347 PSTKESKMRDKRRARLDPIDFEEVDEDEDEEEEQRSDEHEEEEGEDSEEEGSQSREDGSS 406

Query: 404 EGHCD 408
           E   D
Sbjct: 407 ESSSD 411

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 50.9 bits (122), Expect = 2e-06
 Identities = 24/57 (42%), Positives = 36/57 (63%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
              E E+   E ++EEEE+EEEEEEE+E+E   +E  ++EE EE++ E + E    N
Sbjct: 377 SALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDVESKYEDSDGN 433

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 50.7 bits (121), Expect = 2e-06
 Identities = 9/61 (14%), Positives = 15/61 (24%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                            E    E       ++     +   E+  EE E    E E ++ 
Sbjct: 131 PASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSP 190

Query: 405 G 405
           G
Sbjct: 191 G 191

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 50.4 bits (120), Expect = 2e-06
 Identities = 9/61 (14%), Positives = 14/61 (22%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E                  E    E       ++     +   E+  EE E    E E +
Sbjct: 129 ESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPD 188

Query: 405 G 405
            
Sbjct: 189 S 189

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 50.0 bits (119), Expect = 2e-06
 Identities = 7/61 (11%), Positives = 8/61 (13%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                     EE       E       E                  E    E      N+
Sbjct: 102 SPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQ 161

Query: 405 G 405
            
Sbjct: 162 Q 162

Length = 413

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 49.8 bits (119), Expect = 2e-06
 Identities = 11/56 (19%), Positives = 37/56 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +++E+++ EE ++++  E+E  ++ E+E    +E++++ EE  ++   ++++ E+ 
Sbjct: 82  KKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEA 137

Length = 387

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 9/66 (13%), Positives = 49/66 (74%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + +++++++++++ ++++ ++++++E+++E++++++ ++E+EE++E +E E+   + +  
Sbjct: 129 QADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEKLSDDDDFV 188

Query: 405 GHCDFV 410
              D  
Sbjct: 189 WDEDDS 194

Length = 509

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 13/85 (15%), Positives = 52/85 (61%)

Query: 320 KVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
           K    N   D ++ +  D    +  +++ ++++ ++++++E+++E++++++ ++E+EE++
Sbjct: 114 KDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDEDEEKK 173

Query: 380 EEEEEEEEEEEEEEEEEEEKELENE 404
           E +E E+  ++++   +E+      
Sbjct: 174 EAKELEKLSDDDDFVWDEDDSEALR 198

Length = 509

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 51.0 bits (122), Expect = 2e-06
 Identities = 19/63 (30%), Positives = 36/63 (57%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            + EE  ++  EE+ +EE+ ++++ +  E+ E   EE E  +E EE+E E  + E +E E
Sbjct: 217 DMAEETGDDGIEEDADEEDGDDDQPDNNEDSEAGREESEGSDESEEDEAEATDGEGEEGE 276

Query: 403 NEG 405
            + 
Sbjct: 277 MDA 279

Length = 620

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 51.0 bits (122), Expect = 2e-06
 Identities = 21/60 (35%), Positives = 31/60 (51%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +  E+ E   EE E  +E EE+E E  + E EE E +  E  E+ E +E +E+ E   E 
Sbjct: 242 DNNEDSEAGREESEGSDESEEDEAEATDGEGEEGEMDAAEASEDSESDESDEDTETPGED 301

Length = 620

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 50.2 bits (120), Expect = 2e-06
 Identities = 20/62 (32%), Positives = 34/62 (54%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           EE+ +EE+ ++++ +  E+ E   EE E  +E EE+E E  + E EE E +  E   +  
Sbjct: 228 EEDADEEDGDDDQPDNNEDSEAGREESEGSDESEEDEAEATDGEGEEGEMDAAEASEDSE 287

Query: 407 CD 408
            D
Sbjct: 288 SD 289

Length = 620

>gnl|CDD|217450 pfam03247, Prothymosin, Prothymosin/parathymosin family

 Score = 46.1 bits (109), Expect = 2e-06
 Identities = 31/69 (44%), Positives = 41/69 (59%)

Query: 334 SFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           S  D K    + EE+E  +       E EE   +E ++E EEEEE +E++EEEE E EEE
Sbjct: 12  SAKDLKEKKEVVEEKENGKNAPANGNENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEE 71

Query: 394 EEEEEKELE 402
           E EEE+E E
Sbjct: 72  EGEEEEETE 80

Prothymosin alpha and parathymosin are two ubiquitous small acidic nuclear proteins that are thought to be involved in cell cycle progression, proliferation, and cell differentiation. Length = 106

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 50.0 bits (120), Expect = 2e-06
 Identities = 36/94 (38%), Positives = 41/94 (43%), Gaps = 6/94 (6%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEEEEEEEEEEKELE 402
               E EEEEEEEEE  EEEEEEEEEEE   EEE      E     EEE        E  
Sbjct: 300 PSPPEPEEEEEEEEEVPEEEEEEEEEEERTFEEEVRATVAEAIRLLEEELTVSARRHEFF 359

Query: 403 NEGHCDFVKLREMLIRTNMEDMREKTHCRHYELY 436
           N      V   E+L R        ++  R + +Y
Sbjct: 360 NFA----VDFYELLQRLEDLGRITESFLRRWVMY 389

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 51.1 bits (122), Expect = 2e-06
 Identities = 35/106 (33%), Positives = 53/106 (50%), Gaps = 1/106 (0%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             +EEE+EE+ + +EEE    EEE +EE E  EEE+   E+EE+ +EEE EE   E KE 
Sbjct: 787 LKVEEEKEEKLKAQEEELRALEEELKEEAELLEEEQLLIEQEEKIKEEELEELALELKEE 846

Query: 402 ENEGHCDFVKLREMLIRTNMEDM-REKTHCRHYELYRKKRLEEESN 446
           +        +L  +      E++ +E          +K + E ES 
Sbjct: 847 QKLEKLAEEELERLEEEITKEELLQELLLKEEELEEQKLKDELESK 892

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 50.7 bits (121), Expect = 2e-06
 Identities = 23/84 (27%), Positives = 46/84 (54%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            E+ +++E  ++  EE E   E   + EE + +E + +E+ ++  E  + +E+ E E EN
Sbjct: 167 REKRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKALEYYQLKEKLELEEEN 226

Query: 404 EGHCDFVKLREMLIRTNMEDMREK 427
             + D++KL E  I    E +R++
Sbjct: 227 LLYLDYLKLNEERIDLLQELLRDE 250

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 50.6 bits (121), Expect = 2e-06
 Identities = 17/61 (27%), Positives = 42/61 (68%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+E  ++ ++  ++  E ++E +  EE E + +EE+ ++EE E++++E+ +E++EK  ++
Sbjct: 371 LKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKD 430

Query: 404 E 404
           E
Sbjct: 431 E 431

Length = 434

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 49.8 bits (119), Expect = 2e-06
 Identities = 17/61 (27%), Positives = 42/61 (68%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +Y   L++  ++  E ++E +  EE E + +EE+ ++EE E++++E+ +E++E+ +++E 
Sbjct: 373 EYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDER 432

Query: 399 K 399
           K
Sbjct: 433 K 433

Length = 434

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 50.7 bits (121), Expect = 2e-06
 Identities = 20/64 (31%), Positives = 36/64 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++ E E+EE+ ++++  E E+EE+ E E E +E    +E E  + E E  EEE  + + +
Sbjct: 205 DDTESEDEEDGDDDQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQD 264

Query: 405 GHCD 408
              D
Sbjct: 265 DLPD 268

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 49.8 bits (119), Expect = 2e-06
 Identities = 24/59 (40%), Positives = 33/59 (55%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           +E  E E  ++     +   E++E   E    E+ EEEE EE EE+EEEE EEE +E E
Sbjct: 45  IELAEPETSDDPYGNPDPFGEDDEGRIEVRISEDGEEEEVEEGEEDEEEEGEEESEEFE 103

Length = 306

>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein

 Score = 49.3 bits (118), Expect = 2e-06
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 9/70 (12%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE---------EEEEEEEEEEEEEEE 394
            E+    + ++ +   + +  +++ ++++ E+E            +E  EE+E EEEE+ 
Sbjct: 111 EEDARNSDADDSDSSSDSDSSDDDSDDDDSEDETAALLRELEKIKKERAEEKEREEEEKA 170

Query: 395 EEEEKELENE 404
            EEEK  E E
Sbjct: 171 AEEEKAREEE 180

This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing. Length = 241

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 48.2 bits (115), Expect = 3e-06
 Identities = 23/56 (41%), Positives = 35/56 (62%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E    E++E++ + E+E+EE EEE EEE+EE  +E E+E EE+ E   E+E     
Sbjct: 71  EAANSEDKEDKGDAEKEDEESEEENEEEDEESSDENEKETEEKTESNVEKEITNPS 126

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 49.0 bits (117), Expect = 3e-06
 Identities = 16/54 (29%), Positives = 31/54 (57%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            E  +E E  + E+ E+E++ +E+E++++ EEEE    +   E+ +   EE E 
Sbjct: 210 EELGDEPESADSEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMES 263

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 50.0 bits (120), Expect = 3e-06
 Identities = 8/83 (9%), Positives = 52/83 (62%)

Query: 320 KVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
                +  ++         +  +  +++++++ ++++ ++++++E+++E++++++ ++E+
Sbjct: 110 NALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDDDDDVDDED 169

Query: 380 EEEEEEEEEEEEEEEEEEEKELE 402
           EE++E +E E+  ++++   + +
Sbjct: 170 EEKKEAKELEKLSDDDDFVWDED 192

Length = 509

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 49.8 bits (119), Expect = 3e-06
 Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 6/69 (8%)

Query: 343 GLEEEEEEEEEEE------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           G+EE+ +EE+ ++      E+ E   EE E  +E EE+E E  + E EE E +  E  E+
Sbjct: 226 GIEEDADEEDGDDDQPDNNEDSEAGREESEGSDESEEDEAEATDGEGEEGEMDAAEASED 285

Query: 397 EEKELENEG 405
            E +  +E 
Sbjct: 286 SESDESDED 294

Length = 620

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 47.6 bits (113), Expect = 3e-06
 Identities = 21/51 (41%), Positives = 31/51 (60%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           ++EEE+ + + EE EE+EEE E+ E+  +EE+EE EE EEE          
Sbjct: 18  KDEEEDWDSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSS 68

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 47.6 bits (113), Expect = 3e-06
 Identities = 21/42 (50%), Positives = 31/42 (73%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           ++EEE+ + + EE EE+EEE E+ E+  +EE+EE EE EEE 
Sbjct: 18  KDEEEDWDSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEET 59

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 50.4 bits (120), Expect = 3e-06
 Identities = 22/68 (32%), Positives = 46/68 (67%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLR 413
            EE+    +    ++++E+E+E++++EE++EEEEEEEEE +  ++++ E+EG  DF   +
Sbjct: 141 AEEDMSPRDNFVIDDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGEDFTYEK 200

Query: 414 EMLIRTNM 421
             + +T+ 
Sbjct: 201 SEVDKTDC 208

Length = 2849

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 50.4 bits (120), Expect = 3e-06
 Identities = 22/65 (33%), Positives = 45/65 (69%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           D    +    ++++E+E+E++++EE++EEEEEEEEE +  ++E+EE+E  E+   E+ E 
Sbjct: 144 DMSPRDNFVIDDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGEDFTYEKSEV 203

Query: 397 EEKEL 401
           ++ + 
Sbjct: 204 DKTDC 208

Length = 2849

>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit [Transcription]

 Score = 47.8 bits (114), Expect = 3e-06
 Identities = 20/58 (34%), Positives = 46/58 (79%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           L+ +E++EEEE++E +  ++E ++E+E+++E  E   E++E +E+E+++E+EE+E++ 
Sbjct: 118 LDYDEDKEEEEDDEVDSLDDENDDEDEDDDEIVEILIEDDEVDEDEDDDEDEEDEEDK 175

Length = 175

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 49.9 bits (119), Expect = 3e-06
 Identities = 21/59 (35%), Positives = 34/59 (57%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           L EE  ++ E E+EE+ ++++  E E+EE+ E E E +E    +E E  + E E  E E
Sbjct: 199 LAEEMGDDTESEDEEDGDDDQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEE 257

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 47.3 bits (113), Expect = 3e-06
 Identities = 18/40 (45%), Positives = 31/40 (77%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
           + +G      EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 100 HISGQHLVASEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 48.1 bits (114), Expect = 3e-06
 Identities = 25/59 (42%), Positives = 39/59 (66%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E EE EE  E E  EE+ +E E++EE+E E EE+  EE+ ++ E E  E++E E E++
Sbjct: 133 QEREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESD 191

Length = 197

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 47.8 bits (113), Expect = 3e-06
 Identities = 25/60 (41%), Positives = 39/60 (65%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E EE EE  E E  EE+ +E E++EE+E E EE+  EE+ ++ E E  E++E E E +++
Sbjct: 134 EREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDDD 193

Length = 197

>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)

 Score = 45.8 bits (109), Expect = 3e-06
 Identities = 7/54 (12%), Positives = 42/54 (77%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           E+  +++E+EE+E++   +++++++++++  + ++++ + ++++++  E++++E
Sbjct: 51  EDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDLDDDDVDLDDDDDDFLEDDDDE 104

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown. Length = 104

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 50.0 bits (119), Expect = 3e-06
 Identities = 21/65 (32%), Positives = 33/65 (50%), Gaps = 6/65 (9%)

Query: 343 GLEEEEEE------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           G +E  EE           + EE E++   E   + E E++E+ EE EEE+ EEE    +
Sbjct: 277 GDDEGREEDYISDSSASGNDPEEREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEGGLSK 336

Query: 397 EEKEL 401
           + K+L
Sbjct: 337 KGKKL 341

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 46.5 bits (111), Expect = 3e-06
 Identities = 13/57 (22%), Positives = 40/57 (70%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            + ++EE    EE+ ++++++  + +++  +++   +++ +EE+ +EE++E+EE+EE
Sbjct: 73  VDEIDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 45.6 bits (108), Expect = 3e-06
 Identities = 27/53 (50%), Positives = 34/53 (64%)

Query: 333 YSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           Y+     +   LE EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 44  YNISQSAFKKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 50.1 bits (120), Expect = 3e-06
 Identities = 31/86 (36%), Positives = 45/86 (52%), Gaps = 2/86 (2%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L  E  EE E E EE EE  EE +E+ E  +EE EE E   EE E+   E EE ++ELE 
Sbjct: 306 LLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEE 365

Query: 404 EGHCDFVKLREML--IRTNMEDMREK 427
           +      +L E+   +R  + ++  +
Sbjct: 366 KLSALLEELEELFEALREELAELEAE 391

Length = 1163

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 46.6 bits (111), Expect = 3e-06
 Identities = 19/65 (29%), Positives = 34/65 (52%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           K      +  EEE ++EE+ E E+ E+ E++E E   E    + EEE  +E++ +     
Sbjct: 70  KERKEALKLLEEENDDEEDAETEDTEDVEDDEWEGFPEPTVTDYEEEYIDEDKYKTTVTV 129

Query: 399 KELEN 403
           +EL+ 
Sbjct: 130 EELDP 134

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family

 Score = 47.4 bits (112), Expect = 3e-06
 Identities = 33/98 (33%), Positives = 51/98 (52%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +  E EE +    EE    EEE   +EEE   E+EE+ + + EEEE++E+EE++ ++ + 
Sbjct: 53  DRLEREELKRRAAEERLRREEEARRQEEERAREKEEKAKRKAEEEEKQEQEEQERIQKQK 112

Query: 406 HCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
                + RE   R  +E  +         L RKKRLEE
Sbjct: 113 EEAEARAREEAERMRLEREKHFQQIEQERLERKKRLEE 150

The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115-kDa epithelial MAP (E-MAP-115/MAP7) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin. The binding of this microtubule associated protein is nucleotide independent. Length = 171

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 50.0 bits (119), Expect = 3e-06
 Identities = 23/64 (35%), Positives = 42/64 (65%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +G + + E+  ++EEEEEE+E  E+E  ++E+E +   E E   E+  ++E E++EEK++
Sbjct: 105 DGSDMDSEDSADDEEEEEEDESLEDEMIDDEDEADLFNESESSLEDLSDDETEDDEEKKM 164

Query: 402 ENEG 405
           E E 
Sbjct: 165 EEEE 168

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional

 Score = 47.8 bits (114), Expect = 4e-06
 Identities = 19/52 (36%), Positives = 32/52 (61%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E+E ++ + E  EE+  +E E +EE++ +EE+ E EE E+EE  E   E+ 
Sbjct: 1   MEKECKDAKHENMEEDCCKENENKEEDKGKEEDLEFEEIEKEEIIEDSEESN 52

Length = 211

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 47.8 bits (114), Expect = 4e-06
 Identities = 23/59 (38%), Positives = 41/59 (69%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E+E ++ +++E  E EE +EEE+E    E++E++ + E+E+EE EEE EEE E  ++
Sbjct: 46  ADEQEAKKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEESSD 104

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 46.5 bits (110), Expect = 4e-06
 Identities = 18/62 (29%), Positives = 29/62 (46%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G  E+          E  EE E  + +E+ +E  E +  +E +EEEE +E  +E   E +
Sbjct: 56  GRAEKGPAAAATAAAEAAEEAEAADADEDADEAAEADAADEADEEEETDEAVDETADEAD 115

Query: 403 NE 404
            E
Sbjct: 116 AE 117

Length = 131

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 49.6 bits (118), Expect = 4e-06
 Identities = 6/61 (9%), Positives = 10/61 (16%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E       E                  E    E       ++     +   E+  E    
Sbjct: 121 ENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEP 180

Query: 405 G 405
            
Sbjct: 181 P 181

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 49.2 bits (117), Expect = 4e-06
 Identities = 8/63 (12%), Positives = 14/63 (22%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           N      E                  E    E       ++     +   E+  EE +  
Sbjct: 122 NTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPP 181

Query: 402 ENE 404
            +E
Sbjct: 182 TSE 184

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 49.2 bits (117), Expect = 4e-06
 Identities = 6/61 (9%), Positives = 8/61 (13%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                 EE       E       E                  E    E       +  + 
Sbjct: 106 SPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSS 165

Query: 405 G 405
            
Sbjct: 166 F 166

Length = 413

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 49.1 bits (118), Expect = 4e-06
 Identities = 31/97 (31%), Positives = 47/97 (48%), Gaps = 19/97 (19%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-------------EEEEE 390
           +EE++  + EE+EEE   +E  EEE  +   EEEE E + +E             EE E+
Sbjct: 26  IEEKKRIKAEEKEEERRIDEMMEEERLKALAEEEERERKRKEERREGRAVLQEQIEEREK 85

Query: 391 EEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREK 427
             +EE EE+  E E      ++ E++ R   ED  E 
Sbjct: 86  RRQEEYEERLQERE------QMDEIIERIQEEDEAEA 116

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 48.8 bits (116), Expect = 4e-06
 Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 2/63 (3%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEKE 400
            ++ EEEE  EE +  EEEE+EE   +   E   E  EEEEEE E  ++ E+  + E + 
Sbjct: 173 DVDNEEEERLEESDGREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGEDVVDYEGER 232

Query: 401 LEN 403
           ++ 
Sbjct: 233 IDK 235

Length = 279

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 49.4 bits (118), Expect = 4e-06
 Identities = 12/59 (20%), Positives = 38/59 (64%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           E+ +++E+++ EE ++++  E+E  ++ E+E    +E++++ EE  ++   ++++  E 
Sbjct: 79  EQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEA 137

Length = 387

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 47.5 bits (113), Expect = 4e-06
 Identities = 28/60 (46%), Positives = 42/60 (70%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +EEE+E  +E  + +EEE++ E EE E+E+E  E E E+  E++E+EE  +EEEKE E E
Sbjct: 39  KEEEKENSDEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAE 98

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 47.1 bits (112), Expect = 4e-06
 Identities = 25/59 (42%), Positives = 40/59 (67%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E+EEE+E  +E  + +EEE++ E EE E+E+E  E E E+  E++E+EE  +E E E
Sbjct: 36  ADEKEEEKENSDEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKE 94

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 49.6 bits (119), Expect = 4e-06
 Identities = 14/54 (25%), Positives = 40/54 (74%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            + EEE ++E   ++   + EE+++++EE +EE+EE  + E++E++++++++++
Sbjct: 104 GDIEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDD 157

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 49.6 bits (119), Expect = 4e-06
 Identities = 20/78 (25%), Positives = 44/78 (56%), Gaps = 2/78 (2%)

Query: 327 TIDKNLYSFFDCK--YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
            I++ L         Y +  E+++++EE +EE+EE  + E++E++++++++++    E  
Sbjct: 105 DIEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERS 164

Query: 385 EEEEEEEEEEEEEEKELE 402
            E      E EE+  ELE
Sbjct: 165 LERRRRRREWEEKRAELE 182

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi

 Score = 49.9 bits (119), Expect = 4e-06
 Identities = 21/53 (39%), Positives = 36/53 (67%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           + F G EE+E++ EE +++E+E E  E+ E E E + E+ EE+E+E++ E  E
Sbjct: 643 QLFEGEEEDEDDLEETDDDEDECEAIEDSESESESDGEDGEEDEQEDDAEANE 695

This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localised exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units. Length = 784

>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit [Transcription]

 Score = 47.4 bits (113), Expect = 4e-06
 Identities = 22/81 (27%), Positives = 48/81 (59%)

Query: 324 SNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
                +K      D +     E +E+E + +E++EEEE++E +  ++E ++E+E+++E  
Sbjct: 91  IQAMTEKKDIKAKDKEVDAFEEGDEDELDYDEDKEEEEDDEVDSLDDENDDEDEDDDEIV 150

Query: 384 EEEEEEEEEEEEEEEKELENE 404
           E   E++E +E+E++ E E +
Sbjct: 151 EILIEDDEVDEDEDDDEDEED 171

Length = 175

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 49.6 bits (118), Expect = 4e-06
 Identities = 31/100 (31%), Positives = 50/100 (50%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             EEE +EE E  EEE+   E+EE+ +EEE EE   E +EE++ E+  EEE E  E E  
Sbjct: 806 ALEEELKEEAELLEEEQLLIEQEEKIKEEELEELALELKEEQKLEKLAEEELERLEEEIT 865

Query: 405 GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
                 +L         + ++++   +  +   +K+  EE
Sbjct: 866 KEELLQELLLKEEELEEQKLKDELESKEEKEKEEKKELEE 905

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 49.6 bits (118), Expect = 4e-06
 Identities = 21/64 (32%), Positives = 37/64 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+EE+ ++++  E E+EE+ E E E +E    +E E  + E E  EEE  + ++ +L +E
Sbjct: 210 EDEEDGDDDQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDE 269

Query: 405 GHCD 408
              D
Sbjct: 270 SDDD 273

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 46.5 bits (111), Expect = 4e-06
 Identities = 18/36 (50%), Positives = 30/36 (83%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            EE+E +++EE+EEEE++EE+++E+E EEEE   K+
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEESPVKK 144

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 49.6 bits (118), Expect = 4e-06
 Identities = 20/61 (32%), Positives = 33/61 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++E  EE+   +      + EE E++   E   + E E++E+ EE EEE+ EEE  L  +
Sbjct: 278 DDEGREEDYISDSSASGNDPEEREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEGGLSKK 337

Query: 405 G 405
           G
Sbjct: 338 G 338

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 45.6 bits (108), Expect = 4e-06
 Identities = 26/56 (46%), Positives = 32/56 (57%)

Query: 331 NLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           +         F    E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 41  DEPYNISQSAFKKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 46.6 bits (111), Expect = 4e-06
 Identities = 20/56 (35%), Positives = 34/56 (60%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           L+E +E  +  EEE ++EE+ E E+ E+ E++E E   E    + EEE  +E++ K
Sbjct: 69  LKERKEALKLLEEENDDEEDAETEDTEDVEDDEWEGFPEPTVTDYEEEYIDEDKYK 124

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|221333 pfam11942, Spt5_N, Spt5 transcription elongation factor, acidic N-terminal

 Score = 45.1 bits (107), Expect = 4e-06
 Identities = 25/63 (39%), Positives = 40/63 (63%), Gaps = 2/63 (3%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEEEEEEEEEEEKEL 401
           L+ E E ++EEEEEEEEE++ E+  +E+E  +E E E++      +   E+EEEE+ +EL
Sbjct: 2   LDTEAEVDDEEEEEEEEEDDLEDLSDEDEFIDEAEAEDDRRHRRLDRRREKEEEEDAEEL 61

Query: 402 ENE 404
              
Sbjct: 62  AEY 64

This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4. Length = 92

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 48.5 bits (116), Expect = 4e-06
 Identities = 23/72 (31%), Positives = 41/72 (56%), Gaps = 15/72 (20%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEE---------------EEEEEEEEEEEEEEEEEEEE 389
           E+E+++ ++  +EEE+EE+EEE+ +               EE+E+ + E+EE+   E EE
Sbjct: 27  EDEDDDVKDSWDEEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLRELEE 86

Query: 390 EEEEEEEEEKEL 401
           +  E+E  EK  
Sbjct: 87  DTPEDELAEKLR 98

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 49.6 bits (118), Expect = 5e-06
 Identities = 27/63 (42%), Positives = 37/63 (58%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G E+E E E  EE EE E+E E E E + E E E + +E E E E E E +E+E+E E++
Sbjct: 725 GTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQ 784

Query: 403 NEG 405
              
Sbjct: 785 AGE 787

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 46.8 bits (111), Expect = 5e-06
 Identities = 31/94 (32%), Positives = 54/94 (57%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKL 412
           ++E+  +E E+ ++E++E++EEEEEE+EEE EE E+ E+EEE  E++E E E   D V L
Sbjct: 32  DKEDIIKENEDVKDEKQEDDEEEEEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDL 91

Query: 413 REMLIRTNMEDMREKTHCRHYELYRKKRLEEESN 446
           +++  +   +            L  K   + E +
Sbjct: 92  KDIEKKNINDIFNSTQDDNAQNLISKNYKKNEKS 125

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 47.0 bits (112), Expect = 5e-06
 Identities = 27/63 (42%), Positives = 42/63 (66%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            G ++  + EE++   ++ E EEEE EE ++ EE+ E E +EEEE EEE E+++EEE+  
Sbjct: 3   IGAKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERK 62

Query: 402 ENE 404
           E E
Sbjct: 63  ERE 65

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 46.1 bits (109), Expect = 5e-06
 Identities = 17/59 (28%), Positives = 28/59 (47%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                     E  EE E  + +E+ +E  E +  +E +EEEE +E  +E  +E + E E
Sbjct: 61  GPAAAATAAAEAAEEAEAADADEDADEAAEADAADEADEEEETDEAVDETADEADAEAE 119

Length = 131

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 48.7 bits (116), Expect = 5e-06
 Identities = 16/61 (26%), Positives = 32/61 (52%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + E+ E+E++ +E+E++++ EEEE    +   E+ +   EE E  E E  E    +  + 
Sbjct: 220 DSEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGEMEAAEASADDTPDS 279

Query: 405 G 405
            
Sbjct: 280 D 280

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 49.4 bits (118), Expect = 5e-06
 Identities = 23/62 (37%), Positives = 38/62 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +E E++   +     E E+   E ++EEEE+EEEEEEE+E+E   +E  ++EE +E + 
Sbjct: 364 AKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEEDDV 423

Query: 404 EG 405
           E 
Sbjct: 424 ES 425

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|220377 pfam09747, DUF2052, Coiled-coil domain containing protein (DUF2052)

 Score = 47.0 bits (112), Expect = 5e-06
 Identities = 28/54 (51%), Positives = 33/54 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            EE  EEEEE+ EEE EEEEEE +     EEEEE+ +  +E    EE EE  EE
Sbjct: 79  EEESAEEEEEDPEEENEEEEEEYQRGPFGEEEEEDGDSYDELPTPEEREELREE 132

This entry is of sequences of two conserved domains separated by a region of low complexity, spanning some 200 residues. The function is unknown. Length = 178

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 49.2 bits (117), Expect = 5e-06
 Identities = 9/59 (15%), Positives = 13/59 (22%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E                  E    E       ++     +   E+  EE E    E E
Sbjct: 128 PESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPE 186

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.8 bits (116), Expect = 5e-06
 Identities = 6/60 (10%), Positives = 9/60 (15%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
               E       E                  E    E       ++     +   E   E
Sbjct: 117 GLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPE 176

Length = 413

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 48.8 bits (117), Expect = 5e-06
 Identities = 38/124 (30%), Positives = 60/124 (48%), Gaps = 23/124 (18%)

Query: 344 LEEEEEEEEEEEEEEEEE-------------EEEEEEEEEEEEEEEEEEEEE-----EEE 385
            +EE E +E ++E+EE E             EE+ EE+EE  +EE  EEE E     E++
Sbjct: 209 YQEEYERKERQKEKEEAEKRRRQKQELQRAREEQIEEKEERLQEERAEEEAERERMLEKQ 268

Query: 386 EEEEEEEEEEEEEKELENEGHCDFVKL-----REMLIRTNMEDMREKTHCRHYELYRKKR 440
            E+EE E+E  E++ ++   H   ++       E       E++ E    R  E  R+ R
Sbjct: 269 AEDEELEQENAEKRRMKRLEHRRELEQQIEEKEERRAAEREEELEEGERLREEEAERQAR 328

Query: 441 LEEE 444
           +EEE
Sbjct: 329 IEEE 332

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 48.5 bits (115), Expect = 5e-06
 Identities = 24/60 (40%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            + + EEEE  EE +  EEEE+EE   +   E   E  EEEEEE E  ++ E+  + E E
Sbjct: 172 PDVDNEEEERLEESDGREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGEDVVDYEGE 231

Length = 279

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.8 bits (118), Expect = 5e-06
 Identities = 26/100 (26%), Positives = 57/100 (57%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +E+ +++E EE+++ EE ++ EEE + +  EE ++ EE++++ EE ++ EE+E++     
Sbjct: 1635 VEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEAL 1694

Query: 404  EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
            +   +  K  E L +   E+ ++    +  E   K + EE
Sbjct: 1695 KKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEE 1734

Length = 2084

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 49.0 bits (117), Expect = 5e-06
 Identities = 14/60 (23%), Positives = 40/60 (66%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            ++ ++  ++  E ++E +  EE E + +EE+ ++EE E++++E+ +E++E+ ++ E + 
Sbjct: 375 NKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDERKK 434

Length = 434

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 48.3 bits (115), Expect = 5e-06
 Identities = 31/75 (41%), Positives = 37/75 (49%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           Y N     E++E   E    E+ EEEE EE EE+EEEE EEE EE E   +  EE  E  
Sbjct: 57  YGNPDPFGEDDEGRIEVRISEDGEEEEVEEGEEDEEEEGEEESEEFEPLGDTPEELTEAS 116

Query: 400 ELENEGHCDFVKLRE 414
           E   E    F  + E
Sbjct: 117 EQLEEHEEGFQAMVE 131

Length = 306

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 49.2 bits (117), Expect = 5e-06
 Identities = 32/86 (37%), Positives = 47/86 (54%), Gaps = 14/86 (16%)

Query: 344 LEEEEEEEEEEEEEE-------------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
            ++EEEEEE+E  E+             E E   E+  ++E E++EE++ EEEE  EE+E
Sbjct: 115 ADDEEEEEEDESLEDEMIDDEDEADLFNESESSLEDLSDDETEDDEEKKMEEEEAGEEKE 174

Query: 391 EEEEEEEEKELENEGHCD-FVKLREM 415
             E+   EK+ +  G  D F KL EM
Sbjct: 175 SVEQATREKKFDKSGVDDKFFKLDEM 200

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 47.7 bits (114), Expect = 5e-06
 Identities = 24/73 (32%), Positives = 40/73 (54%), Gaps = 14/73 (19%)

Query: 345 EEEEEEEEEEEEEEE--------------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           +EEE+EE+EEE+ +               EE+E+ + E+EE+   E EE+  E+E  E+ 
Sbjct: 38  DEEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKGLRELEEDTPEDELAEKL 97

Query: 391 EEEEEEEEKELEN 403
              + +EE +L N
Sbjct: 98  RLRKLQEESDLNN 110

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|239286 cd02988, Phd_like_VIAF, Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis

 Score = 47.3 bits (113), Expect = 5e-06
 Identities = 17/48 (35%), Positives = 28/48 (58%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            +    +EEEEE  E   +E  E   E++  +E +EE +EEE+++ LE
Sbjct: 15  PKPPSPKEEEEEALELAIQEAHENALEKKLLDELDEELDEEEDDRFLE 62

It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain. Length = 192

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 45.7 bits (108), Expect = 6e-06
 Identities = 17/64 (26%), Positives = 28/64 (43%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E    E+          E  EE E  + +E+ +E  E +  +E +EEEE +E   E  +E
Sbjct: 54  EAGRAEKGPAAAATAAAEAAEEAEAADADEDADEAAEADAADEADEEEETDEAVDETADE 113

Query: 405 GHCD 408
              +
Sbjct: 114 ADAE 117

Length = 131

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.8 bits (116), Expect = 6e-06
 Identities = 5/60 (8%), Positives = 10/60 (16%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
             E       E                  E    E       ++     +   ++   E 
Sbjct: 119 SPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEP 178

Length = 413

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 46.8 bits (111), Expect = 6e-06
 Identities = 22/58 (37%), Positives = 33/58 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           +EEE+ + + EE EE+EEE E+ E+  +EE+EE EE EEE     +      +    E
Sbjct: 19  DEEEDWDSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSSKSSSQE 76

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 49.2 bits (117), Expect = 6e-06
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +E  EE  ++ E E+EE+ ++++  E E+EE+ E E E +E    +E E  + E +  E 
Sbjct: 197 MELAEEMGDDTESEDEEDGDDDQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEE 256

Query: 404 EG 405
           E 
Sbjct: 257 EM 258

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 48.3 bits (115), Expect = 6e-06
 Identities = 23/58 (39%), Positives = 30/58 (51%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
               E  ++     +   E++E   E    E+ EEEE EE EE+EEEE EEE EE E 
Sbjct: 47  LAEPETSDDPYGNPDPFGEDDEGRIEVRISEDGEEEEVEEGEEDEEEEGEEESEEFEP 104

Length = 306

>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein

 Score = 47.8 bits (114), Expect = 6e-06
 Identities = 17/57 (29%), Positives = 35/57 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             + +  +++ ++++ E+E      E E+ ++E  EE+E EEEE+  EEE+  E+E+
Sbjct: 125 SSDSDSSDDDSDDDDSEDETAALLRELEKIKKERAEEKEREEEEKAAEEEKAREEEI 181

This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing. Length = 241

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 45.8 bits (109), Expect = 6e-06
 Identities = 13/53 (24%), Positives = 38/53 (71%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +EE    EE+ ++++++  + +++  +++   +++ +EE+ +EE++E+EE+EE
Sbjct: 77  DEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 49.2 bits (117), Expect = 7e-06
 Identities = 27/63 (42%), Positives = 34/63 (53%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E E+E E E + E E E E   E + E+E E E E +E + + E E EE E E E E EG
Sbjct: 666 EAEQEGETETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEG 725

Query: 406 HCD 408
             D
Sbjct: 726 TED 728

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 49.2 bits (117), Expect = 7e-06
 Identities = 29/60 (48%), Positives = 35/60 (58%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E+E E E E +E + + E E EE E E E E E  E+E E E  EE EE E+E E E EG
Sbjct: 692 EQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEG 751

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.4 bits (115), Expect = 7e-06
 Identities = 6/61 (9%), Positives = 10/61 (16%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L      E       E                  E    E       ++     +   E+
Sbjct: 114 LASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHED 173

Query: 404 E 404
            
Sbjct: 174 S 174

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.4 bits (115), Expect = 7e-06
 Identities = 9/63 (14%), Positives = 10/63 (15%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +G E             EE       E       E                  E    E 
Sbjct: 95  SGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPES 154

Query: 402 ENE 404
            N 
Sbjct: 155 HNP 157

Length = 413

>gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional

 Score = 48.5 bits (116), Expect = 7e-06
 Identities = 10/61 (16%), Positives = 43/61 (70%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            + ++++++E+++E++++++ ++E+EE++E +E E+  ++++   +E++ E   +   + 
Sbjct: 145 DDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEKLSDDDDFVWDEDDSEALRQARKDA 204

Query: 404 E 404
           +
Sbjct: 205 K 205

Length = 509

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 49.0 bits (116), Expect = 7e-06
 Identities = 29/104 (27%), Positives = 58/104 (55%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EEE + +  EE ++ EE++++ EE ++ EE+E++  E  ++E EE ++ EE ++KE E +
Sbjct: 1656 EEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEEK 1715

Query: 405  GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVI 448
               + +K  E   +   E+ +++      +    K+ EEE   I
Sbjct: 1716 KKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKI 1759

Length = 2084

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 48.3 bits (115), Expect = 7e-06
 Identities = 24/57 (42%), Positives = 32/57 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           E E  ++     +   E++E   E    E+ EEEE EE EE+EEEE EEE EE + L
Sbjct: 49  EPETSDDPYGNPDPFGEDDEGRIEVRISEDGEEEEVEEGEEDEEEEGEEESEEFEPL 105

Length = 306

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 47.0 bits (111), Expect = 7e-06
 Identities = 26/61 (42%), Positives = 37/61 (60%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHC 407
           +E EE EE  E E  EE+ +E E++EE+E E EE+  EE+ ++ E E  E+ E E E   
Sbjct: 133 QEREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDD 192

Query: 408 D 408
           D
Sbjct: 193 D 193

Length = 197

>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)

 Score = 44.6 bits (106), Expect = 7e-06
 Identities = 7/56 (12%), Positives = 42/56 (75%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           + E+  +++E+EE+E++   +++++++++++  + ++++ + ++++++  E+++ E
Sbjct: 49  DAEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDLDDDDVDLDDDDDDFLEDDDDE 104

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown. Length = 104

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 48.9 bits (117), Expect = 7e-06
 Identities = 26/59 (44%), Positives = 30/59 (50%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE E   EE E+   E EE +EE EE+     EE EE  E   EE  E E E  E+ NE
Sbjct: 340 EERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNE 398

Length = 1163

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 46.1 bits (108), Expect = 7e-06
 Identities = 34/56 (60%), Positives = 37/56 (66%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           NG + ++E EEEEE E EEE EEE E EEE EEE E EE  EEE E E E E E E
Sbjct: 56  NGTDPDDEPEEEEEPEPEEEGEEEPEPEEEGEEEPEPEETGEEEPEPEPEPEPEPE 111

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 46.4 bits (110), Expect = 8e-06
 Identities = 24/59 (40%), Positives = 39/59 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           EEE+EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++   +     ++   +N
Sbjct: 55  EEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNINDIFNSTQDDNAQN 113

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.4 bits (115), Expect = 8e-06
 Identities = 10/61 (16%), Positives = 20/61 (32%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
               + E        +   +E  E +    ++      ++  E E+E  E E +     G
Sbjct: 190 PGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEPEREGPPFPG 249

Query: 406 H 406
           H
Sbjct: 250 H 250

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.4 bits (115), Expect = 8e-06
 Identities = 7/62 (11%), Positives = 11/62 (17%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
              E                  E    E       ++     +   E+  EE E      
Sbjct: 126 SSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEP 185

Query: 403 NE 404
             
Sbjct: 186 EP 187

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.4 bits (115), Expect = 8e-06
 Identities = 8/61 (13%), Positives = 13/61 (21%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                          E    E       ++     +   E+  EE E    E E +    
Sbjct: 133 SHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGP 192

Query: 405 G 405
            
Sbjct: 193 P 193

Length = 413

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 48.7 bits (116), Expect = 8e-06
 Identities = 20/59 (33%), Positives = 32/59 (54%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +G +++ +  E+ E   EE E  +E EE+E E  + E EE E +  E  E+ E +E  E
Sbjct: 235 DGDDDQPDNNEDSEAGREESEGSDESEEDEAEATDGEGEEGEMDAAEASEDSESDESDE 293

Length = 620

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 45.7 bits (107), Expect = 8e-06
 Identities = 37/60 (61%), Positives = 38/60 (63%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E EEEEE E EEE EEE E EEE EEE E EE  EEE E E E E E E E E E E E
Sbjct: 62  DEPEEEEEPEPEEEGEEEPEPEEEGEEEPEPEETGEEEPEPEPEPEPEPEPEPEPEPEPE 121

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function unknown]

 Score = 48.5 bits (116), Expect = 8e-06
 Identities = 31/110 (28%), Positives = 49/110 (44%), Gaps = 11/110 (10%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-EEEEEEEEKELE 402
           L + +EEE   E+E  EEEE  E    E+  ++ EE  E  EEE  E + E EE ++E+E
Sbjct: 394 LSKVKEEERPREKEGTEEEERREITVYEKRIKKLEETVERLEEENSELKRELEELKREIE 453

Query: 403 N-EGHCDFVKLR---EMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVI 448
             E   +  +     ++     +         R   L  +K LEE+   +
Sbjct: 454 KLESELERFRREVRDKVRKDREIRARDR----RIERL--EKELEEKKKRV 497

Length = 652

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 48.8 bits (116), Expect = 9e-06
 Identities = 27/59 (45%), Positives = 33/59 (55%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + E+E E E E +E + + E E EE E E E E E  E+E E E  EE EE E E E E
Sbjct: 690 KGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGE 748

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 48.8 bits (116), Expect = 9e-06
 Identities = 28/60 (46%), Positives = 34/60 (56%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G +E E E E +E + + E E EE E E E E E  E+E E E  EE EE E+E E E E
Sbjct: 691 GEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAE 750

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit Rpc31

 Score = 47.1 bits (112), Expect = 9e-06
 Identities = 16/39 (41%), Positives = 31/39 (79%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 377
           K      E+ +EE+E++EEEEEEEEEE+E+ ++++++++
Sbjct: 159 KLKELEAEDVDEEDEKDEEEEEEEEEEDEDFDDDDDDDD 197

RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA pol III-specific, and form the functionally distinct groups (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in S.cerevisiae and H.sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain. Length = 221

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 47.0 bits (112), Expect = 9e-06
 Identities = 23/55 (41%), Positives = 35/55 (63%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
             E++E++ + E+E+EE EEE EEE+EE  +E E+E EE+ E   E+E      K
Sbjct: 74  NSEDKEDKGDAEKEDEESEEENEEEDEESSDENEKETEEKTESNVEKEITNPSWK 128

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 48.0 bits (115), Expect = 9e-06
 Identities = 26/100 (26%), Positives = 47/100 (47%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E      ++EE E+E EE +E   +  +EE E +E ++E+EE E+   +++E +   E
Sbjct: 181 EREVARLRAQQEEAEDEREELDELRADLYQEEYERKERQKEKEEAEKRRRQKQELQRARE 240

Query: 405 GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
              +  + R    R   E  RE+   +  E    ++   E
Sbjct: 241 EQIEEKEERLQEERAEEEAERERMLEKQAEDEELEQENAE 280

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 48.9 bits (116), Expect = 9e-06
 Identities = 24/65 (36%), Positives = 45/65 (69%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           ++E+E+E++++EE++EEEEEEEEE +  ++E+EE+E  E+   E+ E ++ +  +    G
Sbjct: 156 DDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGEDFTYEKSEVDKTDCFKFIEAG 215

Query: 406 HCDFV 410
             D V
Sbjct: 216 AGDDV 220

Length = 2849

>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230; Provisional

 Score = 48.9 bits (116), Expect = 9e-06
 Identities = 23/71 (32%), Positives = 45/71 (63%)

Query: 325 NPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
              + +   S  D    +  +E+E+E++++EE++EEEEEEEEE +  ++E+EE+E  E+ 
Sbjct: 137 ARHLAEEDMSPRDNFVIDDDDEDEDEDDDDEEDDEEEEEEEEEIKGFDDEDEEDEGGEDF 196

Query: 385 EEEEEEEEEEE 395
             E+ E ++ +
Sbjct: 197 TYEKSEVDKTD 207

Length = 2849

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 45.4 bits (108), Expect = 9e-06
 Identities = 17/31 (54%), Positives = 28/31 (90%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
            EE+E +++EE+EEEE++EE+++E+E EEEE
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 46.6 bits (110), Expect = 9e-06
 Identities = 23/58 (39%), Positives = 38/58 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           + +E+ E+  +E EE EE  E E  EE+ +E E++EE+E E EE+  EE+ ++ E E+
Sbjct: 123 IRQEQIEKARQEREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEI 180

Length = 197

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 46.6 bits (110), Expect = 9e-06
 Identities = 24/59 (40%), Positives = 38/59 (64%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           LEE  E E  EE+ +E E++EE+E E EE+  EE+ ++ E E  E++E E E ++ + E
Sbjct: 138 LEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDDDKTE 196

Length = 197

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 48.5 bits (116), Expect = 1e-05
 Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 14/75 (18%)

Query: 345 EEEEEEEEEE--------------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           EEE  +EE E               EEE++EEEE+ +E  ++ ++E E ++++     + 
Sbjct: 260 EEELAKEEAERLKKLEAERLRRMRGEEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQG 319

Query: 391 EEEEEEEEKELENEG 405
           EE+EEEEE  +++E 
Sbjct: 320 EEDEEEEEDGVDDED 334

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 48.5 bits (115), Expect = 1e-05
 Identities = 28/60 (46%), Positives = 34/60 (56%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E + E+E E E E +E + + E E EE E E E E E  E+E E E  EE EE E E EG
Sbjct: 688 ERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEG 747

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 48.5 bits (115), Expect = 1e-05
 Identities = 26/66 (39%), Positives = 34/66 (51%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G E E   E E E  EE   E E+E E E + E E E E   E + E+E E E E KE +
Sbjct: 646 GEEGERPTEAEGENGEESGGEAEQEGETETKGENESEGEIPAERKGEQEGEGEIEAKEAD 705

Query: 403 NEGHCD 408
           ++G  +
Sbjct: 706 HKGETE 711

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 48.1 bits (114), Expect = 1e-05
 Identities = 25/61 (40%), Positives = 32/61 (52%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE   E E+E E E + E E E E   E + E+E E E E +E + + E E EE E E E
Sbjct: 661 EESGGEAEQEGETETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGE 720

Query: 405 G 405
            
Sbjct: 721 T 721

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 46.3 bits (110), Expect = 1e-05
 Identities = 22/52 (42%), Positives = 34/52 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
            E++E++ + E+E+EE EEE EEE+EE  +E E+E EE+ E   E+E     
Sbjct: 75  SEDKEDKGDAEKEDEESEEENEEEDEESSDENEKETEEKTESNVEKEITNPS 126

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 48.2 bits (115), Expect = 1e-05
 Identities = 21/60 (35%), Positives = 37/60 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            + +E E++   +     E E+   E ++EEEE+EEEEEEE+E+E   +E  +++E E +
Sbjct: 362 TKAKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSDDEEFEED 421

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 48.0 bits (114), Expect = 1e-05
 Identities = 10/61 (16%), Positives = 20/61 (32%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E +     + E        +   +E  E +    ++      ++  E E+E  E E E  
Sbjct: 186 EPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEPEREGP 245

Query: 405 G 405
            
Sbjct: 246 P 246

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 47.7 bits (113), Expect = 1e-05
 Identities = 9/61 (14%), Positives = 17/61 (27%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E       ++     +   E+  EE E    E E +     + E        +   +  
Sbjct: 152 PESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEP 211

Query: 405 G 405
           G
Sbjct: 212 G 212

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 47.7 bits (113), Expect = 1e-05
 Identities = 6/61 (9%), Positives = 7/61 (11%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E             EE       E       E                  E      + 
Sbjct: 97  SESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHN 156

Query: 405 G 405
            
Sbjct: 157 P 157

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 47.7 bits (113), Expect = 1e-05
 Identities = 11/63 (17%), Positives = 20/63 (31%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            L+   E+  EE E    E E +     + E        +   +E  E +    ++    
Sbjct: 166 FLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSP 225

Query: 403 NEG 405
           N  
Sbjct: 226 NTQ 228

Length = 413

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 47.3 bits (112), Expect = 1e-05
 Identities = 26/67 (38%), Positives = 34/67 (50%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
              Y  G  E  EEEEEE E  ++ E+  + E E  ++++ EEEE EEE     E E EE
Sbjct: 198 SDSYGEGNRELNEEEEEEAEGSDDGEDVVDYEGERIDKKQGEEEEMEEEVINLFEIEWEE 257

Query: 397 EEKELEN 403
           E    E 
Sbjct: 258 ESPSEEV 264

Length = 279

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 48.1 bits (115), Expect = 1e-05
 Identities = 14/60 (23%), Positives = 42/60 (70%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            ++ + EEE ++E   ++   + EE+++++EE +EE+EE  + E++E++++++++ ++  
Sbjct: 101 FDDGDIEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIAT 160

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 45.5 bits (108), Expect = 1e-05
 Identities = 17/50 (34%), Positives = 32/50 (64%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            ++EEEE EEE  +E E+E+  E + E +E+++ E  + + E+E+ + E 
Sbjct: 94  SDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEP 143

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 48.4 bits (115), Expect = 1e-05
 Identities = 33/89 (37%), Positives = 49/89 (55%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           K    L EEE+   E+EE+ +EEE EE   E +EE++ E+  EEE E  EEE  +EE  +
Sbjct: 812 KEEAELLEEEQLLIEQEEKIKEEELEELALELKEEQKLEKLAEEELERLEEEITKEELLQ 871

Query: 399 KELENEGHCDFVKLREMLIRTNMEDMREK 427
           + L  E   +  KL++ L     ++  EK
Sbjct: 872 ELLLKEEELEEQKLKDELESKEEKEKEEK 900

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 47.9 bits (114), Expect = 1e-05
 Identities = 16/67 (23%), Positives = 41/67 (61%), Gaps = 4/67 (5%)

Query: 342 NGLEEEEE----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           +G + +E      ++ ++  ++  E ++E +  EE E + +EE+ ++EE E++++E+ +E
Sbjct: 363 SGDKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADE 422

Query: 398 EKELENE 404
           +KE   +
Sbjct: 423 DKEKRQK 429

Length = 434

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 45.8 bits (108), Expect = 1e-05
 Identities = 23/60 (38%), Positives = 39/60 (65%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E+ E+  +E EE EE  E E  EE+ +E E++EE+E E EE+  EE+ ++ E + +E +
Sbjct: 125 QEQIEKARQEREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQD 184

Length = 197

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 44.1 bits (104), Expect = 1e-05
 Identities = 25/46 (54%), Positives = 32/46 (69%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E 
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLED 97

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 44.1 bits (104), Expect = 1e-05
 Identities = 26/55 (47%), Positives = 36/55 (65%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           + +N  +   ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 42  EPYNISQSAFKKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 48.2 bits (115), Expect = 1e-05
 Identities = 26/65 (40%), Positives = 32/65 (49%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
               E EE EE  EE +E+ E  +EE EE E   EE E+   E EE +EE EE+      
Sbjct: 313 ELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLE 372

Query: 402 ENEGH 406
           E E  
Sbjct: 373 ELEEL 377

Length = 1163

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 45.0 bits (107), Expect = 1e-05
 Identities = 20/71 (28%), Positives = 42/71 (59%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++E E++ +E +E  +  EEE ++EE+ E E+ E+ E++E E   E    + EE+ ++ +
Sbjct: 62  KQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVEDDEWEGFPEPTVTDYEEEYIDED 121

Query: 405 GHCDFVKLREM 415
            +   V + E+
Sbjct: 122 KYKTTVTVEEL 132

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 45.0 bits (107), Expect = 1e-05
 Identities = 19/62 (30%), Positives = 34/62 (54%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           + EE ++E E++ +E +E  +  EEE ++EE+ E E+ E+ E++E E   E       E 
Sbjct: 57  IREERKQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVEDDEWEGFPEPTVTDYEEE 116

Query: 404 EG 405
             
Sbjct: 117 YI 118

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|218684 pfam05672, MAP7, MAP7 (E-MAP-115) family

 Score = 45.9 bits (108), Expect = 1e-05
 Identities = 31/99 (31%), Positives = 51/99 (51%), Gaps = 4/99 (4%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E+ E+EE+E  E+EE++  E EE +    EE    EEE   +EEE   E+EE+ + + E 
Sbjct: 37  EQREQEEQERREQEEQDRLEREELKRRAAEERLRREEEARRQEEERAREKEEKAKRKAEE 96

Query: 406 HCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
                + +E   +  ++  +E+   R  E   + RLE E
Sbjct: 97  E----EKQEQEEQERIQKQKEEAEARAREEAERMRLERE 131

The organisation of microtubules varies with the cell type and is presumably controlled by tissue-specific microtubule-associated proteins (MAPs). The 115-kDa epithelial MAP (E-MAP-115/MAP7) has been identified as a microtubule-stabilising protein predominantly expressed in cell lines of epithelial origin. The binding of this microtubule associated protein is nucleotide independent. Length = 171

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 47.5 bits (113), Expect = 1e-05
 Identities = 23/57 (40%), Positives = 35/57 (61%), Gaps = 4/57 (7%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCD----FVK 411
            ++  E+EE E++  +E+EE+E   EE+E E  EEEE+EE E++     D    FVK
Sbjct: 31  AQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGEVKASPDADTTILFVK 87

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 47.1 bits (112), Expect = 1e-05
 Identities = 20/48 (41%), Positives = 30/48 (62%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
            G     ++  E+EE E++  +E+EE+E   EE+E E  EEEE+EE E
Sbjct: 25  KGPFASAQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGE 72

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated

 Score = 48.3 bits (116), Expect = 1e-05
 Identities = 18/50 (36%), Positives = 28/50 (56%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
             +   EE+      E EE +++E+EEEEE+E ++    +E E  EK LE
Sbjct: 173 FVDPNAEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESELPEKVLE 222

Length = 619

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 44.9 bits (107), Expect = 1e-05
 Identities = 20/56 (35%), Positives = 35/56 (62%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E+ + E+++EE++ E E+  +   EE+ E E E+ E+E EE E E   +EL+ E
Sbjct: 18  AKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKAE 73

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.6 bits (114), Expect = 1e-05
 Identities = 21/43 (48%), Positives = 28/43 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           L +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 278 LADKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.6 bits (114), Expect = 1e-05
 Identities = 21/39 (53%), Positives = 26/39 (66%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
           + L+EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 282 DALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 47.2 bits (113), Expect = 1e-05
 Identities = 20/41 (48%), Positives = 27/41 (65%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 48.1 bits (114), Expect = 1e-05
 Identities = 13/56 (23%), Positives = 20/56 (35%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E  E + E E+  +   +     + + E      EE      E  +E E E  EK 
Sbjct: 365 ETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKA 420

Length = 460

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 48.1 bits (114), Expect = 2e-05
 Identities = 30/60 (50%), Positives = 35/60 (58%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E E EE E E E E E  E+E E E  EE EE E+E E E E + E E E + KE E+EG
Sbjct: 709 ETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEG 768

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 47.7 bits (113), Expect = 2e-05
 Identities = 30/67 (44%), Positives = 36/67 (53%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
               G  E E  E+E E E  EE EE E+E E E E + E E E + +E E E E E E 
Sbjct: 715 VEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEG 774

Query: 399 KELENEG 405
           KE E+EG
Sbjct: 775 KEDEDEG 781

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 47.7 bits (113), Expect = 2e-05
 Identities = 28/60 (46%), Positives = 35/60 (58%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E +E + + E E EE E E E E E  E+E E E  EE EE E+E E E E + E+E EG
Sbjct: 700 EAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEG 759

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 47.7 bits (113), Expect = 2e-05
 Identities = 25/64 (39%), Positives = 31/64 (48%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
              E E + E E E E   E + E+E E E E +E + + E E EE E E E E E  E 
Sbjct: 669 QEGETETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTED 728

Query: 402 ENEG 405
           E E 
Sbjct: 729 EGEI 732

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 47.3 bits (112), Expect = 2e-05
 Identities = 26/61 (42%), Positives = 32/61 (52%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E E E   E + E+E E E E +E + + E E EE E E E E E  E+E E E   E
Sbjct: 678 ENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEE 737

Query: 405 G 405
           G
Sbjct: 738 G 738

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2

 Score = 45.4 bits (108), Expect = 2e-05
 Identities = 18/53 (33%), Positives = 31/53 (58%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
            +  +E  +EEE +  ++E++EE + EEE+     +EEE + E E E + E E
Sbjct: 19  EDEDDESSDEEEVDLPDDEQDEESDSEEEQIFVTRQEEEVDPEAEAEFDREFE 71

Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay. Length = 171

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 47.0 bits (112), Expect = 2e-05
 Identities = 23/44 (52%), Positives = 35/44 (79%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEE+E ++EG
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEG 317

Length = 319

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 46.6 bits (111), Expect = 2e-05
 Identities = 21/45 (46%), Positives = 33/45 (73%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            +EE+ EE  E+ EEEEEE++  E E+E+EE+E+EEEE++ +   
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGD 318

Length = 319

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 47.3 bits (112), Expect = 2e-05
 Identities = 8/61 (13%), Positives = 13/61 (21%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                     E    E       ++     +   E+  EE E    E E +         
Sbjct: 138 PSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSET 197

Query: 405 G 405
            
Sbjct: 198 P 198

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 47.3 bits (112), Expect = 2e-05
 Identities = 9/64 (14%), Positives = 18/64 (28%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           N    ++     +   E+  EE E    E E +     + E        +   +E  +  
Sbjct: 156 NPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQ 215

Query: 402 ENEG 405
               
Sbjct: 216 SPTP 219

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 47.3 bits (112), Expect = 2e-05
 Identities = 6/60 (10%), Positives = 7/60 (11%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                      EE       E       E                  E    E    +  
Sbjct: 101 GSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPN 160

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 47.3 bits (112), Expect = 2e-05
 Identities = 9/61 (14%), Positives = 15/61 (24%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                    E    E       ++     +   E+  EE E    E E +     + E  
Sbjct: 139 SPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETP 198

Query: 405 G 405
            
Sbjct: 199 T 199

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 7/61 (11%), Positives = 8/61 (13%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
              E             EE       E       E                  +    E 
Sbjct: 95  SGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPES 154

Query: 406 H 406
           H
Sbjct: 155 H 155

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 9/61 (14%), Positives = 15/61 (24%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              E    E       ++     +   E+  EE E    E E +     + E        
Sbjct: 145 GPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPP 204

Query: 405 G 405
            
Sbjct: 205 Q 205

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 9/60 (15%), Positives = 15/60 (25%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E    E       ++     +   E+  EE E    E E +     + E           
Sbjct: 148 EPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSP 207

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 9/61 (14%), Positives = 15/61 (24%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                  E    E       ++     +   E+  EE E    E E +     + E    
Sbjct: 141 PSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTS 200

Query: 405 G 405
            
Sbjct: 201 S 201

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 10/58 (17%), Positives = 19/58 (32%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           G  + E        +   +E  E +    ++      ++  E E+E  E E E     
Sbjct: 191 GPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEPEREGPPFP 248

Length = 413

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 11/60 (18%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E ++++  E+E  ++ E+E    +E++++ EE  ++   ++++ EE   +     + + E
Sbjct: 91  ELQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAE 150

Length = 387

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 46.7 bits (111), Expect = 2e-05
 Identities = 12/61 (19%), Positives = 34/61 (55%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L++++  E+E  ++ E+E    +E++++ EE  ++   ++++ EE   +     + + E 
Sbjct: 92  LQQKQAAEQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEA 151

Query: 404 E 404
           E
Sbjct: 152 E 152

Length = 387

>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional

 Score = 47.9 bits (114), Expect = 2e-05
 Identities = 27/92 (29%), Positives = 44/92 (47%), Gaps = 2/92 (2%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEEEEK 399
               EEE+EEE E        + +++E   E+E+E+EE++EE E   + E  + E+   K
Sbjct: 7   TQANEEEDEEELEAVARSAGSDSDDDEVPAEDEDEDEEDDEEAESPAKAEISKREKARLK 66

Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCR 431
           EL+ +   +  K+ E        DM  K   R
Sbjct: 67  ELKKQKKQEIQKILEQQNAAIDADMNNKGKGR 98

Length = 1033

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 45.6 bits (108), Expect = 2e-05
 Identities = 25/65 (38%), Positives = 41/65 (63%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE E+E+E  E E E+  E++E+EE  +EEE+EEE E+ +++E    + ++  KE+  E
Sbjct: 61  YEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAEDVKQQEVFSFKRKKPFKEMNLE 120

Query: 405 GHCDF 409
              DF
Sbjct: 121 EKIDF 125

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 47.3 bits (113), Expect = 2e-05
 Identities = 14/55 (25%), Positives = 38/55 (69%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            + EEE ++E   ++   + EE+++++EE +EE+EE  + E++E+++++ + ++ 
Sbjct: 104 GDIEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDI 158

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 47.3 bits (113), Expect = 2e-05
 Identities = 14/55 (25%), Positives = 38/55 (69%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            + EEE ++E   ++   + EE+++++EE +EE+EE  + E++E++++ + +++ 
Sbjct: 104 GDIEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDI 158

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|218258 pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA binding family

 Score = 43.6 bits (103), Expect = 2e-05
 Identities = 27/55 (49%), Positives = 36/55 (65%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
             EE+ EEEE+ E EE++  EEE  +E   EEEE EEEE++E   EE E+  +EK
Sbjct: 37  LTEEQGEEEEKNEVEEKQAVEEEANKEGVVEEEEVEEEEDKEMTLEEYEKALQEK 91

This family includes the HABP4 family of hyaluronan-binding proteins, and the PAI-1 mRNA-binding protein, PAI-RBP1. HABP4 has been observed to bind hyaluronan (a glucosaminoglycan), but it is not known whether this is its primary role in vivo. It has also been observed to bind RNA, but with a lower affinity than that for hyaluronan. PAI-1 mRNA-binding protein specifically binds the mRNA of type-1 plasminogen activator inhibitor (PAI-1), and is thought to be involved in regulation of mRNA stability. However, in both cases, the sequence motifs predicted to be important for ligand binding are not conserved throughout the family, so it is not known whether members of this family share a common function. Length = 106

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 45.1 bits (107), Expect = 2e-05
 Identities = 18/51 (35%), Positives = 33/51 (64%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            ++EEEE EEE  +E E+E+  E + E +E+++ E  + + E+E+ + E K
Sbjct: 94  SDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPK 144

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 45.1 bits (107), Expect = 2e-05
 Identities = 18/53 (33%), Positives = 34/53 (64%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            ++EEEE EEE  +E E+E+  E + E +E+++ E  + + E+E+ + E +K 
Sbjct: 94  SDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTEPKKP 146

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 48.0 bits (114), Expect = 2e-05
 Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 5/118 (4%)

Query: 330 KNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
                  + K     EEEE+   ++EEEEEE+ E   +E+E  EEEE+ E+ + EEE+EE
Sbjct: 736 NEELKLLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTEKLKVEEEKEE 795

Query: 390 EEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV 447
           + + +EEE + LE E     +K    L+      + ++   +  EL       +E   
Sbjct: 796 KLKAQEEELRALEEE-----LKEEAELLEEEQLLIEQEEKIKEEELEELALELKEEQK 848

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 47.7 bits (113), Expect = 2e-05
 Identities = 34/101 (33%), Positives = 56/101 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+ + EEE+EE+ + +EEE    EEE +EE E  EEE+   E+EE+ +EEE EE  LE +
Sbjct: 785 EKLKVEEEKEEKLKAQEEELRALEEELKEEAELLEEEQLLIEQEEKIKEEELEELALELK 844

Query: 405 GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES 445
                 KL E  +    E++ ++   +   L  ++  E++ 
Sbjct: 845 EEQKLEKLAEEELERLEEEITKEELLQELLLKEEELEEQKL 885

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 47.7 bits (113), Expect = 2e-05
 Identities = 30/85 (35%), Positives = 51/85 (60%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L  E+EE+ +EEE EE   E +EE++ E+  EEE E  EEE  +EE  +E   +E+ELE 
Sbjct: 823 LLIEQEEKIKEEELEELALELKEEQKLEKLAEEELERLEEEITKEELLQELLLKEEELEE 882

Query: 404 EGHCDFVKLREMLIRTNMEDMREKT 428
           +   D ++ +E   +   +++ E++
Sbjct: 883 QKLKDELESKEEKEKEEKKELEEES 907

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 47.5 bits (113), Expect = 2e-05
 Identities = 16/61 (26%), Positives = 38/61 (62%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L  ++ +E  +E  ++ ++  ++  E ++E +  EE E + +EE+ ++EE E+++KE  +
Sbjct: 362 LSGDKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQAD 421

Query: 404 E 404
           E
Sbjct: 422 E 422

Length = 434

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 45.8 bits (108), Expect = 2e-05
 Identities = 22/56 (39%), Positives = 38/56 (67%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +E E  EE+ +E E++EE+E E EE+  EE+ ++ E E  E++E E E ++++ EK
Sbjct: 142 MEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDDDKTEK 197

Length = 197

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 43.8 bits (104), Expect = 2e-05
 Identities = 13/57 (22%), Positives = 41/57 (71%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           ++E +EE    EE+ ++++++  + +++  +++   +++ +EE+ +EE++E+EE++E
Sbjct: 73  VDEIDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 43.3 bits (102), Expect = 2e-05
 Identities = 25/45 (55%), Positives = 32/45 (71%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 43.3 bits (102), Expect = 2e-05
 Identities = 25/45 (55%), Positives = 32/45 (71%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 43.3 bits (102), Expect = 2e-05
 Identities = 25/45 (55%), Positives = 32/45 (71%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 43.3 bits (102), Expect = 2e-05
 Identities = 25/45 (55%), Positives = 32/45 (71%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|239286 cd02988, Phd_like_VIAF, Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis

 Score = 45.3 bits (108), Expect = 2e-05
 Identities = 18/51 (35%), Positives = 28/51 (54%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           L  +    +EEEEE  E   +E  E   E++  +E +EE +EEE++   EE
Sbjct: 13  LPPKPPSPKEEEEEALELAIQEAHENALEKKLLDELDEELDEEEDDRFLEE 63

It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain. Length = 192

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 13/57 (22%), Positives = 20/57 (35%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EE  E + E E+  +   +     + + E      EE      E  +E E E  E  
Sbjct: 364 EETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKA 420

Length = 460

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 11/61 (18%), Positives = 21/61 (34%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +E E+  +   +     + + E      EE      E  +E E E  E+     +    +
Sbjct: 371 IEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPIPDPAKPD 430

Query: 404 E 404
           E
Sbjct: 431 E 431

Length = 460

>gnl|CDD|184539 PRK14150, PRK14150, heat shock protein GrpE; Provisional

 Score = 45.7 bits (109), Expect = 2e-05
 Identities = 20/56 (35%), Positives = 34/56 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EE++  +E+  EE E E E++EE +E E E+E +E +    E E +  E + EE++
Sbjct: 4   EEQKTPQEQVSEEIEAEVEQQEEADEAELEDELDEADARIAELEAQLAEAQAEERD 59

Length = 193

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 47.3 bits (112), Expect = 2e-05
 Identities = 15/49 (30%), Positives = 43/49 (87%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +E EEE  EEE+++EE+++++++E+E++++++++E++E+E++++  L +
Sbjct: 43  KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHD 91

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 16/59 (27%), Positives = 47/59 (79%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE  EEE+++EE+++++++E+E++++++++E++E+E++++    ++   ++  E +NE
Sbjct: 46  EEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGNETDNE 104

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 46.9 bits (111), Expect = 2e-05
 Identities = 15/56 (26%), Positives = 45/56 (80%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +E EEE  EEE+++EE+++++++E+E++++++++E++E+E++++    +    ++G
Sbjct: 43  KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDG 98

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 46.8 bits (111), Expect = 2e-05
 Identities = 19/61 (31%), Positives = 29/61 (47%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +  E+  E  E  E++E +   EE  +EE E+E E +E   EE  E E  E +  +L  
Sbjct: 322 GDYYEDIFEVVEVVEKQEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDDLAE 381

Query: 404 E 404
            
Sbjct: 382 R 382

Length = 388

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 47.2 bits (112), Expect = 2e-05
 Identities = 20/61 (32%), Positives = 45/61 (73%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            + E  +EEE+E+E+ +EE+++++E+ +EE ++ + +EE +E+   +E+E+E+EK++E  
Sbjct: 98  PKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEP 157

Query: 405 G 405
            
Sbjct: 158 R 158

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional

 Score = 46.6 bits (110), Expect = 2e-05
 Identities = 30/83 (36%), Positives = 51/83 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           ++ EEE   ++EEEE+E+ EE EE EE E  EEE +++E+ E+++E+E + E +E EL  
Sbjct: 97  VKNEEERGTQKEEEEDEDVEEIEEVEEVEVVEEEYDDDEDSEKDDEKESDAEGDENELAG 156

Query: 404 EGHCDFVKLREMLIRTNMEDMRE 426
           E   + V     ++  N+  + E
Sbjct: 157 EYIIEEVDDDVAILNENINSIDE 179

Length = 374

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 46.9 bits (111), Expect = 3e-05
 Identities = 26/63 (41%), Positives = 36/63 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
             E + E+E E E E +E + + E E EE E E E E E  E+E E E  EE +E+E+EG
Sbjct: 686 PAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEG 745

Query: 406 HCD 408
             +
Sbjct: 746 EGE 748

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217829 pfam03985, Paf1, Paf1

 Score = 46.7 bits (111), Expect = 3e-05
 Identities = 14/52 (26%), Positives = 25/52 (48%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
              +E EEEE E+ EEE  +  E+   E   +   + E + ++E   + + E
Sbjct: 380 QRSDEHEEEEGEDSEEEGSQSREDGSSESSSDVGSDSESKADKESASDSDSE 431

Members of this family are components of the RNA polymerase II associated Paf1 complex. The Paf1 complex functions during the elongation phase of transcription in conjunction with Spt4-Spt5 and Spt16-Pob3i. Length = 431

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 43.8 bits (103), Expect = 3e-05
 Identities = 17/59 (28%), Positives = 26/59 (44%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  E    E+          E  EE E  + +E+ +E  E +  +E +EEEE  E  +E
Sbjct: 51  EWTEAGRAEKGPAAAATAAAEAAEEAEAADADEDADEAAEADAADEADEEEETDEAVDE 109

Length = 131

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 46.0 bits (109), Expect = 3e-05
 Identities = 15/59 (25%), Positives = 30/59 (50%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           N  E++ +E+E++++ EEEE    +   E+ +   EE E  E E  E   ++  + +  
Sbjct: 224 NEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGEMEAAEASADDTPDSDDA 282

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.9 bits (111), Expect = 3e-05
 Identities = 9/60 (15%), Positives = 20/60 (33%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             E E +     + E        +   +E  E +    ++      ++  E E++  E E
Sbjct: 182 TSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEPE 241

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.9 bits (111), Expect = 3e-05
 Identities = 9/68 (13%), Positives = 20/68 (29%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +     + E        +   +E  E +    ++      ++  E E+E  E E E    
Sbjct: 188 DSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEPEREGPPF 247

Query: 402 ENEGHCDF 409
                  +
Sbjct: 248 PGHRSHSY 255

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.5 bits (110), Expect = 3e-05
 Identities = 12/61 (19%), Positives = 22/61 (36%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E +     + E        +   +E  E +    ++      ++  E E+E  E E E
Sbjct: 184 EPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEPERE 243

Query: 405 G 405
           G
Sbjct: 244 G 244

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.5 bits (110), Expect = 3e-05
 Identities = 4/61 (6%), Positives = 8/61 (13%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                  E       E                  E    E       ++     +    +
Sbjct: 114 LASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPSPNQQPSSFLQPSHED 173

Query: 405 G 405
            
Sbjct: 174 S 174

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.1 bits (109), Expect = 3e-05
 Identities = 8/56 (14%), Positives = 15/56 (26%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             E       ++     +   E+  EE E    E E +     + E        + 
Sbjct: 151 PPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQS 206

Length = 413

>gnl|CDD|218258 pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA binding family

 Score = 42.8 bits (101), Expect = 3e-05
 Identities = 28/59 (47%), Positives = 38/59 (64%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           EE+ EEEE+ E EE++  EEE  +E   EEEE EEEE++E   EE E+  +E+ K L  
Sbjct: 39  EEQGEEEEKNEVEEKQAVEEEANKEGVVEEEEVEEEEDKEMTLEEYEKALQEKRKALPA 97

This family includes the HABP4 family of hyaluronan-binding proteins, and the PAI-1 mRNA-binding protein, PAI-RBP1. HABP4 has been observed to bind hyaluronan (a glucosaminoglycan), but it is not known whether this is its primary role in vivo. It has also been observed to bind RNA, but with a lower affinity than that for hyaluronan. PAI-1 mRNA-binding protein specifically binds the mRNA of type-1 plasminogen activator inhibitor (PAI-1), and is thought to be involved in regulation of mRNA stability. However, in both cases, the sequence motifs predicted to be important for ligand binding are not conserved throughout the family, so it is not known whether members of this family share a common function. Length = 106

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 47.1 bits (111), Expect = 3e-05
 Identities = 27/99 (27%), Positives = 53/99 (53%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE ++ EEE + +  EE ++ EE++++ EE ++ EE+E++  E  ++E EE ++ E   +
Sbjct: 1650 EELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKK 1709

Query: 405  GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
               +  K  E L +   E+  +    +      KK+ EE
Sbjct: 1710 KEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEE 1748

Length = 2084

>gnl|CDD|217450 pfam03247, Prothymosin, Prothymosin/parathymosin family

 Score = 43.4 bits (102), Expect = 3e-05
 Identities = 29/61 (47%), Positives = 38/61 (62%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  EE+E  +       E EE   +E ++E EEEEE +E++EEEE E EEEE E+E E E
Sbjct: 21  EVVEEKENGKNAPANGNENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEEEGEEEEETE 80

Query: 405 G 405
           G
Sbjct: 81  G 81

Prothymosin alpha and parathymosin are two ubiquitous small acidic nuclear proteins that are thought to be involved in cell cycle progression, proliferation, and cell differentiation. Length = 106

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 44.9 bits (106), Expect = 3e-05
 Identities = 21/57 (36%), Positives = 32/57 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            EE+ + + EE EE+EEE E+ E+  +EE+EE EE EEE     +      +   +E
Sbjct: 20  EEEDWDSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSSKSSSQE 76

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 44.0 bits (104), Expect = 3e-05
 Identities = 17/48 (35%), Positives = 30/48 (62%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            ++EEEE EEE  +E E+E+  E + E +E+++ E  + + E+EK   
Sbjct: 94  SDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKT 141

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 46.3 bits (110), Expect = 3e-05
 Identities = 15/55 (27%), Positives = 39/55 (70%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +  ++  E ++E +  EE E + +EE+ ++EE E++++E+ +E++E+ +++E +K
Sbjct: 380 DYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKDERKK 434

Length = 434

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 45.1 bits (106), Expect = 3e-05
 Identities = 26/66 (39%), Positives = 39/66 (59%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           D K    L   +E+ E+  +E EE EE  E E  EE+ +E E++EE+E E EE+  EE+ 
Sbjct: 114 DIKKKKSLIIRQEQIEKARQEREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQS 173

Query: 397 EEKELE 402
           ++ E E
Sbjct: 174 DDSEHE 179

Length = 197

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 42.9 bits (101), Expect = 3e-05
 Identities = 25/45 (55%), Positives = 33/45 (73%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE ++LE
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 47.0 bits (112), Expect = 3e-05
 Identities = 42/104 (40%), Positives = 61/104 (58%), Gaps = 5/104 (4%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           EEE EE EE+ +E EEE EE E+E EE +EE EE E E+EE E+E +E EEE++ELE E 
Sbjct: 834 EEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKEELEEEL 893

Query: 406 HCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIG 449
               ++     ++  +E +RE+         + +RLE E   + 
Sbjct: 894 --RELESELAELKEEIEKLRER---LEELEAKLERLEVELPELE 932

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 47.0 bits (112), Expect = 3e-05
 Identities = 25/60 (41%), Positives = 28/60 (46%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            E   EE E+   E EE +EE EE+     EE EE  E   EE  E E E  E   ELE 
Sbjct: 342 RETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEE 401

Length = 1163

>gnl|CDD|221333 pfam11942, Spt5_N, Spt5 transcription elongation factor, acidic N-terminal

 Score = 42.4 bits (100), Expect = 3e-05
 Identities = 23/58 (39%), Positives = 36/58 (62%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +EEEEEEEEE++ E+  +E+E  +E E E++      +   E+EEEE+ EE  + L  
Sbjct: 10  DEEEEEEEEEDDLEDLSDEDEFIDEAEAEDDRRHRRLDRRREKEEEEDAEELAEYLRK 67

This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4. Length = 92

>gnl|CDD|219924 pfam08597, eIF3_subunit, Translation initiation factor eIF3 subunit

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 27/96 (28%), Positives = 58/96 (60%), Gaps = 14/96 (14%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDF 409
           ++E+E+++ ++  +EEE+EE+EEE+ +   + + ++  + + EE+E+ ++E E +G    
Sbjct: 25  DDEDEDDDVKDSWDEEEDEEKEEEKAKVAAKAKAKKALKAKIEEKEKAKREKEEKG---- 80

Query: 410 VKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES 445
             LRE+   T  +++ EK         R ++L+EES
Sbjct: 81  --LRELEEDTPEDELAEKL--------RLRKLQEES 106

This is a family of proteins which are subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae protein eIF3j (HCR1) has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p. Length = 242

>gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated

 Score = 47.1 bits (113), Expect = 3e-05
 Identities = 16/50 (32%), Positives = 26/50 (52%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             +   EE+      E EE +++E+EEEEE+E ++    +E E  E   E
Sbjct: 173 FVDPNAEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESELPEKVLE 222

Length = 619

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 46.4 bits (111), Expect = 3e-05
 Identities = 20/42 (47%), Positives = 25/42 (59%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
              +  +EE +E    + +    EEEEEEEEEEEEEE  EEE
Sbjct: 279 ADKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEE 320

Length = 330

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 46.9 bits (111), Expect = 3e-05
 Identities = 14/82 (17%), Positives = 26/82 (31%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            +   +     + + E      EE      E  +E E E  E+     +  +  EL   G
Sbjct: 377 GDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPIPDPAKPDELAVAG 436

Query: 406 HCDFVKLREMLIRTNMEDMREK 427
             D     + + R +    R +
Sbjct: 437 PGDDPAEPDGIRRQDDFSSRRR 458

Length = 460

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 46.5 bits (110), Expect = 3e-05
 Identities = 16/58 (27%), Positives = 46/58 (79%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E EEE  EEE+++EE+++++++E+E++++++++E++E+E++++    ++   +  NE
Sbjct: 43  KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGNE 100

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306)

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 19/55 (34%), Positives = 23/55 (41%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           L    EE  E  E  EEE          EEEEE E E+EE  EE +  + +    
Sbjct: 11  LAVRAEEPAEPAETAEEEAAAAAPAPAPEEEEEAELEDEELLEELDLPDPDTLTP 65

This family of proteobacterial species proteins has no known function. Length = 115

>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306)

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 18/55 (32%), Positives = 22/55 (40%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
               EE  E  E  EEE          EEEEE E E+EE  EE +  + +     
Sbjct: 12  AVRAEEPAEPAETAEEEAAAAAPAPAPEEEEEAELEDEELLEELDLPDPDTLTPG 66

This family of proteobacterial species proteins has no known function. Length = 115

>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306)

 Score = 43.4 bits (103), Expect = 3e-05
 Identities = 19/56 (33%), Positives = 22/56 (39%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
               EE  E  E  EEE          EEEEE E E+EE  EE +  +   L    
Sbjct: 12  AVRAEEPAEPAETAEEEAAAAAPAPAPEEEEEAELEDEELLEELDLPDPDTLTPGS 67

This family of proteobacterial species proteins has no known function. Length = 115

>gnl|CDD|218734 pfam05758, Ycf1, Ycf1

 Score = 47.3 bits (113), Expect = 3e-05
 Identities = 24/73 (32%), Positives = 39/73 (53%), Gaps = 2/73 (2%)

Query: 334 SFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEEEEEEEEE 391
            FF  K     E EE EEE + E E   E +  ++E+E   EE+     EE+E+ ++ E+
Sbjct: 220 PFFTKKLKETSETEEREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDKTED 279

Query: 392 EEEEEEEKELENE 404
            ++ E  KE ++E
Sbjct: 280 LDKLEILKEKKDE 292

The chloroplast genomes of most higher plants contain two giant open reading frames designated ycf1 and ycf2. Although the function of Ycf1 is unknown, it is known to be an essential gene. Length = 832

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 45.2 bits (107), Expect = 3e-05
 Identities = 20/54 (37%), Positives = 24/54 (44%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           LE E++  E   E   E++  E      EE    EEEE EE   EE   EE  E
Sbjct: 133 LEAEKKVNEARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAPAEEAPAEESAE 186

Length = 186

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 47.1 bits (111), Expect = 3e-05
 Identities = 39/104 (37%), Positives = 50/104 (48%), Gaps = 1/104 (0%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE +EE  E   E
Sbjct: 973  ENVEENVEENVEENVEENVEENVEENVEENIEENVEENVEENIEENVEEYDEENVEEVEE 1032

Query: 405  GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE-ESNV 447
               ++ +     I  N E+  E+    + E Y ++ +EE E N+
Sbjct: 1033 NVEEYDEENVEEIEENAEENVEENIEENIEEYDEENVEEIEENI 1076

Length = 1136

>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed

 Score = 46.4 bits (111), Expect = 3e-05
 Identities = 18/54 (33%), Positives = 34/54 (62%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           +EE   EE EE E  E+ E   ++   E+ EE EEE++++ +++ +E+++E  E
Sbjct: 332 IEENPREEAEEAEAPEKVEFMWDDYHREQLEEVEEEDDDDWDDDWDEDDDEGVE 385

Length = 390

>gnl|CDD|218538 pfam05285, SDA1, SDA1

 Score = 45.8 bits (109), Expect = 4e-05
 Identities = 21/62 (33%), Positives = 38/62 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE  +     E  E+ +EEE +++E E+  E +++++EEEE E EE+E+ ++E E  + 
Sbjct: 62  EEEVVDGIPGLELLEKWKEEERKKKEAEQGLESDDDDDEEEEWEVEEDEDSDDEGEWIDV 121

Query: 405 GH 406
             
Sbjct: 122 ES 123

This family consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus. Length = 317

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 45.6 bits (108), Expect = 4e-05
 Identities = 15/60 (25%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + E+E++ +E+E++++ EEEE    +   E+ +   EE E  E E  E   ++  + ++ 
Sbjct: 223 DNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGEMEAAEASADDTPDSDDA 282

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.1 bits (109), Expect = 4e-05
 Identities = 9/56 (16%), Positives = 15/56 (26%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
                  E    E       ++     +   E+  EE E    E E +     + E
Sbjct: 141 PSHPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSE 196

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 46.1 bits (109), Expect = 4e-05
 Identities = 9/61 (14%), Positives = 19/61 (31%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++     +   E+  EE E    E E +     + E        +   +E  E +    +
Sbjct: 161 QQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQ 220

Query: 405 G 405
            
Sbjct: 221 Q 221

Length = 413

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 45.7 bits (109), Expect = 4e-05
 Identities = 35/118 (29%), Positives = 52/118 (44%), Gaps = 30/118 (25%)

Query: 344 LEEEEEEEEEEEEEEEE-----------------EEEEEEEEEEEEEEEEEEEEEEEEEE 386
           ++EE+E E +E+ E+++                 EEE+E E EEE +  E + E+ E EE
Sbjct: 108 IQEEDEAEAQEKREKQKKLREEIDEFNEERIERKEEEKEREREEELKILEYQREKAEREE 167

Query: 387 EEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
           E E E  E +EEKE E        +LR        E   E+      +  R    +EE
Sbjct: 168 EREAERRERKEEKEREVA------RLRAQQ----EEAEDER---EELDELRADLYQEE 212

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 46.1 bits (110), Expect = 4e-05
 Identities = 18/79 (22%), Positives = 41/79 (51%), Gaps = 4/79 (5%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKL 412
            + EEE ++E   ++   + EE+++++EE +EE+EE  + E++E++ + +++      + 
Sbjct: 104 GDIEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRER 163

Query: 413 REMLIRTNMEDMREKTHCR 431
                R      RE    R
Sbjct: 164 SLERRRR----RREWEEKR 178

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 46.9 bits (111), Expect = 4e-05
 Identities = 31/101 (30%), Positives = 50/101 (49%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E ++E+EE EE E+E +E E + E EEEEEE+ E+ +E+ E+ EEE   +++ E E  + 
Sbjct: 330 ELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSS 389

Query: 405 GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES 445
                 +  E+      E           E   K+  +EE 
Sbjct: 390 AAKLKEEELELKNEEEKEAKLLLELSEQEEDLLKEEKKEEL 430

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 46.5 bits (110), Expect = 4e-05
 Identities = 19/60 (31%), Positives = 33/60 (55%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            E E+EE+ E E E +E    +E E  + E E  EEE  + ++++  +E +++ E   EG
Sbjct: 221 TENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSETPGEG 280

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 44.7 bits (105), Expect = 4e-05
 Identities = 24/60 (40%), Positives = 37/60 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E EE  E E  EE+ +E E++EE+E E EE+  EE+ ++ E E  E++E E E  + + E
Sbjct: 137 ELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDDDKTE 196

Length = 197

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 46.1 bits (109), Expect = 4e-05
 Identities = 17/60 (28%), Positives = 33/60 (55%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           + ++ ++E  EE+   +      + EE E++   E   + E E++E+ EE EE++ E EG
Sbjct: 273 DSDDGDDEGREEDYISDSSASGNDPEEREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEG 332

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 46.6 bits (111), Expect = 4e-05
 Identities = 33/88 (37%), Positives = 46/88 (52%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             LEE EEE EE +E  EE EEE E  EE   + +EE EE EE+ +  +EE EE EE+  
Sbjct: 744 EELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELE 803

Query: 402 ENEGHCDFVKLREMLIRTNMEDMREKTH 429
           E E   D ++     +    E + ++  
Sbjct: 804 EAERRLDALERELESLEQRRERLEQEIE 831

Length = 1163

>gnl|CDD|239286 cd02988, Phd_like_VIAF, Phosducin (Phd)-like family, Viral inhibitor of apoptosis (IAP)-associated factor (VIAF) subfamily; VIAF is a Phd-like protein that functions in caspase activation during apoptosis

 Score = 44.6 bits (106), Expect = 4e-05
 Identities = 20/59 (33%), Positives = 31/59 (52%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           G+   +    +EEEEE  E   +E  E   E++  +E +EE +EEE++   EE   K L
Sbjct: 11  GILPPKPPSPKEEEEEALELAIQEAHENALEKKLLDELDEELDEEEDDRFLEEYRRKRL 69

It was identified as an IAP binding protein through a screen of a human B-cell library using a prototype IAP. VIAF lacks a consensus IAP binding motif and while it does not function as an IAP antagonist, it still plays a regulatory role in the complete activation of caspases. VIAF itself is a substrate for IAP-mediated ubiquitination, suggesting that it may be a target of IAPs in the prevention of cell death. The similarity of VIAF to Phd points to a potential role distinct from apoptosis regulation. Phd functions as a cytosolic regulator of G protein by specifically binding to G protein betagamma (Gbg)-subunits. The C-terminal domain of Phd adopts a thioredoxin fold, but it does not contain a CXXC motif. Phd interacts with G protein beta mostly through the N-terminal helical domain. Length = 192

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 43.8 bits (102), Expect = 4e-05
 Identities = 35/61 (57%), Positives = 36/61 (59%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E EEEEE E EEE EEE E EEE EEE E EE  EEE E E E E E E E E +     
Sbjct: 63  EPEEEEEPEPEEEGEEEPEPEEEGEEEPEPEETGEEEPEPEPEPEPEPEPEPEPEPEPEP 122

Query: 405 G 405
           G
Sbjct: 123 G 123

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 43.0 bits (102), Expect = 4e-05
 Identities = 19/57 (33%), Positives = 34/57 (59%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           + +E+ + E+++EE++ E E+  +   EE+ E E E+ E+E EE E E    E + E
Sbjct: 17  IAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKAE 73

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 45.6 bits (109), Expect = 4e-05
 Identities = 19/44 (43%), Positives = 27/44 (61%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           +++  +EE +E    + +    EEEEEEEEEEEEEE  EE+   
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEEAAA 323

Length = 330

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 46.1 bits (109), Expect = 4e-05
 Identities = 11/56 (19%), Positives = 19/56 (33%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E + E E+  +   +     + + E      EE      E  +E E E  E+    
Sbjct: 368 EADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPI 423

Length = 460

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 46.7 bits (110), Expect = 4e-05
 Identities = 31/69 (44%), Positives = 36/69 (52%)

Query: 336  FDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
            +D +    +EE  EE  EE  EE  EE  EE EE  EE  EE  EE  EE  EE  EE +
Sbjct: 1064 YDEENVEEIEENIEENIEENVEENVEENVEEIEENVEENVEENAEENAEENAEENAEEYD 1123

Query: 396  EEEKELENE 404
            +E  E  NE
Sbjct: 1124 DENPEEHNE 1132

Length = 1136

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 46.4 bits (111), Expect = 4e-05
 Identities = 18/70 (25%), Positives = 31/70 (44%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E  +EE  EE  E  +E  E E   +EE+  ++    E  + E   +  E+  K LE+  
Sbjct: 395 EGFDEETVEELRERAKEALETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLA 454

Query: 406 HCDFVKLREM 415
                +L ++
Sbjct: 455 EQAVDELIDI 464

Length = 470

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 46.0 bits (109), Expect = 4e-05
 Identities = 26/69 (37%), Positives = 40/69 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE EE+E+E+ +  ++  E+E+E+EE E   E   EEEE EE E     ++EE++ E  
Sbjct: 284 EEETEEKEKEKRKRLKKMMEDEDEDEEMEIVPESPVEEEESEEPEPPPLPKKEEEKEEVT 343

Query: 405 GHCDFVKLR 413
              D  + R
Sbjct: 344 VSPDGGRRR 352

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein

 Score = 46.2 bits (110), Expect = 4e-05
 Identities = 35/112 (31%), Positives = 51/112 (45%), Gaps = 16/112 (14%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+ EEEEE E   +E+ EE   + EEE     E +E   E++   E E E+EE  K+ E 
Sbjct: 182 LKAEEEEELERALKEKREELLSKLEEELLARLESKEAALEKQLRLEFEREKEELRKKYEE 241

Query: 404 EGHCDFVKLREMLIRT---------NMEDMREKTHCRHYELYRKKRLEEESN 446
                  KLR+ L R          N   ++     R +    K+++EEE N
Sbjct: 242 -------KLRQELERQAEAHEQKLKNELALQAIELQREFNKEIKEKVEEERN 286

Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence rich in positive-charged and hydroxylated residues and a membrane anchor domain. In addition, it has three centrally located coiled coil domains. Length = 493

>gnl|CDD|235850 PRK06669, fliH, flagellar assembly protein H; Validated

 Score = 45.4 bits (108), Expect = 4e-05
 Identities = 37/121 (30%), Positives = 58/121 (47%), Gaps = 10/121 (8%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           KY   +   +E+E   EEEEE+ E+  EE  +E +E  EE EE+  E  E  EEE +EE 
Sbjct: 24  KYRFKVLSIKEKERLREEEEEQVEQLREEANDEAKEIIEEAEEDAFEIVEAAEEEAKEEL 83

Query: 399 KELENEGHCDFVKLR----------EMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVI 448
            +  +E      KL+          E  +   +E+ + + +   YE  R++ LEE   +I
Sbjct: 84  LKKTDEASSIIEKLQMQIEREQEEWEEELERLIEEAKAEGYEEGYEKGREEGLEEVRELI 143

Query: 449 G 449
            
Sbjct: 144 E 144

Length = 281

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 46.2 bits (110), Expect = 4e-05
 Identities = 13/44 (29%), Positives = 23/44 (52%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
              +  EEE        E++++  E+EEE+++ E+   EE  LE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEEIVLE 303

Length = 584

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 46.1 bits (109), Expect = 5e-05
 Identities = 29/62 (46%), Positives = 34/62 (54%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G  E EE E E E E E  E+E E E  EE EE E+E E E E + E E E + +E E E
Sbjct: 708 GETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHE 767

Query: 403 NE 404
            E
Sbjct: 768 GE 769

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 46.1 bits (109), Expect = 5e-05
 Identities = 19/63 (30%), Positives = 34/63 (53%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E +  E+ E + +E  E + E E E E  E++E E + E + ++ E ++E  E+EL  E 
Sbjct: 782 EIQAGEDGEMKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAEN 841

Query: 406 HCD 408
             +
Sbjct: 842 QGE 844

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 46.1 bits (109), Expect = 5e-05
 Identities = 26/60 (43%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E + + E E EE E E E E E  E+E E E  EE EE E+E E E E + E E E +
Sbjct: 701 AKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGD 760

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 44.7 bits (106), Expect = 5e-05
 Identities = 21/60 (35%), Positives = 41/60 (68%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++   +E+E ++ +++E  E EE +EEE+E    E++E++ + E+E+EE EEE +E + E
Sbjct: 42  DQAAADEQEAKKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEEDEE 101

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2 subunit 1; Provisional

 Score = 45.4 bits (108), Expect = 5e-05
 Identities = 18/38 (47%), Positives = 29/38 (76%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 377
                EEEEEE++  E E+E+EE+E+EEEEE+++E ++
Sbjct: 282 LLEKAEEEEEEDDYSESEDEDEEDEDEEEEEDDDEGDK 319

Length = 319

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 45.2 bits (107), Expect = 5e-05
 Identities = 14/59 (23%), Positives = 30/59 (50%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             +E++ +E+E++++ EEEE    +   E+ +   EE E  E E  E   ++  +  + 
Sbjct: 224 NEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSEEMESGEMEAAEASADDTPDSDDA 282

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.7 bits (108), Expect = 5e-05
 Identities = 8/60 (13%), Positives = 16/60 (26%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                E    E       ++     +   E+  EE E    E E +     + +   +  
Sbjct: 143 HPGPHEPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSP 202

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.7 bits (108), Expect = 5e-05
 Identities = 9/61 (14%), Positives = 17/61 (27%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E    E       ++     +   E+  EE E    E E +     + E        ++ 
Sbjct: 148 EPAPPESHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSP 207

Query: 405 G 405
            
Sbjct: 208 P 208

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.7 bits (108), Expect = 5e-05
 Identities = 5/61 (8%), Positives = 6/61 (9%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                        EE       E       E                  E    +     
Sbjct: 99  SVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPAPPESHNPS 158

Query: 405 G 405
            
Sbjct: 159 P 159

Length = 413

>gnl|CDD|218258 pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA binding family

 Score = 42.4 bits (100), Expect = 5e-05
 Identities = 27/56 (48%), Positives = 38/56 (67%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           L EE+ EEEE+ E EE++  EEE  +E   EEEE EEEE++E   EE E+  +E++
Sbjct: 37  LTEEQGEEEEKNEVEEKQAVEEEANKEGVVEEEEVEEEEDKEMTLEEYEKALQEKR 92

This family includes the HABP4 family of hyaluronan-binding proteins, and the PAI-1 mRNA-binding protein, PAI-RBP1. HABP4 has been observed to bind hyaluronan (a glucosaminoglycan), but it is not known whether this is its primary role in vivo. It has also been observed to bind RNA, but with a lower affinity than that for hyaluronan. PAI-1 mRNA-binding protein specifically binds the mRNA of type-1 plasminogen activator inhibitor (PAI-1), and is thought to be involved in regulation of mRNA stability. However, in both cases, the sequence motifs predicted to be important for ligand binding are not conserved throughout the family, so it is not known whether members of this family share a common function. Length = 106

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 46.3 bits (109), Expect = 5e-05
 Identities = 28/103 (27%), Positives = 59/103 (57%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             EEE+++ E+ +++E EE+++ EE ++ EEE + +  EE ++ EE++++ EE +K  E+E
Sbjct: 1628 AEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDE 1687

Query: 405  GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV 447
                    +E       E++++K      +    K+ EEE+ +
Sbjct: 1688 KKAAEALKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKI 1730

Length = 2084

>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein

 Score = 45.1 bits (107), Expect = 5e-05
 Identities = 13/62 (20%), Positives = 34/62 (54%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
              + ++ +   + +  +++ ++++ E+E      E E+ ++E  EE+E EEEE+  +E 
Sbjct: 115 RNSDADDSDSSSDSDSSDDDSDDDDSEDETAALLRELEKIKKERAEEKEREEEEKAAEEE 174

Query: 402 EN 403
           + 
Sbjct: 175 KA 176

This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing. Length = 241

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 42.2 bits (99), Expect = 5e-05
 Identities = 25/45 (55%), Positives = 32/45 (71%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EEE E+ E
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 46.2 bits (110), Expect = 5e-05
 Identities = 44/107 (41%), Positives = 62/107 (57%), Gaps = 3/107 (2%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LEE +EE EE E E+EE E+E +E EEE+EE EEE  E E E  E +EE E+  E+  E 
Sbjct: 858 LEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEEL 917

Query: 404 EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRK-KRLEEESNVIG 449
           E   + +++    +   +E+  E T     EL R+ +RLEEE   +G
Sbjct: 918 EAKLERLEVELPELEEELEEEYEDT--LETELEREIERLEEEIEALG 962

Length = 1163

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 46.0 bits (109), Expect = 5e-05
 Identities = 20/63 (31%), Positives = 42/63 (66%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
               +  +E + E  +EEE+E+E+ +EE+++++E+ +EE ++ + +EE +E+   +EKE 
Sbjct: 89  AAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEK 148

Query: 402 ENE 404
           E E
Sbjct: 149 EKE 151

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|218734 pfam05758, Ycf1, Ycf1

 Score = 46.2 bits (110), Expect = 5e-05
 Identities = 18/66 (27%), Positives = 33/66 (50%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDF 409
           +E  E EE EEE + E E   E +  ++E+E   EE+     EE+E+ +K  + +     
Sbjct: 227 KETSETEEREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDKTEDLDKLEIL 286

Query: 410 VKLREM 415
            + ++ 
Sbjct: 287 KEKKDE 292

The chloroplast genomes of most higher plants contain two giant open reading frames designated ycf1 and ycf2. Although the function of Ycf1 is unknown, it is known to be an essential gene. Length = 832

>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed

 Score = 45.6 bits (109), Expect = 5e-05
 Identities = 19/61 (31%), Positives = 34/61 (55%)

Query: 338 CKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           C       EE   EE EE E  E+ E   ++   E+ EE EEE++++ +++ +E+++E  
Sbjct: 325 CWDLMTFIEENPREEAEEAEAPEKVEFMWDDYHREQLEEVEEEDDDDWDDDWDEDDDEGV 384

Query: 398 E 398
           E
Sbjct: 385 E 385

Length = 390

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 46.0 bits (110), Expect = 5e-05
 Identities = 14/69 (20%), Positives = 30/69 (43%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +EE  EE  E  +E  E E   +EE+  ++    E  + E   +  E+  +  ++L  + 
Sbjct: 398 DEETVEELRERAKEALETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLAEQA 457

Query: 406 HCDFVKLRE 414
             + + +  
Sbjct: 458 VDELIDIEG 466

Length = 470

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 46.0 bits (110), Expect = 5e-05
 Identities = 27/85 (31%), Positives = 38/85 (44%), Gaps = 4/85 (4%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            G    EE      EE  E E  +EE  EE  E  +E  E E   +EE+  ++    + L
Sbjct: 375 EGFSSLEELAYVPVEELLEIEGFDEETVEELRERAKEALETEALAQEEKLADDLLSLEGL 434

Query: 402 ENEGHCDFVKLREMLIRTNMEDMRE 426
           + E      KL E  I+T +ED+ E
Sbjct: 435 DRE---LAFKLAEKGIKT-LEDLAE 455

Length = 470

>gnl|CDD|219256 pfam06991, Prp19_bind, Splicing factor, Prp19-binding domain

 Score = 45.3 bits (107), Expect = 5e-05
 Identities = 32/93 (34%), Positives = 49/93 (52%), Gaps = 8/93 (8%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--------EEEEEEEEEEEEEEEEEEEEEE 395
           LE EEE+E  EEEEEE EEEEE + E++ E         +++    +E E E  +E+  E
Sbjct: 5   LELEEEDESGEEEEEESEEEEETDSEDDMEPRLKPVFTRKKDRITIQEREREAAKEKALE 64

Query: 396 EEEKELENEGHCDFVKLREMLIRTNMEDMREKT 428
           EE K    E   + +K+ E  ++  +E  +  T
Sbjct: 65  EEAKRKAEERKRETLKIVEEEVKKELELKKRNT 97

This family represents the C-terminus (approximately 300 residues) of proteins that are involved as binding partners for Prp19 as part of the nuclear pore complex. The family in Drosophila is necessary for pre-mRNA splicing, and the human protein has been found in purifications of the spliceosome. In the past this family was thought, erroneously, to be associated with microfibrillin. Length = 277

>gnl|CDD|114172 pfam05432, BSP_II, Bone sialoprotein II (BSP-II)

 Score = 45.5 bits (107), Expect = 5e-05
 Identities = 35/106 (33%), Positives = 42/106 (39%), Gaps = 42/106 (39%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-------------------------- 375
           +G   EEE EEE   EEE  E+ +  E+EE E E                          
Sbjct: 56  DGDSSEEEGEEETSNEEENNEDSDGNEDEEAEAENTTLSTVTLGYGGDATPGTGNIGLAA 115

Query: 376 ----------------EEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                           E+E +E+EEEEEEEEEEE E EE E    G
Sbjct: 116 LQLPKKAGNAGKKATKEDESDEDEEEEEEEEEEEAEVEENEQGTNG 161

Bone sialoprotein (BSP) is a major structural protein of the bone matrix that is specifically expressed by fully-differentiated osteoblasts. The expression of bone sialoprotein (BSP) is normally restricted to mineralised connective tissues of bones and teeth where it has been associated with mineral crystal formation. However, it has been found that ectopic expression of BSP occurs in various lesions, including oral and extraoral carcinomas, in which it has been associated with the formation of microcrystalline deposits and the metastasis of cancer cells to bone. Length = 291

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 45.6 bits (108), Expect = 5e-05
 Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 12/72 (16%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE------------EEEEEEEEEEEEE 392
           +++EEE E E+E + EE  E++ ++EEEE+ + E+            +EEE EE      
Sbjct: 169 KDDEEESESEDESKSEESAEDDSDDEEEEDSDSEDYSQYDGMLVDSSDEEEGEEAPSINY 228

Query: 393 EEEEEEKELENE 404
            E+  E E +  
Sbjct: 229 NEDTSESESDES 240

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2

 Score = 45.2 bits (107), Expect = 5e-05
 Identities = 20/46 (43%), Positives = 38/46 (82%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           + ++ ++ ++EE+++++ +  EE+E +E+EEEEE EEEEEEE+E+E
Sbjct: 240 SDVKNKKSDDEEDDDQDGDYVEEKELKEDEEEEETEEEEEEEDEDE 285

PPP4R2 (protein phosphatase 4 core regulatory subunit R2) is the regulatory subunit of the histone H2A phosphatase complex. It has been shown to confer resistance to the anticancer drug cisplatin in yeast, and may confer resistance in higher eukaryotes. Length = 285

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 46.1 bits (109), Expect = 6e-05
 Identities = 24/61 (39%), Positives = 30/61 (49%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E   EE E   E E E  EE   E E+E E E + E E E E   E + E+E E E+E +
Sbjct: 643 ERTGEEGERPTEAEGENGEESGGEAEQEGETETKGENESEGEIPAERKGEQEGEGEIEAK 702

Query: 405 G 405
            
Sbjct: 703 E 703

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.7 bits (108), Expect = 6e-05
 Identities = 12/61 (19%), Positives = 17/61 (27%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +   + E + E  EE    E+EE  +        E             EE       EN 
Sbjct: 64  QGHRQTESDTETAEESRHGEKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPENT 123

Query: 405 G 405
            
Sbjct: 124 S 124

Length = 413

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 46.0 bits (109), Expect = 6e-05
 Identities = 20/52 (38%), Positives = 28/52 (53%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
            G EE E  +E EE+E E  + E EE E +  E  E+ E +E +E+ E   E
Sbjct: 249 AGREESEGSDESEEDEAEATDGEGEEGEMDAAEASEDSESDESDEDTETPGE 300

Length = 620

>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein

 Score = 45.8 bits (109), Expect = 6e-05
 Identities = 23/30 (76%), Positives = 23/30 (76%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 373
             EEEEEEEEE  EEEEEEEEEEE   EEE
Sbjct: 304 EPEEEEEEEEEVPEEEEEEEEEEERTFEEE 333

This protein is covalently attached to the terminii of replicating DNA in vivo. Length = 548

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 46.1 bits (109), Expect = 6e-05
 Identities = 24/64 (37%), Positives = 39/64 (60%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +  L EE  +  +E   +E+EE E  ++E E+EEE   +  +E +EEE+E++ +EEE K 
Sbjct: 232 YLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKL 291

Query: 401 LENE 404
           L  E
Sbjct: 292 LAKE 295

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 45.2 bits (107), Expect = 6e-05
 Identities = 23/58 (39%), Positives = 31/58 (53%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  E E  ++     +   E++E   E    E+ EEEE EE EE+EEEE EE+  E E
Sbjct: 46  ELAEPETSDDPYGNPDPFGEDDEGRIEVRISEDGEEEEVEEGEEDEEEEGEEESEEFE 103

Length = 306

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 46.2 bits (110), Expect = 6e-05
 Identities = 25/59 (42%), Positives = 31/59 (52%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           LE+   E EE +EE EE+     EE EE  E   EE  E E E  E   E EE ++E+E
Sbjct: 349 LEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIE 407

Length = 1163

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 45.8 bits (108), Expect = 6e-05
 Identities = 16/50 (32%), Positives = 42/50 (84%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCD 408
           +E EEE  EEE+++EE+++++++E+E++++++++E++E+E + ++  H D
Sbjct: 43  KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDD 92

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306)

 Score = 42.7 bits (101), Expect = 6e-05
 Identities = 18/54 (33%), Positives = 22/54 (40%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
              EE  E  E  EEE          EEEEE E E+EE  EE +  + +     
Sbjct: 13  VRAEEPAEPAETAEEEAAAAAPAPAPEEEEEAELEDEELLEELDLPDPDTLTPG 66

This family of proteobacterial species proteins has no known function. Length = 115

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 45.4 bits (108), Expect = 6e-05
 Identities = 21/51 (41%), Positives = 30/51 (58%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           + + E E E  EEEEEE EE EEE EE+  + +  +   EE +E+EE  + 
Sbjct: 140 KPKNEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEELRRR 190

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 45.4 bits (108), Expect = 6e-05
 Identities = 21/51 (41%), Positives = 30/51 (58%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + + E E E  EEEEEE EE EEE EE+  + +  +   EE +E++EL   
Sbjct: 140 KPKNEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEELRRR 190

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 45.4 bits (108), Expect = 6e-05
 Identities = 21/52 (40%), Positives = 30/52 (57%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           + + E E E  EEEEEE EE EEE EE+  + +  +   EE +E+EE    +
Sbjct: 140 KPKNEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEELRRRS 191

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 46.1 bits (109), Expect = 6e-05
 Identities = 19/67 (28%), Positives = 39/67 (58%), Gaps = 1/67 (1%)

Query: 342  NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            N L+E+ ++++  +  E++E+  E+  EE  +E EE  E+  + +EE E+ E  E++  +
Sbjct: 4041 NTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQENEESTEDGVKSDEELEQGEVPEDQA-I 4099

Query: 402  ENEGHCD 408
            +N    D
Sbjct: 4100 DNHPKMD 4106

Length = 4600

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 45.5 bits (109), Expect = 6e-05
 Identities = 25/60 (41%), Positives = 42/60 (70%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LE+   ++EE  + + E  E+ EEE E++E+E E++++E E++EEE EE  EE+ +ELE 
Sbjct: 87  LEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELER 146

Length = 520

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.8 bits (108), Expect = 7e-05
 Identities = 25/63 (39%), Positives = 35/63 (55%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G   EE   E E+E E E + E E E E   E + E+E E E E +E + + E E +E+E
Sbjct: 657 GENGEESGGEAEQEGETETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVE 716

Query: 403 NEG 405
           +EG
Sbjct: 717 HEG 719

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.8 bits (108), Expect = 7e-05
 Identities = 25/60 (41%), Positives = 32/60 (53%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G  E+E E E + E E E E   E + E+E E E E +E + + E E EE E E E E E
Sbjct: 665 GEAEQEGETETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAE 724

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.3 bits (107), Expect = 7e-05
 Identities = 8/60 (13%), Positives = 16/60 (26%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                  ++     +   E+  EE E    E E +     + E        +   +   E
Sbjct: 154 SHNPSPNQQPSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGE 213

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.3 bits (107), Expect = 7e-05
 Identities = 7/62 (11%), Positives = 18/62 (29%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
              E +     + E        +   +E  E +    ++      ++  E E+E  +   
Sbjct: 183 SEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEPER 242

Query: 403 NE 404
             
Sbjct: 243 EG 244

Length = 413

>gnl|CDD|218258 pfam04774, HABP4_PAI-RBP1, Hyaluronan / mRNA binding family

 Score = 42.0 bits (99), Expect = 7e-05
 Identities = 22/49 (44%), Positives = 31/49 (63%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            ++E  E  EE+ EEEE+ E EE++  EEE  +E   EEEE E+E + E
Sbjct: 30  VKDEIAELTEEQGEEEEKNEVEEKQAVEEEANKEGVVEEEEVEEEEDKE 78

This family includes the HABP4 family of hyaluronan-binding proteins, and the PAI-1 mRNA-binding protein, PAI-RBP1. HABP4 has been observed to bind hyaluronan (a glucosaminoglycan), but it is not known whether this is its primary role in vivo. It has also been observed to bind RNA, but with a lower affinity than that for hyaluronan. PAI-1 mRNA-binding protein specifically binds the mRNA of type-1 plasminogen activator inhibitor (PAI-1), and is thought to be involved in regulation of mRNA stability. However, in both cases, the sequence motifs predicted to be important for ligand binding are not conserved throughout the family, so it is not known whether members of this family share a common function. Length = 106

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.9 bits (109), Expect = 7e-05
 Identities = 24/59 (40%), Positives = 27/59 (45%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            E E   EE E+   E EE +EE EE+     EE EE  E   EE  E E E  E   E
Sbjct: 340 EERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNE 398

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.9 bits (109), Expect = 7e-05
 Identities = 26/62 (41%), Positives = 31/62 (50%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            L EE E+   E EE +EE EE+     EE EE  E   EE  E E E  E   E +EL+
Sbjct: 344 TLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELK 403

Query: 403 NE 404
            E
Sbjct: 404 RE 405

Length = 1163

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 42.7 bits (101), Expect = 7e-05
 Identities = 24/66 (36%), Positives = 40/66 (60%), Gaps = 5/66 (7%)

Query: 344 LEEEEEEEEEEE-----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            +E+E EE  EE     EE ++E E++ +E +E  +  EEE ++EE+ E E+ E+ E++E
Sbjct: 42  AKEKEREERIEERKRIREERKQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVEDDE 101

Query: 399 KELENE 404
            E   E
Sbjct: 102 WEGFPE 107

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 45.4 bits (107), Expect = 7e-05
 Identities = 12/57 (21%), Positives = 20/57 (35%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE  E + E E+  +   +     + + E      EE      E  +E E +  E  
Sbjct: 364 EETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKA 420

Length = 460

>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2

 Score = 44.8 bits (106), Expect = 7e-05
 Identities = 20/54 (37%), Positives = 41/54 (75%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            +++  +  + + ++ ++EE+++++ +  EE+E +E+EEEEE EEEEEEE+E+E
Sbjct: 232 SQDDGPKGSDVKNKKSDDEEDDDQDGDYVEEKELKEDEEEEETEEEEEEEDEDE 285

PPP4R2 (protein phosphatase 4 core regulatory subunit R2) is the regulatory subunit of the histone H2A phosphatase complex. It has been shown to confer resistance to the anticancer drug cisplatin in yeast, and may confer resistance in higher eukaryotes. Length = 285

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 45.5 bits (108), Expect = 7e-05
 Identities = 23/63 (36%), Positives = 39/63 (61%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             LEE+ E ++E  EE  + EE++E+EE+E+ + + E    + +EE+EEE++E      L
Sbjct: 406 EPLEEKPENKDESVEEISDAEEDDEDEEDEDGDGDVEMSAVDNDEEKEEEDKEAIPSTIL 465

Query: 402 ENE 404
           E E
Sbjct: 466 EEE 468

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.8 bits (108), Expect = 8e-05
 Identities = 27/60 (45%), Positives = 34/60 (56%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E E E +E + + E E EE E E E E E  E+E E E  EE EE E+E E E E ++E 
Sbjct: 696 EGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEV 755

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.3 bits (107), Expect = 8e-05
 Identities = 10/61 (16%), Positives = 21/61 (34%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           EE E    E E +     + E        +   +E  E +    ++      ++ +E+E 
Sbjct: 176 EEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHED 235

Query: 406 H 406
            
Sbjct: 236 E 236

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.0 bits (106), Expect = 8e-05
 Identities = 12/68 (17%), Positives = 16/68 (23%), Gaps = 7/68 (10%)

Query: 345 EEEEEEEEEEEEEEEEEEEEE-------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            E + E  EE    E+EE  +        E             EE       E       
Sbjct: 69  TESDTETAEESRHGEKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSP 128

Query: 398 EKELENEG 405
           E    +  
Sbjct: 129 ESPASHSP 136

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 45.0 bits (106), Expect = 8e-05
 Identities = 7/58 (12%), Positives = 7/58 (12%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           G      E             EE       E       E                  E
Sbjct: 91  GPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHE 148

Length = 413

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 45.7 bits (108), Expect = 8e-05
 Identities = 27/61 (44%), Positives = 43/61 (70%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            EE+ +E E+E ++ E+E ++E+EE EE E+E +E E + E EEEEEE+ E+ +EK  + 
Sbjct: 313 DEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKLEQL 372

Query: 404 E 404
           E
Sbjct: 373 E 373

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 45.3 bits (107), Expect = 8e-05
 Identities = 25/68 (36%), Positives = 49/68 (72%), Gaps = 5/68 (7%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----EEEEEEEEEEEEEEEEE 396
           +G EEE+E+E+ +EE+++++E+ +EE ++ + +EE +E     E+E+E+E++ EE  + E
Sbjct: 102 SGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDRE 161

Query: 397 EEKELENE 404
           EEK+ E  
Sbjct: 162 EEKKRERV 169

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|114172 pfam05432, BSP_II, Bone sialoprotein II (BSP-II)

 Score = 44.7 bits (105), Expect = 8e-05
 Identities = 29/77 (37%), Positives = 36/77 (46%), Gaps = 13/77 (16%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE---------- 386
             K  N  ++  +E+E +E+EEEEEEEEEEE E EE E+          E          
Sbjct: 119 PKKAGNAGKKATKEDESDEDEEEEEEEEEEEAEVEENEQGTNGTSTNSTEVDHGNGSSGG 178

Query: 387 ---EEEEEEEEEEEEKE 400
              EE EEE   E E E
Sbjct: 179 DNGEEGEEESVTEAEAE 195

Bone sialoprotein (BSP) is a major structural protein of the bone matrix that is specifically expressed by fully-differentiated osteoblasts. The expression of bone sialoprotein (BSP) is normally restricted to mineralised connective tissues of bones and teeth where it has been associated with mineral crystal formation. However, it has been found that ectopic expression of BSP occurs in various lesions, including oral and extraoral carcinomas, in which it has been associated with the formation of microcrystalline deposits and the metastasis of cancer cells to bone. Length = 291

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 45.5 bits (108), Expect = 8e-05
 Identities = 20/64 (31%), Positives = 41/64 (64%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             L++E  EE+ E ++E  EE  + EE++E+EE+E+ + + E    + +EE+EEE+++ +
Sbjct: 401 RSLQKEPLEEKPENKDESVEEISDAEEDDEDEEDEDGDGDVEMSAVDNDEEKEEEDKEAI 460

Query: 402 ENEG 405
            +  
Sbjct: 461 PSTI 464

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 43.9 bits (104), Expect = 8e-05
 Identities = 13/41 (31%), Positives = 15/41 (36%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           EEE+                 E    E E E E EEE E+K
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEKK 155

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 45.6 bits (109), Expect = 8e-05
 Identities = 21/57 (36%), Positives = 27/57 (47%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +EEEE  +EE + E EEE + E EE    E EEE + E       EE  E     + 
Sbjct: 38  VEEEEARKEEAKREAEEEAKAEAEEAAAAEAEEEAKAEAAAAAPAEEAAEAAAAAEA 94

Length = 746

>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family

 Score = 45.4 bits (108), Expect = 9e-05
 Identities = 24/77 (31%), Positives = 44/77 (57%), Gaps = 6/77 (7%)

Query: 344 LEEEEEE------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           L++ E E       EEE++EEEE+ +E  ++ ++E E ++++     + EE+EEEEE+  
Sbjct: 271 LKKLEAERLRRMRGEEEDDEEEEDSKESADDLDDEFEPDDDDNFGLGQGEEDEEEEEDGV 330

Query: 398 EKELENEGHCDFVKLRE 414
           + E E +   D  +  E
Sbjct: 331 DDEDEEDDDDDLEEEEE 347

Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production. Length = 809

>gnl|CDD|148051 pfam06213, CobT, Cobalamin biosynthesis protein CobT

 Score = 44.4 bits (105), Expect = 9e-05
 Identities = 15/53 (28%), Positives = 32/53 (60%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +  EE  +E E  + E+ E+E++ +E+E++++ EEEE    +   E+ +  +E
Sbjct: 207 DMAEELGDEPESADSEDNEDEDDPKEDEDDDQGEEEESGSSDSLSEDSDASSE 259

This family consists of several bacterial cobalamin biosynthesis (CobT) proteins. CobT is involved in the transformation of precorrin-3 into cobyrinic acid. Length = 282

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 45.5 bits (108), Expect = 9e-05
 Identities = 20/64 (31%), Positives = 38/64 (59%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            L +++  + +E E++   +     E E+   E ++EEEE+EEEEEEE+E+E   ++  +
Sbjct: 355 TLNKQKWTKAKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHSD 414

Query: 403 NEGH 406
           +E  
Sbjct: 415 DEEF 418

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 45.3 bits (107), Expect = 9e-05
 Identities = 31/115 (26%), Positives = 52/115 (45%)

Query: 333 YSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
               + +      ++EEEEEE+ E   +E+E  EEEE+ E+ + EEE+EE+ + +EEE  
Sbjct: 746 IKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTEKLKVEEEKEEKLKAQEEELR 805

Query: 393 EEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV 447
             EEE KE       + + + +       E        +  +   K   EE   +
Sbjct: 806 ALEEELKEEAELLEEEQLLIEQEEKIKEEELEELALELKEEQKLEKLAEEELERL 860

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 45.3 bits (107), Expect = 9e-05
 Identities = 17/60 (28%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++++  E E+EE+ E E E +E    +E E  + E E  EEE  + ++++  +E + ++E
Sbjct: 216 DDDQPTENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSE 275

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.5 bits (108), Expect = 9e-05
 Identities = 37/104 (35%), Positives = 50/104 (48%), Gaps = 2/104 (1%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EEE E+ +   EE EEE EE EEE EE +E  EE EEE E  EE   + +EE +ELE +
Sbjct: 728 LEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEEIEELEEK 787

Query: 405 GHCDFVKLR--EMLIRTNMEDMREKTHCRHYELYRKKRLEEESN 446
                 +L   E  +      +            R++RLE+E  
Sbjct: 788 RQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIE 831

Length = 1163

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 42.6 bits (99), Expect = 9e-05
 Identities = 32/59 (54%), Positives = 37/59 (62%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++    + ++E EEEEE E EEE EEE E EEE EEE E EE  EEE E E E E E E
Sbjct: 53  DDTNGTDPDDEPEEEEEPEPEEEGEEEPEPEEEGEEEPEPEETGEEEPEPEPEPEPEPE 111

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 44.9 bits (106), Expect = 9e-05
 Identities = 18/54 (33%), Positives = 28/54 (51%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           F  +E  E++E +   EE  +EE E+E E +E   EE  E E  E + ++  E 
Sbjct: 329 FEVVEVVEKQEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDDLAER 382

Length = 388

>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306)

 Score = 41.9 bits (99), Expect = 9e-05
 Identities = 18/55 (32%), Positives = 22/55 (40%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
               EE  E  E  EEE          EEEEE E E+EE  EE +  + +     
Sbjct: 12  AVRAEEPAEPAETAEEEAAAAAPAPAPEEEEEAELEDEELLEELDLPDPDTLTPG 66

This family of proteobacterial species proteins has no known function. Length = 115

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 45.0 bits (107), Expect = 9e-05
 Identities = 22/49 (44%), Positives = 30/49 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           L + + E E E  EEEEEE EE EEE EE+  + +  +   EE +E+EE
Sbjct: 138 LPKPKNEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEE 186

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 45.8 bits (108), Expect = 9e-05
 Identities = 17/62 (27%), Positives = 36/62 (58%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            LEE    +E+ ++++  +  E++E+  E+  EE  +E EE  E+  + +EE E+ +  E+
Sbjct: 4037 LEENNTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQENEESTEDGVKSDEELEQGEVPED 4096

Query: 404  EG 405
            + 
Sbjct: 4097 QA 4098

Length = 4600

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.4 bits (107), Expect = 1e-04
 Identities = 22/87 (25%), Positives = 44/87 (50%)

Query: 318 MQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 377
           M+   G+   ++    +    K  +  + E + ++ E ++E  E+E   E + E +++E+
Sbjct: 791 MKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEK 850

Query: 378 EEEEEEEEEEEEEEEEEEEEEKELENE 404
             +     +  + EEEEEEEE+E E E
Sbjct: 851 GVDGGGGSDGGDSEEEEEEEEEEEEEE 877

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.4 bits (107), Expect = 1e-04
 Identities = 28/63 (44%), Positives = 34/63 (53%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E E +E + + E E EE E E E E E  E+E E E  EE EE E+E E E E + E E 
Sbjct: 698 EIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVET 757

Query: 406 HCD 408
             D
Sbjct: 758 EGD 760

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.4 bits (107), Expect = 1e-04
 Identities = 27/61 (44%), Positives = 33/61 (54%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E  E+E E E  EE EE E+E E E E + E E E + +E E E E E E +E E E E 
Sbjct: 724 EGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEI 783

Query: 406 H 406
            
Sbjct: 784 Q 784

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.4 bits (107), Expect = 1e-04
 Identities = 26/61 (42%), Positives = 35/61 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E E  EE EE E+E E E E + E E E + +E E E E E E +E+E+E E +   +
Sbjct: 729 EGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGED 788

Query: 405 G 405
           G
Sbjct: 789 G 789

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.4 bits (107), Expect = 1e-04
 Identities = 27/63 (42%), Positives = 34/63 (53%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            +E E E E E  E+E E E  EE EE E+E E E E + E E E + +E E E E E E
Sbjct: 714 EVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAE 773

Query: 403 NEG 405
            + 
Sbjct: 774 GKE 776

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 25/60 (41%), Positives = 31/60 (51%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E + E E E E   E + E+E E E E +E + + E E EE E E E E E  E E E E
Sbjct: 674 ETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEGEIE 733

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 28/61 (45%), Positives = 33/61 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE E E E E E  E+E E E  EE EE E+E E E E + E E E + +E E E E E
Sbjct: 712 AEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETE 771

Query: 405 G 405
            
Sbjct: 772 A 772

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 30/64 (46%), Positives = 35/64 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E E E E E  E+E E E  EE EE E+E E E E + E E E + +E E E E E E
Sbjct: 714 EVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAE 773

Query: 405 GHCD 408
           G  D
Sbjct: 774 GKED 777

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 23/61 (37%), Positives = 39/61 (63%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
             ++  + EE++   ++ E EEEE EE ++ EE+ E E +EEEE EEE E++++E E + 
Sbjct: 4   GAKKRAKLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKE 63

Query: 406 H 406
            
Sbjct: 64  R 64

This is a family of proteins of approximately 300 residues, found in plants and vertebrates. They contain a highly conserved DDRGK motif. Length = 189

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 43.6 bits (103), Expect = 1e-04
 Identities = 20/56 (35%), Positives = 38/56 (67%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            ++   +E+E ++ +++E  E EE +EEE+E    E++E++ + E+E+EE E ENE
Sbjct: 41  SDQAAADEQEAKKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENE 96

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|184885 PRK14891, PRK14891, 50S ribosomal protein L24e/unknown domain fusion protein; Provisional

 Score = 41.9 bits (98), Expect = 1e-04
 Identities = 18/45 (40%), Positives = 27/45 (60%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
              E +  +E +EEEE +E  +E  +E + E EE +EEE+EE E 
Sbjct: 87  EAAEADAADEADEEEETDEAVDETADEADAEAEEADEEEDEEAEA 131

Length = 131

>gnl|CDD|220377 pfam09747, DUF2052, Coiled-coil domain containing protein (DUF2052)

 Score = 42.8 bits (101), Expect = 1e-04
 Identities = 27/63 (42%), Positives = 34/63 (53%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            EEE+ EEE EEEEEE +     EEEEE+ +  +E    EE EE  EE   E  ++ L  
Sbjct: 85  EEEEDPEEENEEEEEEYQRGPFGEEEEEDGDSYDELPTPEEREELREEFISEMHQRFLSG 144

Query: 404 EGH 406
           E  
Sbjct: 145 EDK 147

This entry is of sequences of two conserved domains separated by a region of low complexity, spanning some 200 residues. The function is unknown. Length = 178

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.6 bits (105), Expect = 1e-04
 Identities = 13/73 (17%), Positives = 17/73 (23%), Gaps = 10/73 (13%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEE----------EEEEEEEEEEEEEEEEEEEEEEEE 393
            E+   + E + E  EE    E+EE           E             EE       E
Sbjct: 62  AEQGHRQTESDTETAEESRHGEKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPE 121

Query: 394 EEEEEKELENEGH 406
                       H
Sbjct: 122 NTSGSSPESPASH 134

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.6 bits (105), Expect = 1e-04
 Identities = 6/56 (10%), Positives = 6/56 (10%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           G       E             EE       E       E                
Sbjct: 90  GGPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPG 145

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 9/61 (14%), Positives = 17/61 (27%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              +   E+  EE E    E E +     + E        +   +E  E +    +    
Sbjct: 165 SFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPS 224

Query: 405 G 405
            
Sbjct: 225 P 225

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 9/61 (14%), Positives = 17/61 (27%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
               +   E+  EE E    E E +     + E        +   +E  E +     +  
Sbjct: 164 SSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAP 223

Query: 405 G 405
            
Sbjct: 224 S 224

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 12/74 (16%), Positives = 14/74 (18%), Gaps = 10/74 (13%)

Query: 343 GLEEEEEEEEEEEEEEEE----------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
             + E  EE    E+EE           E             EE       E       E
Sbjct: 70  ESDTETAEESRHGEKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSPE 129

Query: 393 EEEEEEKELENEGH 406
                        H
Sbjct: 130 SPASHSPPPSPPSH 143

Length = 413

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 44.7 bits (106), Expect = 1e-04
 Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 11/72 (15%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----------EEEEEEEEEEEEEE 391
           GL EE +++ EEE ++E   E  E E E   +              E+  +E E E +EE
Sbjct: 240 GLLEESDDDGEEESDDESAWEGFESEYEPINKPVRPKRKTKAQRNKEKRRKELEREAKEE 299

Query: 392 EEEEEEEKELEN 403
           ++ +++  +L  
Sbjct: 300 KQLKKKLAQLAR 311

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 26/60 (43%), Positives = 34/60 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEEEEE E  ++ E+  + E E  ++++ EEEE EEE     E E EEE   EE    NE
Sbjct: 210 EEEEEEAEGSDDGEDVVDYEGERIDKKQGEEEEMEEEVINLFEIEWEEESPSEEVPRNNE 269

Length = 279

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 44.6 bits (105), Expect = 1e-04
 Identities = 22/58 (37%), Positives = 33/58 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           LE EE +++ EE  +  EEEE+  ++EE + +  EEEE+   +EE E    E  EK  
Sbjct: 214 LELEELKKKREERRKVLEEEEQRRKQEEADRKSREEEEKRRLKEEIERRRAEAAEKRQ 271

Length = 431

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 44.3 bits (104), Expect = 1e-04
 Identities = 32/114 (28%), Positives = 50/114 (43%), Gaps = 10/114 (8%)

Query: 343 GLEEEEEEEE--EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             EE EE E   + E++ +  + EE ++EE+E E EEEE+ +    EE   E    + K 
Sbjct: 122 EREEVEETEGVTKSEQKNDWRDAEECQKEEKEPEPEEEEKPKRGSLEENNGEFMTHKLKH 181

Query: 401 LENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELY--------RKKRLEEESN 446
            EN       +  ++      E +++K      EL         R+K LEEE  
Sbjct: 182 TENTFSRGGAEGAQVEAGKEFEKLKQKQQEAALELEELKKKREERRKVLEEEEQ 235

Length = 431

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 12/60 (20%), Positives = 40/60 (66%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +N  +++++  +  EE+ +++E+++ EE ++++  E+E  ++ E+E    +E++++ E+ 
Sbjct: 64  YNRQQQQQKSAKRAEEQRKKKEQQQAEELQQKQAAEQERLKQLEKERLAAQEQKKQAEEA 123

Length = 387

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 45.5 bits (107), Expect = 1e-04
 Identities = 27/96 (28%), Positives = 59/96 (61%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E +++E EE+++ EE ++ EEE + + EE ++E EE++++ EE +++EEE+++   L+ E
Sbjct: 1706 ELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDEEEKKKIAHLKKE 1765

Query: 405  GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKR 440
                  ++R+       E++ E+   R  E+ +K +
Sbjct: 1766 EEKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIK 1801

Length = 2084

>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit [Transcription]

 Score = 42.8 bits (101), Expect = 1e-04
 Identities = 18/61 (29%), Positives = 44/61 (72%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+++ + +++E +  EE +E+E + +E++EEEE++E +  ++E ++E+E+++E  E+  E
Sbjct: 96  EKKDIKAKDKEVDAFEEGDEDELDYDEDKEEEEDDEVDSLDDENDDEDEDDDEIVEILIE 155

Query: 405 G 405
            
Sbjct: 156 D 156

Length = 175

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 17/56 (30%), Positives = 31/56 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E+EE+ E E E +E    +E E  + E E  EEE  + ++++  +E +++ E   E
Sbjct: 224 EQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSETPGE 279

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 16/54 (29%), Positives = 30/54 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            E+EE+ E E E +E    +E E  + E E  EEE  + ++++  +E +++ E 
Sbjct: 223 NEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSET 276

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 6/57 (10%), Positives = 41/57 (71%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             + E+  +++E+EE+E++   +++++++++++  + ++++ + ++++++  E +++
Sbjct: 47  AADAEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDLDDDDVDLDDDDDDFLEDDDD 103

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown. Length = 104

>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 9/58 (15%), Positives = 37/58 (63%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EE   E  +      + E+  +++E+EE+E++   +++++++++++  + ++++ +L+
Sbjct: 34  EEVPPEVAKSRAPAADAEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDLDDDDVDLD 91

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown. Length = 104

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 18/61 (29%), Positives = 32/61 (52%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + ++ ++E  EE+   +      + EE E++   E   + E E++E+ EE EEEK  E  
Sbjct: 273 DSDDGDDEGREEDYISDSSASGNDPEEREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEG 332

Query: 405 G 405
           G
Sbjct: 333 G 333

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.5 bits (108), Expect = 1e-04
 Identities = 40/102 (39%), Positives = 54/102 (52%), Gaps = 5/102 (4%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E+  E  E+E EE EEE EE EE+ +E EEE EE E+E EE +EE EE E E++ELE+E
Sbjct: 819 LEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDE 878

Query: 405 GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESN 446
                 +L E       E++RE            ++L E   
Sbjct: 879 ----LKELEEEKEELE-EELRELESELAELKEEIEKLRERLE 915

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.1 bits (107), Expect = 1e-04
 Identities = 31/72 (43%), Positives = 37/72 (51%), Gaps = 6/72 (8%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE------EEEEEEEE 392
           +    LEE +E+ E  +EE EE E   EE E+   E EE +EE EE      EE EE  E
Sbjct: 320 ELEERLEELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFE 379

Query: 393 EEEEEEKELENE 404
              EE  ELE E
Sbjct: 380 ALREELAELEAE 391

Length = 1163

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 19/61 (31%), Positives = 36/61 (59%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L + ++ E  E+  +  + + E+  ++EEEEEE+E  E+E  ++E+E +   E E  LE+
Sbjct: 91  LAKLQDSESHEDGSDGSDMDSEDSADDEEEEEEDESLEDEMIDDEDEADLFNESESSLED 150

Query: 404 E 404
            
Sbjct: 151 L 151

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 20/44 (45%), Positives = 30/44 (68%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            ++  E+EE E++  +E+EE+E   EE+E E  EEEE+EE E K
Sbjct: 31  AQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGEVK 74

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 20/52 (38%), Positives = 31/52 (59%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           F   +      ++  E+EE E++  +E+EE+E   EE+E E  EEEE+EE E
Sbjct: 21  FGNGKGPFASAQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGE 72

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 43.6 bits (103), Expect = 1e-04
 Identities = 19/42 (45%), Positives = 29/42 (69%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
            ++  E+EE E++  +E+EE+E   EE+E E  EEEE+EE E
Sbjct: 31  AQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGE 72

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 43.6 bits (103), Expect = 1e-04
 Identities = 19/42 (45%), Positives = 29/42 (69%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
            ++  E+EE E++  +E+EE+E   EE+E E  EEEE+EE E
Sbjct: 31  AQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGE 72

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 43.6 bits (103), Expect = 1e-04
 Identities = 19/42 (45%), Positives = 29/42 (69%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
            ++  E+EE E++  +E+EE+E   EE+E E  EEEE+EE E
Sbjct: 31  AQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGE 72

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 45.0 bits (106), Expect = 1e-04
 Identities = 13/62 (20%), Positives = 21/62 (33%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           EE  E + E E+  +   +     + + E      EE      E  +E E E   +    
Sbjct: 364 EETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPI 423

Query: 407 CD 408
            D
Sbjct: 424 PD 425

Length = 460

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 44.6 bits (105), Expect = 1e-04
 Identities = 12/70 (17%), Positives = 22/70 (31%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + + E      EE      E  +E E E  E+     +  + +E       ++  E +  
Sbjct: 388 QVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPIPDPAKPDELAVAGPGDDPAEPDGI 447

Query: 405 GHCDFVKLRE 414
              D    R 
Sbjct: 448 RRQDDFSSRR 457

Length = 460

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 44.9 bits (106), Expect = 1e-04
 Identities = 20/65 (30%), Positives = 31/65 (47%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +  E+  E  E  E++E +   EE  +EE E+E E +E   EE  E E  E + ++  E 
Sbjct: 323 DYYEDIFEVVEVVEKQEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDDLAER 382

Query: 402 ENEGH 406
             E  
Sbjct: 383 LAETE 387

Length = 388

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 44.5 bits (105), Expect = 1e-04
 Identities = 19/56 (33%), Positives = 29/56 (51%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           E  E++E +   EE  +EE E+E E +E   EE  E E  E + ++  E   E E+
Sbjct: 333 EVVEKQEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDDLAERLAETEI 388

Length = 388

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 42.8 bits (101), Expect = 1e-04
 Identities = 19/53 (35%), Positives = 23/53 (43%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           E E++  E   E   E++  E      EE    EEEE EE   EE   EE  E
Sbjct: 134 EAEKKVNEARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAPAEEAPAEESAE 186

Length = 186

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 45.0 bits (107), Expect = 1e-04
 Identities = 12/42 (28%), Positives = 22/42 (52%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           L    +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 258 LPAPPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 24/68 (35%), Positives = 44/68 (64%), Gaps = 7/68 (10%)

Query: 344 LEEEEEEEEEEEEEEEEEE-------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           LEE  E+E  +    +++         ++ ++EE+++++ +  EE+E +E+EEEEE EEE
Sbjct: 218 LEEYYEKESSDAAASQDDGPKGSDVKNKKSDDEEDDDQDGDYVEEKELKEDEEEEETEEE 277

Query: 397 EEKELENE 404
           EE+E E+E
Sbjct: 278 EEEEDEDE 285

PPP4R2 (protein phosphatase 4 core regulatory subunit R2) is the regulatory subunit of the histone H2A phosphatase complex. It has been shown to confer resistance to the anticancer drug cisplatin in yeast, and may confer resistance in higher eukaryotes. Length = 285

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 45.4 bits (107), Expect = 1e-04
 Identities = 17/59 (28%), Positives = 36/59 (61%)

Query: 346  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E +EE + E++E  ++E+  EE    +E+ ++++  +  E++E+  E+  EE   ENE
Sbjct: 4017 DENKEEADAEKDEPMQDEDPLEENNTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQENE 4075

Length = 4600

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 44.6 bits (106), Expect = 1e-04
 Identities = 22/55 (40%), Positives = 38/55 (69%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           EEEEE+  +  EEE +EE +E++EE+++EE E +  +   EE+ + EE+E +K+ 
Sbjct: 266 EEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQA 320

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 44.2 bits (105), Expect = 1e-04
 Identities = 22/54 (40%), Positives = 37/54 (68%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEEEE+  +  EEE +EE +E++EE+++EE E +  +   EE+ + EEKE + +
Sbjct: 266 EEEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQ 319

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 373
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 374
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 375
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 376
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 377
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 378
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 366 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 367 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 368 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 369 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 41.5 bits (98), Expect = 1e-04
 Identities = 15/29 (51%), Positives = 18/29 (62%)

Query: 370 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
                  EE++EEEEEEEE+EE EEE   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|222160 pfam13476, AAA_23, AAA domain

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 26/64 (40%), Positives = 43/64 (67%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           + G E  EE + + +E++E  EE E+E EE E+E++  E+  EE+E+++E EE +EE +E
Sbjct: 139 YLGQERLEELKFKRKEKKERLEELEKELEELEDEKDLLEKLLEEKEKKKELEELKEELEE 198

Query: 401 LENE 404
           L  E
Sbjct: 199 LLEE 202

Length = 204

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 41.3 bits (96), Expect = 1e-04
 Identities = 20/72 (27%), Positives = 44/72 (61%), Gaps = 1/72 (1%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNME 422
           E EE+ + + +EEE++++E+EE+++E+++E+++E       E    F  ++  L    ++
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDEVPVPSFGEAMAYFAMVKRYLTSFPID 66

Query: 423 DMREKTHCRHYE 434
           D R ++H  H E
Sbjct: 67  D-RVQSHILHLE 77

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|219069 pfam06512, Na_trans_assoc, Sodium ion transport-associated

 Score = 43.9 bits (104), Expect = 1e-04
 Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 10/67 (14%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE----------EEEEEEEEEEEEEEEE 393
           LE   +E+   E     +EE ++   E  + EE+          + E  EEEEEE  EEE
Sbjct: 114 LENLNDEDTSSESSYGFKEESKKGSAETLKLEEKDSSSSEGSTVDLEPPEEEEEEIAEEE 173

Query: 394 EEEEEKE 400
           EE +E E
Sbjct: 174 EEVKEPE 180

Members of this family contain a region found exclusively in eukaryotic sodium channels or their subunits, many of which are voltage-gated. Members very often also contain between one and four copies of pfam00520 and, less often, one copy of pfam00612. Length = 230

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 45.0 bits (107), Expect = 1e-04
 Identities = 31/78 (39%), Positives = 38/78 (48%), Gaps = 4/78 (5%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E E E+ EE   +  +E  E E E EE EE  EE EEE  E E E EE E + ++L+ E
Sbjct: 738 LEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEE 797

Query: 405 GHCDFVKLREMLIRTNME 422
                  LRE L     E
Sbjct: 798 ----LKALREALDELRAE 811

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 45.0 bits (107), Expect = 1e-04
 Identities = 28/88 (31%), Positives = 40/88 (45%), Gaps = 4/88 (4%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE----EEEEEEEEEEEEEEKE 400
           E  ++EE + E EE   E E EEE +EEE EE  ++         E  E+E E ++ +KE
Sbjct: 383 EARKKEENDAEIEELRRELEGEEESDEEENEEPSKKNVGRRKFGPENGEKEAESKKLKKE 442

Query: 401 LENEGHCDFVKLREMLIRTNMEDMREKT 428
            +NE         E  +    E   EK 
Sbjct: 443 NKNEFKEKKESDEEEELEDEEEAKVEKV 470

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 45.0 bits (107), Expect = 1e-04
 Identities = 28/103 (27%), Positives = 41/103 (39%), Gaps = 39/103 (37%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEE----------------------------------- 366
            G    EE+E+E+ + EEE+E+++E                                   
Sbjct: 319 EGKSVSEEDEDEDSDSEEEDEDDDEDDDDGENPWMLRKKLGKLKEGEDDEENSGLLSMKF 378

Query: 367 ----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
               E  ++EE + E EE   E E EEE +EEE EE   +N G
Sbjct: 379 MQRAEARKKEENDAEIEELRRELEGEEESDEEENEEPSKKNVG 421

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 44.0 bits (105), Expect = 1e-04
 Identities = 23/35 (65%), Positives = 24/35 (68%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 377
           G +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 224 GRQGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 14/57 (24%), Positives = 34/57 (59%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            ++ E++ EE E++   E+  ++E E+    E+  ++ E+  ++ EE++++ EE K 
Sbjct: 70  QKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKA 126

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 43.5 bits (103), Expect = 1e-04
 Identities = 32/117 (27%), Positives = 46/117 (39%), Gaps = 12/117 (10%)

Query: 336 FDCKYFNGLEEEEEEEEEEE---EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
            D +    L  E +  +E     E+E  E  EE E+ E+E E+ +E  E  E+   E E 
Sbjct: 86  KDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLAEAEA 145

Query: 393 EEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIG 449
             EEE  E+  EG     K RE L         EK        Y + R  ++   + 
Sbjct: 146 RLEEEVAEIREEGQELSSK-REELK--------EKLDPELLSEYERIRKNKKGVGVV 193

Length = 239

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEE 369
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEE 370
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEE 371
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEE 372
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEE 373
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEE 374
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEE 375
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEE 376
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEE 377
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEE 378
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEE 379
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEE 380
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEE 381
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEE 382
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEE 383
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEE 384
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEE 385
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEE 386
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEE 387
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEE 388
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEE 389
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 366 EEEEEEEEEEEEEEEEEEEEEEEEE 390
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 367 EEEEEEEEEEEEEEEEEEEEEEEEE 391
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 368 EEEEEEEEEEEEEEEEEEEEEEEEE 392
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 369 EEEEEEEEEEEEEEEEEEEEEEEEE 393
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 370 EEEEEEEEEEEEEEEEEEEEEEEEE 394
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 371 EEEEEEEEEEEEEEEEEEEEEEEEE 395
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 372 EEEEEEEEEEEEEEEEEEEEEEEEE 396
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 373 EEEEEEEEEEEEEEEEEEEEEEEEE 397
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 41.2 bits (97), Expect = 1e-04
 Identities = 19/25 (76%), Positives = 19/25 (76%)

Query: 374 EEEEEEEEEEEEEEEEEEEEEEEEE 398
                EEEEEEEEEEEEEEEE EEE
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEE 95

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|217902 pfam04111, APG6, Autophagy protein Apg6

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 1/66 (1%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           Y   L + E +  E    E  + E +E ++EEE   +E EE E+E+++ + E  E +EEK
Sbjct: 48  YKQYLSKLESQNVEISNYEALDSELDELKKEEERLLDELEELEKEDDDLDGELVELQEEK 107

Query: 400 E-LENE 404
           E LENE
Sbjct: 108 EQLENE 113

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway. Length = 356

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 44.6 bits (105), Expect = 2e-04
 Identities = 26/60 (43%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E + + E E EE E E E E E  E+E E E  EE EE E+E E E E + E E E + +
Sbjct: 703 EADHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRK 762

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 43.8 bits (104), Expect = 2e-04
 Identities = 27/39 (69%), Positives = 36/39 (92%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
           F G ++EEEEEEE+E++EEE+EEEEEE EEE+EEEEE++
Sbjct: 435 FAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKK 473

Length = 482

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 21/57 (36%), Positives = 37/57 (64%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++   +     +++  + L
Sbjct: 58  DEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNINDIFNSTQDDNAQNL 114

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 20/60 (33%), Positives = 36/60 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++   +     +++  +  +   
Sbjct: 59  EEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNINDIFNSTQDDNAQNLISKN 118

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 20/58 (34%), Positives = 39/58 (67%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            ++   +E+E ++ +++E  E EE +EEE+E    E++E++ + E+E+EE E+E E E
Sbjct: 41  SDQAAADEQEAKKSDDQETAEIEEVKEEEKEAANSEDKEDKGDAEKEDEESEEENEEE 98

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.2 bits (104), Expect = 2e-04
 Identities = 8/63 (12%), Positives = 11/63 (17%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G +EE  +        E             EE       E       E            
Sbjct: 82  GEKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPP 141

Query: 403 NEG 405
           +  
Sbjct: 142 SHP 144

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.2 bits (104), Expect = 2e-04
 Identities = 8/62 (12%), Positives = 18/62 (29%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
              E E +     + E        +   +E  E +    ++      ++  E E+E    
Sbjct: 181 PTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDEPTEP 240

Query: 403 NE 404
             
Sbjct: 241 ER 242

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 44.2 bits (104), Expect = 2e-04
 Identities = 9/60 (15%), Positives = 17/60 (28%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                +   E+  EE E    E E +     + E        +   +E  E +     + 
Sbjct: 163 PSSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQA 222

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 6/57 (10%), Positives = 6/57 (10%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
                 E             EE       E       E                  E
Sbjct: 92  PSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHE 148

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 9/60 (15%), Positives = 18/60 (30%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E+  EE E    E E +     + E        +   +E  E +    ++      +   
Sbjct: 172 EDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAV 231

Length = 413

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 43.9 bits (103), Expect = 2e-04
 Identities = 21/62 (33%), Positives = 37/62 (59%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LEE +++ EE  +  EEEE+  ++EE + +  EEEE+   +EE E    E  E+ +++  
Sbjct: 216 LEELKKKREERRKVLEEEEQRRKQEEADRKSREEEEKRRLKEEIERRRAEAAEKRQKVPE 275

Query: 404 EG 405
           +G
Sbjct: 276 DG 277

Length = 431

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 43.6 bits (103), Expect = 2e-04
 Identities = 11/58 (18%), Positives = 29/58 (50%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           +E  ++ E+E    +E++++ EE  ++   ++++ EE   +     + + E E K   
Sbjct: 100 QERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAA 157

Length = 387

>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 25/48 (52%), Positives = 31/48 (64%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
               EE EE E+ EEEE EEEE EEE E EEE++E  E E + EE ++
Sbjct: 10  EPDAEETEEAEKSEEEEAEEEEPEEENELEEEQQEIAELEAQLEELKD 57

Length = 193

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.4 bits (104), Expect = 2e-04
 Identities = 38/136 (27%), Positives = 69/136 (50%), Gaps = 4/136 (2%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            L++E EE ++ EE +++E EE+++ EE ++ EEE + + EE ++E EE++++ EE + + 
Sbjct: 1694 LKKEAEEAKKAEELKKKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKAEEAKKDE 1753

Query: 404  EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRK--KRLEEESNVIGSNFRWSDFSAKT 461
            E       L++   +   E  +EK      EL  +  KR  E    I   F   +F+   
Sbjct: 1754 EEKKKIAHLKKEEEKKAEEIRKEKEAVIEEELDEEDEKRRMEVDKKIKDIF--DNFANII 1811

Query: 462  RFGWDYLPYINTGKRL 477
              G +    IN  K +
Sbjct: 1812 EGGKEGNLVINDSKEM 1827

Length = 2084

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 19/59 (32%), Positives = 32/59 (54%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCD 408
           EE  ++  EE+ +EE+ ++++ +  E+ E   EE E  +E EE+E E       EG  D
Sbjct: 220 EETGDDGIEEDADEEDGDDDQPDNNEDSEAGREESEGSDESEEDEAEATDGEGEEGEMD 278

Length = 620

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 19/53 (35%), Positives = 29/53 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           + + EE EE+EEE E+ E+  +EE+EE EE EEE     +      +   +E 
Sbjct: 25  DSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSSKSSSQET 77

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 42.2 bits (99), Expect = 2e-04
 Identities = 19/55 (34%), Positives = 28/55 (50%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
             + EE EE+EEE E+ E+  +EE+EE EE EEE     +      +   +E   
Sbjct: 25  DSQAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSSKSSSQETIS 79

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein

 Score = 41.7 bits (98), Expect = 2e-04
 Identities = 17/49 (34%), Positives = 29/49 (59%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            ++EEEE EEE  +E E+E+  E + E +E+++ E  + + EKE     
Sbjct: 94  SDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKTE 142

The YqfQ-like protein family includes the B. subtilis YqfQ protein, also known as VrrA, which is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are typically between 146 and 237 amino acids in length. There are two conserved sequence motifs: QYGP and PKLY. Length = 155

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 44.6 bits (105), Expect = 2e-04
 Identities = 24/64 (37%), Positives = 39/64 (60%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
              L  +E+EE E  ++E E+EEE   +  +E +EEE+E++ +EEE +   +EEEE + E
Sbjct: 243 LQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLLAKEEEELKSE 302

Query: 401 LENE 404
           L   
Sbjct: 303 LLKL 306

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 44.6 bits (105), Expect = 2e-04
 Identities = 24/69 (34%), Positives = 43/69 (62%)

Query: 336 FDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
              +    L +E   +E+EE E  ++E E+EEE   +  +E +EEE+E++ +EEE +   
Sbjct: 234 KLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEELKLLA 293

Query: 396 EEEKELENE 404
           +EE+EL++E
Sbjct: 294 KEEEELKSE 302

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 44.2 bits (104), Expect = 2e-04
 Identities = 30/84 (35%), Positives = 53/84 (63%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +++  EE +  E++ +E+EEEEE+   ++EEEEEE+ E   +E+E  EEEE+ EK    
Sbjct: 731 AQDKINEELKLLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTEKLKVE 790

Query: 404 EGHCDFVKLREMLIRTNMEDMREK 427
           E   + +K +E  +R   E+++E+
Sbjct: 791 EEKEEKLKAQEEELRALEEELKEE 814

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 44.5 bits (105), Expect = 2e-04
 Identities = 16/56 (28%), Positives = 31/56 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            E E+EE+ E E E +E    +E E  + E E  EEE  + ++++  +E +++ + 
Sbjct: 221 TENEQEEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSET 276

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 15/32 (46%), Positives = 28/32 (87%)

Query: 372 EEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            EE+E +++EE+EEEE++EE+++E+E +E E+
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEES 140

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 42.4 bits (99), Expect = 2e-04
 Identities = 20/55 (36%), Positives = 37/55 (67%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E E  EE+ +E E++EE+E E EE+  EE+ ++ E E  E++E E E ++++ ++
Sbjct: 143 EWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQDESETESDDDKTEK 197

Length = 197

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 44.2 bits (104), Expect = 2e-04
 Identities = 16/61 (26%), Positives = 31/61 (50%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++ ++E  EE+   +      + EE E++   E   + E E++E+ EE EEE+ +E    
Sbjct: 275 DDGDDEGREEDYISDSSASGNDPEEREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEGGL 334

Query: 405 G 405
            
Sbjct: 335 S 335

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 11/57 (19%), Positives = 36/57 (63%)

Query: 333 YSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
               D +     E+ ++++++  + +++  +++   +++ +EE+ +EE++E+EE+EE
Sbjct: 73  VDEIDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|218303 pfam04874, Mak16, Mak16 protein C-terminal region

 Score = 40.6 bits (95), Expect = 2e-04
 Identities = 23/45 (51%), Positives = 31/45 (68%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++  E EE EE +EEEEEEEEEE+E E E   ++EE EE+  + E
Sbjct: 52  KKALEAEESEENDEEEEEEEEEEDEGEIEYVSDDEELEEEIEDLE 96

The precise function of this eukaryotic protein family is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni Mak16 has been shown to target protein transport to the nucleolus. Length = 97

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.7 bits (106), Expect = 2e-04
 Identities = 26/57 (45%), Positives = 30/57 (52%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E E     E  EE E E EE EE  EE +E+ E  +EE EE E   EE E+   ELE
Sbjct: 301 EGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELE 357

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 26/84 (30%), Positives = 39/84 (46%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
               EE E+   E EE +EE EE+     EE EE  E   EE  E E E  E   +  E 
Sbjct: 343 ETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEEL 402

Query: 404 EGHCDFVKLREMLIRTNMEDMREK 427
           +   + ++ R   +   +ED++E+
Sbjct: 403 KREIESLEERLERLSERLEDLKEE 426

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 23/66 (34%), Positives = 27/66 (40%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
                 +EE EE+     EE EE  E   EE  E E E  E   E EE + E E  EE  
Sbjct: 354 AELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERL 413

Query: 399 KELENE 404
           + L   
Sbjct: 414 ERLSER 419

Length = 1163

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 41.2 bits (97), Expect = 2e-04
 Identities = 20/59 (33%), Positives = 36/59 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           +EE +   EE ++E E++ +E +E  +  EEE ++EE+ E E+ E+ E++E E   E  
Sbjct: 51  IEERKRIREERKQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVEDDEWEGFPEPT 109

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|221333 pfam11942, Spt5_N, Spt5 transcription elongation factor, acidic N-terminal

 Score = 40.5 bits (95), Expect = 2e-04
 Identities = 22/56 (39%), Positives = 35/56 (62%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EEEEEEEE++ E+  +E+E  +E E E++      +   E+EEEE+ EE  E  ++
Sbjct: 12  EEEEEEEEDDLEDLSDEDEFIDEAEAEDDRRHRRLDRRREKEEEEDAEELAEYLRK 67

This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4. Length = 92

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 19/55 (34%), Positives = 32/55 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           E+ + E+++EE++ E E+  +   EE+ E E E+ E+E EE E E    E + E 
Sbjct: 20  EKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKAEA 74

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 43.8 bits (103), Expect = 2e-04
 Identities = 16/51 (31%), Positives = 23/51 (45%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
               +   EE  +EE E+E E +E   EE  E E  E + ++  E   E E
Sbjct: 337 KQEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDDLAERLAETE 387

Length = 388

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 22/69 (31%), Positives = 50/69 (72%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           EEE+E+E+ +EE+++++E+ +EE ++ + +EE +E+   +E+E+E+E++ EE ++ E E 
Sbjct: 105 EEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEK 164

Query: 406 HCDFVKLRE 414
             + V+ + 
Sbjct: 165 KRERVRAKS 173

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 43.7 bits (103), Expect = 2e-04
 Identities = 19/62 (30%), Positives = 44/62 (70%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           K       +EEE+E+E+ +EE+++++E+ +EE ++ + +EE +E+   +E+E+E+E++ E
Sbjct: 96  KEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVE 155

Query: 399 KE 400
           + 
Sbjct: 156 EP 157

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional

 Score = 43.9 bits (103), Expect = 2e-04
 Identities = 27/62 (43%), Positives = 42/62 (67%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           GL    + EEE   ++EEEE+E+ EE EE EE E  EEE +++E+ E+++E+E + +  E
Sbjct: 92  GLNIIVKNEEERGTQKEEEEDEDVEEIEEVEEVEVVEEEYDDDEDSEKDDEKESDAEGDE 151

Query: 403 NE 404
           NE
Sbjct: 152 NE 153

Length = 374

>gnl|CDD|218734 pfam05758, Ycf1, Ycf1

 Score = 44.6 bits (106), Expect = 2e-04
 Identities = 17/60 (28%), Positives = 34/60 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E EEE + E E   E +  ++E+E   EE+     EE+E+ ++ E+ ++ E  +++ + E
Sbjct: 234 EREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDKTEDLDKLEILKEKKDEE 293

The chloroplast genomes of most higher plants contain two giant open reading frames designated ycf1 and ycf2. Although the function of Ycf1 is unknown, it is known to be an essential gene. Length = 832

>gnl|CDD|218734 pfam05758, Ycf1, Ycf1

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 20/66 (30%), Positives = 33/66 (50%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCD 408
           +E  E EE EEE + E E   E +  ++E+E   EE+     EE+E+ ++ E  ++    
Sbjct: 227 KETSETEEREEETDVEIETTSETKGTKQEQEGSTEEDPSLFSEEKEDPDKTEDLDKLEIL 286

Query: 409 FVKLRE 414
             K  E
Sbjct: 287 KEKKDE 292

The chloroplast genomes of most higher plants contain two giant open reading frames designated ycf1 and ycf2. Although the function of Ycf1 is unknown, it is known to be an essential gene. Length = 832

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 19/53 (35%), Positives = 23/53 (43%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E E++  E   E   E++  E      EE    EEEE EE   EE   EE  E
Sbjct: 134 EAEKKVNEARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAPAEEAPAEESAE 186

Length = 186

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 44.8 bits (105), Expect = 2e-04
 Identities = 29/61 (47%), Positives = 33/61 (54%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +EE  EE  EE  EE  EE EE  EE  EE  EE  EE  EE  EE ++E  EE  E  +
Sbjct: 1076 IEENIEENVEENVEENVEEIEENVEENVEENAEENAEENAEENAEEYDDENPEEHNEEYD 1135

Query: 404  E 404
            E
Sbjct: 1136 E 1136

Length = 1136

>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed

 Score = 44.1 bits (105), Expect = 2e-04
 Identities = 18/53 (33%), Positives = 33/53 (62%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EE   EE EE E  E+ E   ++   E+ EE EEE++++ +++ +E+++E  E
Sbjct: 333 EENPREEAEEAEAPEKVEFMWDDYHREQLEEVEEEDDDDWDDDWDEDDDEGVE 385

Length = 390

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 44.1 bits (105), Expect = 2e-04
 Identities = 19/60 (31%), Positives = 26/60 (43%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           F+ LEE      EE  E E  +EE  EE  E  +E  E E   +EE+  ++    E    
Sbjct: 377 FSSLEELAYVPVEELLEIEGFDEETVEELRERAKEALETEALAQEEKLADDLLSLEGLDR 436

Length = 470

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 43.7 bits (103), Expect = 2e-04
 Identities = 27/85 (31%), Positives = 42/85 (49%), Gaps = 11/85 (12%)

Query: 330 KNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-- 387
             + SFF  K     E++E  E   +EE EEE  + +   E+E  E    +E+E+E+E  
Sbjct: 216 NIMSSFFKKKTKEKKEKKEASESTVKEESEEESGKRDVILEDESAEPTGLDEDEDEDEPK 275

Query: 388 ---------EEEEEEEEEEEKELEN 403
                    EE EE+E+E+ K L+ 
Sbjct: 276 PSGERSDSEEETEEKEKEKRKRLKK 300

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 11/40 (27%), Positives = 21/40 (52%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
              +  EEE        E++++  E+EEE+++ E+   EE
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 10/73 (13%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE----------EEEEEEEEEEEEEEEE 391
           +  EE E E+E + EE  E++ ++EEEE+ + E+            +EEE EE       
Sbjct: 170 DDEEESESEDESKSEESAEDDSDDEEEEDSDSEDYSQYDGMLVDSSDEEEGEEAPSINYN 229

Query: 392 EEEEEEEKELENE 404
           E+  E E +  + 
Sbjct: 230 EDTSESESDESDS 242

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 16/55 (29%), Positives = 38/55 (69%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            + +++ ++ +++E +E  ++++EEE E E+E + EE  E++ ++EEEE+ + E 
Sbjct: 149 GKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEEEDSDSED 203

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 43.7 bits (103), Expect = 2e-04
 Identities = 17/55 (30%), Positives = 39/55 (70%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           G  +++ ++ +++E +E  ++++EEE E E+E + EE  E++ ++EEEE+ + E+
Sbjct: 149 GKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEEEDSDSED 203

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 21/47 (44%), Positives = 29/47 (61%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           + + E E E  EEEEEE EE EEE EE+  + +  +   EE +E+EE
Sbjct: 140 KPKNEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEE 186

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 21/47 (44%), Positives = 29/47 (61%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           + + E E E  EEEEEE EE EEE EE+  + +  +   EE +E+EE
Sbjct: 140 KPKNEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEE 186

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 21/47 (44%), Positives = 29/47 (61%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           + + E E E  EEEEEE EE EEE EE+  + +  +   EE +E+EE
Sbjct: 140 KPKNEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEE 186

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 45.0 bits (106), Expect = 2e-04
 Identities = 18/63 (28%), Positives = 32/63 (50%)

Query: 342  NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            N L E+++ EE   EE+   + + +E E  E E +     ++    E E  + EEE ++L
Sbjct: 3829 NTLNEDDDLEELANEEDTANQSDLDESEARELESDMNGVTKDSVVSENENSDSEEENQDL 3888

Query: 402  ENE 404
            + E
Sbjct: 3889 DEE 3891

Length = 4600

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 12/41 (29%), Positives = 15/41 (36%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
           +EEE+                 E    E E E E EEE E+
Sbjct: 114 MEEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 13/42 (30%), Positives = 15/42 (35%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           L EEE+                 E    E E E E EEE E+
Sbjct: 113 LMEEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 40.7 bits (96), Expect = 2e-04
 Identities = 14/29 (48%), Positives = 18/29 (62%)

Query: 374 EEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
                  EE++EEEEEEEE+EE EE+   
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 15/57 (26%), Positives = 36/57 (63%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E+E +++ E++ EE E++   E+  ++E E+    E+  ++ E+  ++ EE++K+ E
Sbjct: 66  EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAE 122

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 44.4 bits (105), Expect = 2e-04
 Identities = 28/61 (45%), Positives = 38/61 (62%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +EE E +  E  E+ E+  E  EEE +E ++ EE +EE+EEEE E+E E  EE   ELE 
Sbjct: 187 IEELEGQLSELLEDIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEE 246

Query: 404 E 404
           E
Sbjct: 247 E 247

Length = 908

>gnl|CDD|184538 PRK14149, PRK14149, heat shock protein GrpE; Provisional

 Score = 42.6 bits (100), Expect = 2e-04
 Identities = 22/74 (29%), Positives = 43/74 (58%), Gaps = 3/74 (4%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE--- 404
           ++E  +E +   ++E E EE+    +E++ EE++E  E+E E +E+ E + KE+  +   
Sbjct: 2   KDEHNQEHDHLSQKEPESEEKACACKEQQGEEKQEASEKEGEIKEDFELKYKEMHEKYLR 61

Query: 405 GHCDFVKLREMLIR 418
            H DF  +++ L R
Sbjct: 62  VHADFENVKKRLER 75

Length = 191

>gnl|CDD|191249 pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylase N-terminal region

 Score = 43.0 bits (101), Expect = 2e-04
 Identities = 19/103 (18%), Positives = 39/103 (37%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+   E+    ++EE+   +E + +E++    E+ ++ +E  E  +  EE E+     E 
Sbjct: 109 LQSLLEKIVVSKQEEDGPGKEPQLDEDKFLLAEDSDDRQETLEAGKVHEETEDSYHVEET 168

Query: 404 EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESN 446
                   ++E       ED +E              + EE  
Sbjct: 169 ASEQYKQDMKEKASEQENEDSKEPVEKAERTKAETDDVTEEDY 211

This family includes the N-terminal regions of the junctin, junctate and aspartyl beta-hydroxylase proteins. Junctate is an integral ER/SR membrane calcium binding protein, which comes from an alternatively spliced form of the same gene that generates aspartyl beta-hydroxylase and junctin. Aspartyl beta-hydroxylase catalyzes the post-translational hydroxylation of aspartic acid or asparagine residues contained within epidermal growth factor (EGF) domains of proteins. Length = 240

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 12/57 (21%), Positives = 47/57 (82%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           L EE E+ ++E EE+++ + ++++ ++++++++++++++++++ E+++E+E E++ E
Sbjct: 67  LAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLE 123

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|234055 TIGR02907, spore_VI_D, stage VI sporulation protein D

 Score = 43.3 bits (102), Expect = 2e-04
 Identities = 25/80 (31%), Positives = 43/80 (53%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LE E E   EEE  EE E+E E E E+EE+  +E+ E+ ++E+    + ++  EE+E + 
Sbjct: 210 LESEVEASPEEENYEEYEDETELEVEDEEKALDEQTEDPQQEDALAGDAKKALEEEEEKG 269

Query: 404 EGHCDFVKLREMLIRTNMED 423
           E   +   L ++  +   E 
Sbjct: 270 ERPENATYLTKLFRKAEEEQ 289

SpoVID, the stage VI sporulation protein D, is restricted to endospore-forming members of the bacteria, all of which are found among the Firmicutes. It is widely distributed but not quite universal in this group. Between well-conserved N-terminal and C-terminal domains is a poorly conserved, low-complexity region of variable length, rich enough in glutamic acid to cause spurious BLAST search results unless a filter is used. The seed alignment for this model was trimmed, in effect, by choosing member sequences in which these regions are relatively short. SpoVID is involved in spore coat assembly by the mother cell compartment late in the process of sporulation [Cellular processes, Sporulation and germination]. Length = 338

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 17/65 (26%), Positives = 30/65 (46%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
              L +E  +  E+E+  E EEE+ E +  +EE ++ + E +  EE  +E E +     E
Sbjct: 8   LAELAKELRKLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAASGE 67

Query: 401 LENEG 405
                
Sbjct: 68  GGGGE 72

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|221179 pfam11711, Tim54, Inner membrane protein import complex subunit Tim54

 Score = 43.6 bits (103), Expect = 2e-04
 Identities = 18/57 (31%), Positives = 23/57 (40%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           L+  E  E   +E   E E E     E   E  EE  E   EE E+  EEE  +  +
Sbjct: 195 LDPPEPPEPTVDEAAPETEVEATPAAESPAEPAEETAETTPEETEDAPEEENNKPVK 251

Mitochondrial function depends on the import of hundreds of different proteins synthesised in the cytosol. Protein import is a multi-step pathway which includes the binding of precursor proteins to surface receptors, translocation of the precursor across one or both mitochondrial membranes, and folding and assembly of the imported protein inside the mitochondrion. Most precursor proteins carry amino-terminal targeting signals, called pre-sequences, and are imported into mitochondria via import complexes located in both the outer and the inner membrane (IM). The IM complex, TIM, is made up of at least two proteins which mediate translocation of proteins into the matrix by removing their signal peptide and another pair of proteins, Tim54 and Tim22, that insert the polytopic proteins, that carry internal targetting information, into the inner membrane. Length = 377

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.8 bits (103), Expect = 3e-04
 Identities = 24/60 (40%), Positives = 36/60 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE EE E+E E E E + E E E + +E E E E E E +E+E+E E +  E+ E++ +
Sbjct: 735 GEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKGD 794

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.8 bits (103), Expect = 3e-04
 Identities = 25/61 (40%), Positives = 36/61 (59%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  EE EE E+E E E E + E E E + +E E E E E E +E+E+E E +  ++ E +
Sbjct: 733 ETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMK 792

Query: 405 G 405
           G
Sbjct: 793 G 793

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.8 bits (103), Expect = 3e-04
 Identities = 25/66 (37%), Positives = 30/66 (45%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G   E E   E   EE E   E E E  EE   E E+E E E + E E E E   E++ E
Sbjct: 633 GDVAEAEHTGERTGEEGERPTEAEGENGEESGGEAEQEGETETKGENESEGEIPAERKGE 692

Query: 403 NEGHCD 408
            EG  +
Sbjct: 693 QEGEGE 698

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.8 bits (103), Expect = 3e-04
 Identities = 24/61 (39%), Positives = 31/61 (50%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E E  EE   E E+E E E + E E E E   E + E+E E E E +E + + E E E
Sbjct: 654 EAEGENGEESGGEAEQEGETETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAE 713

Query: 405 G 405
            
Sbjct: 714 E 714

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.8 bits (103), Expect = 3e-04
 Identities = 19/64 (29%), Positives = 35/64 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             E + E E E E  E++E E + E + ++ E ++E  E+E   E + E +++EK ++  
Sbjct: 796 GAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVDGG 855

Query: 405 GHCD 408
           G  D
Sbjct: 856 GGSD 859

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 43.4 bits (103), Expect = 3e-04
 Identities = 19/62 (30%), Positives = 40/62 (64%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            LE  EEE E     ++  ++ ++  E+ E++ EEE++E++++    +++EEEEEE++ +
Sbjct: 391 FLELTEEEIEFLTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEK 450

Query: 403 NE 404
            E
Sbjct: 451 KE 452

Length = 482

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 43.6 bits (103), Expect = 3e-04
 Identities = 22/70 (31%), Positives = 40/70 (57%)

Query: 329 DKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           D + ++ F   +   L E   +++  + +E E++   +     E E+   E ++EEEE+E
Sbjct: 337 DADAFTHFQEGFTQALWETLNKQKWTKAKETEQDYILDAFSALEIEDANTERDDEEEEDE 396

Query: 389 EEEEEEEEEE 398
           EEEEEE+E+E
Sbjct: 397 EEEEEEDEDE 406

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 10/65 (15%), Positives = 19/65 (29%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           F     E+  EE E    E E +     + E        +   +E  E +    ++    
Sbjct: 166 FLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSP 225

Query: 401 LENEG 405
              + 
Sbjct: 226 NTQQA 230

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 10/60 (16%), Positives = 20/60 (33%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E    E E +     + E        +   +E  E +    ++      ++  E E+E
Sbjct: 177 EPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAPSPNTQQAVEHEDE 236

Length = 413

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 9/64 (14%), Positives = 19/64 (29%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +   +   E+  EE E    E E +     + E        +   +E  E +    ++  
Sbjct: 164 SSFLQPSHEDSPEEPEPPTSEPEPDSPGPPQSETPTSSPPPQSPPDEPGEPQSPTPQQAP 223

Query: 402 ENEG 405
               
Sbjct: 224 SPNT 227

Length = 413

>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis)

 Score = 43.2 bits (102), Expect = 3e-04
 Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 11/75 (14%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----------EEEEEEEE 389
            + + E   EE +++ EEE ++E   E  E E E   +              E+  +E E
Sbjct: 234 LDEMSEGLLEESDDDGEEESDDESAWEGFESEYEPINKPVRPKRKTKAQRNKEKRRKELE 293

Query: 390 EEEEEEEEEKELENE 404
            E +EE++ K+   +
Sbjct: 294 REAKEEKQLKKKLAQ 308

This nucleolar family of proteins are involved in 60S ribosomal biogenesis. They are specifically involved in the processing beyond the 27S stage of 25S rRNA maturation. This family contains sequences that bear similarity to the glioma tumour suppressor candidate region gene 2 protein (p60). This protein has been found to interact with herpes simplex type 1 regulatory proteins. Length = 387

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 43.1 bits (101), Expect = 3e-04
 Identities = 31/77 (40%), Positives = 38/77 (49%), Gaps = 16/77 (20%)

Query: 342 NGLEEEEEEE-------EEEEEEEEEEEEEEE---------EEEEEEEEEEEEEEEEEEE 385
           +G EEEE+EE       E   E  EEEEEE E         + E E  ++++ EEEE EE
Sbjct: 186 DGREEEEDEEVGSDSYGEGNRELNEEEEEEAEGSDDGEDVVDYEGERIDKKQGEEEEMEE 245

Query: 386 EEEEEEEEEEEEEKELE 402
           E     E E EEE   E
Sbjct: 246 EVINLFEIEWEEESPSE 262

Length = 279

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 41.7 bits (98), Expect = 3e-04
 Identities = 22/58 (37%), Positives = 38/58 (65%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
            +E+EEE+E  +E  + +EEE++ E EE E+E+E  E E E+  E++E+E+  + E  
Sbjct: 36  ADEKEEEKENSDEHVKSKEEEQKIEYEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEK 93

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 44.0 bits (103), Expect = 3e-04
 Identities = 27/99 (27%), Positives = 54/99 (54%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE + + EE ++ EEE+++ E+ +++E EE+++ EE ++ EEE + +  EE ++ E + +
Sbjct: 1616 EEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKK 1675

Query: 405  GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
               +  K  E   +      +E    +  E  +KK  EE
Sbjct: 1676 KAEEAKKAEEDEKKAAEALKKEAEEAKKAEELKKKEAEE 1714

Length = 2084

>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 14/31 (45%), Positives = 26/31 (83%)

Query: 374 EEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE+E +++EE+EEEE++EE+++E++  E E
Sbjct: 109 SEEDESDDDEEDEEEEDDEEDDDEDESEEEE 139

Nucleoplasmins are also known as chromatin decondensation proteins. They bind to core histones and transfer DNA to them in a reaction that requires ATP. This is thought to play a role in the assembly of regular nucleosomal arrays. Length = 146

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 20/80 (25%), Positives = 40/80 (50%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHC 407
           + ++ E  E+  +  + + E+  ++EEEEEE+E  E+E  ++E+E +   E E   E   
Sbjct: 93  KLQDSESHEDGSDGSDMDSEDSADDEEEEEEDESLEDEMIDDEDEADLFNESESSLEDLS 152

Query: 408 DFVKLREMLIRTNMEDMREK 427
           D     +   +   E+  E+
Sbjct: 153 DDETEDDEEKKMEEEEAGEE 172

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 40.7 bits (96), Expect = 3e-04
 Identities = 20/58 (34%), Positives = 33/58 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             + E+++EE++ E E+  +   EE+ E E E+ E+E EE E E    E + E +K L
Sbjct: 21  KAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKAEAKKML 78

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 11/61 (18%), Positives = 20/61 (32%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             + + E      EE      E  +E E E  E+     +  + +E       +   E +
Sbjct: 386 AHQVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPIPDPAKPDELAVAGPGDDPAEPD 445

Query: 405 G 405
           G
Sbjct: 446 G 446

Length = 460

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 10/55 (18%), Positives = 18/55 (32%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           G    +     + + E      EE      E  +E E E  E+     +  + +E
Sbjct: 377 GDLAGQAPAAHQVDAEAASAAPEEPAALASEAHDETEPEVPEKAAPIPDPAKPDE 431

Length = 460

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 13/55 (23%), Positives = 44/55 (80%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           EEE  EEE+++EE+++++++E+E++++++++E++E+E++++    ++   ++  +
Sbjct: 46  EEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGNE 100

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 14/50 (28%), Positives = 41/50 (82%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDF 409
           +E EEE  EEE+++EE+++++++E+E++++++++E++E+++ ++    D 
Sbjct: 43  KEAEEEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDD 92

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 19/59 (32%), Positives = 30/59 (50%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           Y+  + E  E  E++E +   EE  +EE E+E E +E   EE  E E  E + ++  E 
Sbjct: 324 YYEDIFEVVEVVEKQEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDDLAER 382

Length = 388

>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

 Score = 43.0 bits (101), Expect = 3e-04
 Identities = 20/67 (29%), Positives = 34/67 (50%)

Query: 338 CKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            +  N ++E  +  +  E+  E  E  E++E +   EE  +EE E+E E +E   EE  E
Sbjct: 309 ERNGNRIKELADFGDYYEDIFEVVEVVEKQEGDVVTEESTDEESEDEVEIDESVIEEVAE 368

Query: 398 EKELENE 404
            + LE +
Sbjct: 369 MELLEVQ 375

Length = 388

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 44.0 bits (103), Expect = 3e-04
 Identities = 31/77 (40%), Positives = 38/77 (49%)

Query: 328  IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
            +++N+    +      +EE EE  EE  EE  EE  EE  EE EE  EE  EE  EE  E
Sbjct: 1053 VEENIEENIEEYDEENVEEIEENIEENIEENVEENVEENVEEIEENVEENVEENAEENAE 1112

Query: 388  EEEEEEEEEEEKELENE 404
            E  EE  EE + E   E
Sbjct: 1113 ENAEENAEEYDDENPEE 1129

Length = 1136

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 43.6 bits (102), Expect = 3e-04
 Identities = 32/80 (40%), Positives = 39/80 (48%)

Query: 347  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
            EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  +E + E  
Sbjct: 968  EENVEENVEENVEENVEENVEENVEENVEENVEENIEENVEENVEENIEENVEEYDEENV 1027

Query: 407  CDFVKLREMLIRTNMEDMRE 426
             +  +  E     N+E++ E
Sbjct: 1028 EEVEENVEEYDEENVEEIEE 1047

Length = 1136

>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed

 Score = 43.3 bits (103), Expect = 3e-04
 Identities = 17/53 (32%), Positives = 34/53 (64%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EE   EE EE E  E+ E   ++   E+ EE EEE++++ +++ +E++++ +E
Sbjct: 333 EENPREEAEEAEAPEKVEFMWDDYHREQLEEVEEEDDDDWDDDWDEDDDEGVE 385

Length = 390

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 43.3 bits (102), Expect = 3e-04
 Identities = 15/59 (25%), Positives = 40/59 (67%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             + + +++ ++ +++E +E  ++++EEE E E+E + EE  E++ ++EEEE+ + ++ 
Sbjct: 146 AKKGKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEEEDSDSEDY 204

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|221250 pfam11831, Myb_Cef, pre-mRNA splicing factor component

 Score = 43.5 bits (103), Expect = 3e-04
 Identities = 21/44 (47%), Positives = 27/44 (61%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           N  E E  EEEEEE EE EEE EE+  + +  +   EE +E+EE
Sbjct: 143 NEFELELPEEEEEEPEEMEEELEEDAADRDARKRAAEEAKEQEE 186

This family is a region of the Myb-Related Cdc5p/Cef1 proteins, in fungi, and is part of the pre-mRNA splicing factor complex. Length = 363

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.9 bits (99), Expect = 3e-04
 Identities = 12/40 (30%), Positives = 14/40 (35%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           EEE+                 E    E E E E EEE E+
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 43.7 bits (104), Expect = 3e-04
 Identities = 22/57 (38%), Positives = 26/57 (45%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEEE  +EE + E EEE + E EE    E EEE + E       EE  E     E  
Sbjct: 39  EEEEARKEEAKREAEEEAKAEAEEAAAAEAEEEAKAEAAAAAPAEEAAEAAAAAEAA 95

Length = 746

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 43.0 bits (102), Expect = 3e-04
 Identities = 20/55 (36%), Positives = 38/55 (69%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           EEEE+  +  EEE +EE +E++EE+++EE E +  +   EE+ + EE+E +++ +
Sbjct: 267 EEEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQAR 321

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 43.3 bits (102), Expect = 3e-04
 Identities = 14/58 (24%), Positives = 34/58 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            E++ EE E++   E+  ++E E+    E+  ++ E+  ++ EE++++ EE + K+  
Sbjct: 73  LEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAA 130

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 43.3 bits (102), Expect = 3e-04
 Identities = 15/60 (25%), Positives = 36/60 (60%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LE++ EE E++   E+  ++E E+    E+  ++ E+  ++ EE++++ EE + ++  E 
Sbjct: 73  LEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEA 132

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 40.0 bits (94), Expect = 3e-04
 Identities = 18/28 (64%), Positives = 20/28 (71%)

Query: 375 EEEEEEEEEEEEEEEEEEEEEEEEKELE 402
                EEEEEEEEEEEEEEEE EE+ + 
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEEAMA 98

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.6 bits (103), Expect = 3e-04
 Identities = 32/62 (51%), Positives = 38/62 (61%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            LE EE EEE   E+EE E  EE EE E+E  E EEE  E  E EE  +EE EE+ ++LE
Sbjct: 480 ELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLE 539

Query: 403 NE 404
           N 
Sbjct: 540 NL 541

Length = 908

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 42.1 bits (99), Expect = 3e-04
 Identities = 25/74 (33%), Positives = 38/74 (51%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +EE E+ EE   E E E E+ +E+ +   E  +  EE  E  EE  +E  +E +EL  + 
Sbjct: 92  QEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERLESLEESIKELAKELRELRQDL 151

Query: 406 HCDFVKLREMLIRT 419
             +  +LRE L R 
Sbjct: 152 REEVEELREELERL 165

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|235562 PRK05687, fliH, flagellar assembly protein H; Validated

 Score = 42.6 bits (101), Expect = 3e-04
 Identities = 15/48 (31%), Positives = 17/48 (35%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
              E    E      E  E EE  EEE     EEE E   ++   EG 
Sbjct: 26  PPPEPPPPEPAAPPPEPPEPEEVPEEEAAPLTEEELEAIRQQAHEEGF 73

Length = 246

>gnl|CDD|227504 COG5177, COG5177, Uncharacterized conserved protein [Function unknown]

 Score = 43.5 bits (102), Expect = 3e-04
 Identities = 32/149 (21%), Positives = 63/149 (42%), Gaps = 9/149 (6%)

Query: 334 SFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           SF+  K+    E+EEEE+ +  +EE      ++++ +E + EE   +EE   ++ E  EE
Sbjct: 386 SFYQAKWA---EDEEEEDGQCNDEESTMSAIDDDDPKENDNEEVAGDEESAIDDNEGFEE 442

Query: 394 EEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGSNFR 453
              EE+E +     D  K  +       E    ++    Y+ YR  R     N+   ++R
Sbjct: 443 LSPEEEERQLREFRDMEK-EDREFPDEAELQPSESAIERYKEYRGLR-----NLYTCSWR 496

Query: 454 WSDFSAKTRFGWDYLPYINTGKRLPKIIL 482
             +        W  L + +  +    +++
Sbjct: 497 SDEKDPSFPEEWKSLVFFDNYRNAKNLVV 525

Length = 769

>gnl|CDD|240413 PTZ00423, PTZ00423, glideosome-associated protein 45; Provisional

 Score = 42.0 bits (98), Expect = 3e-04
 Identities = 23/60 (38%), Positives = 40/60 (66%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L++E EE  E++ E+  EE E++ EE  E+EEE EE++ +EE +   +E +  +EK L++
Sbjct: 27  LKKEVEEIPEQKPEDIVEELEDQPEEPPEQEEENEEQKPKEEIDYPIQENKSFDEKNLDD 86

Length = 193

>gnl|CDD|225887 COG3351, FlaD, Putative archaeal flagellar protein D/E [Cell motility and secretion]

 Score = 42.1 bits (99), Expect = 3e-04
 Identities = 18/58 (31%), Positives = 31/58 (53%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
             L+E+ EE   + ++ ++E  EE  E  E+ +E    E+ +  EEE  E+E+   EK
Sbjct: 21  EELKEKIEELPIQAKKSDDELVEELPERYEQTKENSLIEKVDSIEEEISEKEKVMSEK 78

Length = 214

>gnl|CDD|225368 COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]

 Score = 40.1 bits (94), Expect = 3e-04
 Identities = 27/59 (45%), Positives = 35/59 (59%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +EE EE +EE E+  +E  EE  E  EE EEE E+  +E  EE  EE EEE +E+  E 
Sbjct: 20  DEEIEEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEILEEAREEAEEEAEEILAEA 78

Length = 108

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 43.4 bits (102), Expect = 3e-04
 Identities = 16/54 (29%), Positives = 26/54 (48%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
             EE E ++   +      E++ ++    E+ E E    EE E EEE E+ E+E
Sbjct: 342 GNEEAERKDYILDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDE 395

Length = 776

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 43.4 bits (102), Expect = 4e-04
 Identities = 25/60 (41%), Positives = 31/60 (51%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           + + E E EE E E E E E  E+E E E  EE EE E+E E E E + E E +    E 
Sbjct: 705 DHKGETEAEEVEHEGETEAEGTEDEGEIETGEEGEEVEDEGEGEAEGKHEVETEGDRKET 764

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 43.4 bits (102), Expect = 4e-04
 Identities = 23/61 (37%), Positives = 30/61 (49%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE E+EEEEEE E +   EEE E   E + + EE EE+ E    E        +  +  
Sbjct: 464 EEEGEDEEEEEEVEADNGSEEEMEGSSEGDGDGEEPEEDAERRNSEMAGISRMSEGQQPR 523

Query: 405 G 405
           G
Sbjct: 524 G 524

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 43.2 bits (101), Expect = 4e-04
 Identities = 27/100 (27%), Positives = 54/100 (54%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            ++ EE ++ EE + + EE ++ EEE+++ E+ +++E EE+++ EE ++ EEE + K  E 
Sbjct: 1607 MKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEE 1666

Query: 404  EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
                +  K +    +   ED ++       E    K+ EE
Sbjct: 1667 AKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEAKKAEE 1706

Length = 2084

>gnl|CDD|217450 pfam03247, Prothymosin, Prothymosin/parathymosin family

 Score = 39.9 bits (93), Expect = 4e-04
 Identities = 26/60 (43%), Positives = 37/60 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E++E  EE+E  +       E EE   +E ++E EEEEE +E++EEEE E EEE+  E E
Sbjct: 18  EKKEVVEEKENGKNAPANGNENEENGAQEGDDEMEEEEEVDEDDEEEEGEGEEEEGEEEE 77

Prothymosin alpha and parathymosin are two ubiquitous small acidic nuclear proteins that are thought to be involved in cell cycle progression, proliferation, and cell differentiation. Length = 106

>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit [Transcription]

 Score = 41.3 bits (97), Expect = 4e-04
 Identities = 16/59 (27%), Positives = 41/59 (69%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            E+++ + +++E +  EE +E+E + +E++EEEE++E +  ++E ++E+E++ E+    
Sbjct: 95  TEKKDIKAKDKEVDAFEEGDEDELDYDEDKEEEEDDEVDSLDDENDDEDEDDDEIVEIL 153

Length = 175

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.4 bits (102), Expect = 4e-04
 Identities = 24/70 (34%), Positives = 35/70 (50%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             E E EE   EE +E+E+EE+ +EEEEE  +     +EE          E EE++E  N+
Sbjct: 934  YESEPEELLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMAIAEFEEKEERYNK 993

Query: 405  GHCDFVKLRE 414
                  +L E
Sbjct: 994  DELKKERLEE 1003

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.4 bits (102), Expect = 4e-04
 Identities = 23/78 (29%), Positives = 37/78 (47%)

Query: 346  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            EEEEE  +     +EE          E EE+EE   ++E ++E  EEE++E  +E+  E 
Sbjct: 957  EEEEERNKRLLLAKEELGNVNLMAIAEFEEKEERYNKDELKKERLEEEKKELLREIIEET 1016

Query: 406  HCDFVKLREMLIRTNMED 423
               F +  E+ +  N   
Sbjct: 1017 CQRFKEFLELFVSINRGL 1034

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 41.6 bits (97), Expect = 4e-04
 Identities = 21/54 (38%), Positives = 35/54 (64%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           +E+ E+  +E EE EE  E E  EE+ +E E++EE+E E EE+  E++ ++  H
Sbjct: 125 QEQIEKARQEREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEH 178

Length = 197

>gnl|CDD|220284 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid)

 Score = 40.0 bits (94), Expect = 4e-04
 Identities = 7/57 (12%), Positives = 37/57 (64%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCD 408
             + E+  +++E+EE+E++   +++++++++++  + ++++ + +++ +   E   D
Sbjct: 47  AADAEDAAKKDEDEEDEDDVVLDDDDDDDDDDDLPDLDDDDVDLDDDDDDFLEDDDD 103

Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown. Length = 104

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 40.7 bits (94), Expect = 4e-04
 Identities = 30/55 (54%), Positives = 35/55 (63%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           G ++    + ++E EEEEE E EEE EEE E EEE EEE E EE  EEE E E E
Sbjct: 51  GADDTNGTDPDDEPEEEEEPEPEEEGEEEPEPEEEGEEEPEPEETGEEEPEPEPE 105

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|217783 pfam03896, TRAP_alpha, Translocon-associated protein (TRAP), alpha subunit

 Score = 42.5 bits (100), Expect = 4e-04
 Identities = 20/50 (40%), Positives = 28/50 (56%)

Query: 331 NLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
           N    F        +EE E++  +E+EE+E   EE+E E  EEEE+EE E
Sbjct: 23  NGKGPFASAQDLTEDEEAEDDVVDEDEEDEAVVEEDENELTEEEEDEEGE 72

The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane. Length = 281

>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated

 Score = 42.5 bits (101), Expect = 4e-04
 Identities = 19/45 (42%), Positives = 27/45 (60%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +++  +EE +E    + +    EEEEEEEEEEEEEE  +E    G
Sbjct: 280 DKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEEAAAG 324

Length = 330

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 43.3 bits (102), Expect = 4e-04
 Identities = 18/60 (30%), Positives = 42/60 (70%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +EE+++++E+ +EE ++ + +EE +E+   +E+E+E+E++ EE  + EEE++ E+     
Sbjct: 114 KEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKS 173

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 43.0 bits (101), Expect = 4e-04
 Identities = 19/60 (31%), Positives = 42/60 (70%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+ +EE+++++E+ +EE ++ + +EE +E+   +E+E+E+E++ EE  + EEE+K     
Sbjct: 111 EQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVR 170

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 41.3 bits (97), Expect = 4e-04
 Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 4/68 (5%)

Query: 342 NGLEEEEEEEE----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           + L + ++  +    E E++  E   E   E++  E      EE    EEEE EE   EE
Sbjct: 119 DKLSKAKKAAKKAALEAEKKVNEARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAPAEE 178

Query: 398 EKELENEG 405
               E+  
Sbjct: 179 APAEESAE 186

Length = 186

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 43.6 bits (102), Expect = 4e-04
 Identities = 30/77 (38%), Positives = 38/77 (49%)

Query: 328  IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
            I++N+  + +       E  EE  EE  EE  EE  EE EE  EE  EE  EE  EE  E
Sbjct: 1057 IEENIEEYDEENVEEIEENIEENIEENVEENVEENVEEIEENVEENVEENAEENAEENAE 1116

Query: 388  EEEEEEEEEEEKELENE 404
            E  EE ++E  +E   E
Sbjct: 1117 ENAEEYDDENPEEHNEE 1133

Length = 1136

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 42.9 bits (101), Expect = 4e-04
 Identities = 16/63 (25%), Positives = 39/63 (61%)

Query: 338 CKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            K      + ++ + +++ ++ +++E +E  ++++EEE E E+E + EE  E++ ++EEE
Sbjct: 137 DKILGIETKAKKGKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEE 196

Query: 398 EKE 400
           E  
Sbjct: 197 EDS 199

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 43.3 bits (103), Expect = 4e-04
 Identities = 21/56 (37%), Positives = 25/56 (44%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EEE  +EE + E EEE + E EE    E EEE + E       EE  E     E  
Sbjct: 40  EEEARKEEAKREAEEEAKAEAEEAAAAEAEEEAKAEAAAAAPAEEAAEAAAAAEAA 95

Length = 746

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 43.3 bits (103), Expect = 4e-04
 Identities = 22/57 (38%), Positives = 26/57 (45%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           EEEE  +EE + E EEE + E EE    E EEE + E       EE  E     E  
Sbjct: 39  EEEEARKEEAKREAEEEAKAEAEEAAAAEAEEEAKAEAAAAAPAEEAAEAAAAAEAA 95

Length = 746

>gnl|CDD|222160 pfam13476, AAA_23, AAA domain

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 26/74 (35%), Positives = 43/74 (58%)

Query: 329 DKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
            + L            E + + +E++E  EE E+E EE E+E++  E+  EE+E+++E E
Sbjct: 131 KEILPLLLYLGQERLEELKFKRKEKKERLEELEKELEELEDEKDLLEKLLEEKEKKKELE 190

Query: 389 EEEEEEEEEEKELE 402
           E +EE EE  +ELE
Sbjct: 191 ELKEELEELLEELE 204

Length = 204

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 39.8 bits (92), Expect = 4e-04
 Identities = 13/35 (37%), Positives = 31/35 (88%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 378
           LE EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 6   LEGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 42.1 bits (100), Expect = 4e-04
 Identities = 24/37 (64%), Positives = 25/37 (67%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
           LE  +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 222 LEGRQGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.2 bits (102), Expect = 4e-04
 Identities = 35/101 (34%), Positives = 49/101 (48%), Gaps = 3/101 (2%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LEE E E EE EEE E      EE EE  E+ +  EE  E+ EE+ E+ E E EE   E 
Sbjct: 293 LEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEK 352

Query: 404 EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
                 ++ R   +   +E++ ++       L R K+LEE 
Sbjct: 353 NELAKLLEERLKELEERLEELEKE---LEKALERLKQLEEA 390

Length = 908

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.2 bits (102), Expect = 4e-04
 Identities = 29/58 (50%), Positives = 34/58 (58%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           EEE   E+EE E  EE EE E+E  E EEE  E  E EE  +EE EE+ E+ E  LE 
Sbjct: 487 EEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENLLEE 544

Length = 908

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 43.1 bits (102), Expect = 4e-04
 Identities = 18/61 (29%), Positives = 31/61 (50%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E   E  +E  +  E+E+  E EEE+ E +  +EE ++ + E +  EE  +E E +    
Sbjct: 6   EALAELAKELRKLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAAS 65

Query: 405 G 405
           G
Sbjct: 66  G 66

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 43.1 bits (102), Expect = 4e-04
 Identities = 20/68 (29%), Positives = 32/68 (47%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           K    L E+E+  E EEE+ E +  +EE ++ + E +  EE  +E E +     E    E
Sbjct: 13  KELRKLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAASGEGGGGE 72

Query: 399 KELENEGH 406
           +E E    
Sbjct: 73  EEEEEAKA 80

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 42.7 bits (101), Expect = 4e-04
 Identities = 20/62 (32%), Positives = 33/62 (53%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+E  E   E  +E  +  E+E+  E EEE+ E +  +EE ++ + E +  EE   ELE 
Sbjct: 1   LKELREALAELAKELRKLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEA 60

Query: 404 EG 405
           + 
Sbjct: 61  KP 62

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|221179 pfam11711, Tim54, Inner membrane protein import complex subunit Tim54

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 21/69 (30%), Positives = 25/69 (36%), Gaps = 4/69 (5%)

Query: 340 YFNGLEE----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           Y  GL E      +  E  E   +E   E E E     E   E  EE  E   EE E+  
Sbjct: 183 YIRGLHEGWLGPLDPPEPPEPTVDEAAPETEVEATPAAESPAEPAEETAETTPEETEDAP 242

Query: 396 EEEKELENE 404
           EEE     +
Sbjct: 243 EEENNKPVK 251

Mitochondrial function depends on the import of hundreds of different proteins synthesised in the cytosol. Protein import is a multi-step pathway which includes the binding of precursor proteins to surface receptors, translocation of the precursor across one or both mitochondrial membranes, and folding and assembly of the imported protein inside the mitochondrion. Most precursor proteins carry amino-terminal targeting signals, called pre-sequences, and are imported into mitochondria via import complexes located in both the outer and the inner membrane (IM). The IM complex, TIM, is made up of at least two proteins which mediate translocation of proteins into the matrix by removing their signal peptide and another pair of proteins, Tim54 and Tim22, that insert the polytopic proteins, that carry internal targetting information, into the inner membrane. Length = 377

>gnl|CDD|225887 COG3351, FlaD, Putative archaeal flagellar protein D/E [Cell motility and secretion]

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 18/60 (30%), Positives = 31/60 (51%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
               EE +E+ EE   + ++ ++E  EE  E  E+ +E    E+ +  EEE  E+EK + 
Sbjct: 17  AFALEELKEKIEELPIQAKKSDDELVEELPERYEQTKENSLIEKVDSIEEEISEKEKVMS 76

Length = 214

>gnl|CDD|225887 COG3351, FlaD, Putative archaeal flagellar protein D/E [Cell motility and secretion]

 Score = 41.8 bits (98), Expect = 4e-04
 Identities = 18/58 (31%), Positives = 31/58 (53%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           LEE +E+ EE   + ++ ++E  EE  E  E+ +E    E+ +  EEE  E+E+    
Sbjct: 20  LEELKEKIEELPIQAKKSDDELVEELPERYEQTKENSLIEKVDSIEEEISEKEKVMSE 77

Length = 214

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 43.1 bits (101), Expect = 4e-04
 Identities = 21/77 (27%), Positives = 34/77 (44%)

Query: 332 LYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           L  +  C + N   E+   EE E ++   +      E++ ++    E+ E E    EE E
Sbjct: 325 LSKYIGCLWRNLNNEKWGNEEAERKDYILDSSSVPLEKQFDDILYFEKMEIENRNPEESE 384

Query: 392 EEEEEEEKELENEGHCD 408
            EEE E+ E EN+    
Sbjct: 385 HEEEVEDYEDENDHSKR 401

Length = 776

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 43.1 bits (101), Expect = 4e-04
 Identities = 17/62 (27%), Positives = 30/62 (48%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
            EE E ++   +      E++ ++    E+ E E    EE E EEE E+ E++   ++  
Sbjct: 343 NEEAERKDYILDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRI 402

Query: 407 CD 408
           CD
Sbjct: 403 CD 404

Length = 776

>gnl|CDD|221429 pfam12118, SprA-related, SprA-related family

 Score = 42.5 bits (100), Expect = 4e-04
 Identities = 14/55 (25%), Positives = 36/55 (65%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
              +E +++  E  +EE   EEE E+++ E  ++  ++++E++++EE++ +EL+ 
Sbjct: 64  SASQELQKQASESNDEEVVGEEEPEKDQAEAGKQLSQKQQEQQQQEEKQVRELKA 118

This protein is found in bacteria. Proteins in this family are typically between 234 to 465 amino acids in length. There is a conserved GEV sequence motif.Most members are annotated as being SprA-related. Length = 261

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 43.3 bits (103), Expect = 4e-04
 Identities = 28/73 (38%), Positives = 46/73 (63%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            LEE E E E++ EE E   +E E+ +EE EE++E+ +EEE++  EE E+E ++  KE +
Sbjct: 524 SLEELERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAK 583

Query: 403 NEGHCDFVKLREM 415
            E      +LR++
Sbjct: 584 KEADEIIKELRQL 596

Length = 782

>gnl|CDD|184536 PRK14145, PRK14145, heat shock protein GrpE; Provisional

 Score = 41.4 bits (97), Expect = 4e-04
 Identities = 20/84 (23%), Positives = 48/84 (57%), Gaps = 4/84 (4%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E+E  +EEE++       E+ E   E+E+ ++ + +++  +E EE +++ ++KE+E +
Sbjct: 3   EVEKEINKEEEKDVNNLSSNEQMEGPPEDEQAQQNQPQQQTVDEIEELKQKLQQKEVEAQ 62

Query: 405 GHCDFVKLREMLIRTNMEDMREKT 428
            + D  +     ++   E+ R++T
Sbjct: 63  EYLDIAQ----RLKAEFENYRKRT 82

Length = 196

>gnl|CDD|237063 PRK12329, nusA, transcription elongation factor NusA; Provisional

 Score = 42.5 bits (100), Expect = 5e-04
 Identities = 15/39 (38%), Positives = 20/39 (51%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
               EE+    E     E+E E+E+E EE + EEEEE  
Sbjct: 411 AERAEEDARLRELYPLPEDEFEDEDELEEAQPEEEEEAR 449

Length = 449

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 28/44 (63%), Positives = 30/44 (68%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  KE E  G
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEEGTG 207

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein

 Score = 42.8 bits (101), Expect = 5e-04
 Identities = 21/40 (52%), Positives = 31/40 (77%)

Query: 366 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E+E E+E  +EEEEEE+EE++EEEE+  ++EEE + E E 
Sbjct: 28  EKEVEKEVPDEEEEEEKEEKKEEEEKTTDKEEEVDEEEEK 67

Length = 529

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 42.7 bits (100), Expect = 5e-04
 Identities = 5/59 (8%), Positives = 5/59 (8%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                 E             EE       E       E                     
Sbjct: 92  PSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPSHPGPHEPA 150

Length = 413

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.0 bits (101), Expect = 5e-04
 Identities = 24/109 (22%), Positives = 42/109 (38%), Gaps = 6/109 (5%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
                 E EEE     E+ +++E  ++  EE E   E   + EE + +E + +E+ +K L
Sbjct: 152 KPERRLEIEEEAAGSREKRKKKERLKKLIEETENLAELIIDLEELKLQELKLKEQAKKAL 211

Query: 402 ENEGHCDFVKLREMLIRTNMEDMREKTHCRHY--ELYRKKRLEEESNVI 448
           E       +K +  L   N+  +            L    R E+E    
Sbjct: 212 EYY----QLKEKLELEEENLLYLDYLKLNEERIDLLQELLRDEQEEIES 256

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.0 bits (101), Expect = 5e-04
 Identities = 21/64 (32%), Positives = 34/64 (53%)

Query: 341  FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
                E +E+E+EE+ +EEEEE  +     +EE          E EE+EE   ++E +++ 
Sbjct: 941  LLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMAIAEFEEKEERYNKDELKKER 1000

Query: 401  LENE 404
            LE E
Sbjct: 1001 LEEE 1004

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 40.4 bits (95), Expect = 5e-04
 Identities = 12/56 (21%), Positives = 37/56 (66%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E +EE    EE+ ++++++  + +++  +++   +++ +EE+ +EE++E E + E
Sbjct: 74  DEIDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 43.1 bits (101), Expect = 5e-04
 Identities = 20/73 (27%), Positives = 41/73 (56%)

Query: 329 DKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
            K+     + +     +E  ++E + + EEE+EE++E+E++++EEE  E   ++ + +E 
Sbjct: 266 KKDAGDDAELEDDEPDKEAVKKEADSKPEEEDEEDDEQEDDQDEEEPPEAAMDKVKLDEP 325

Query: 389 EEEEEEEEEEKEL 401
             E  + E  KEL
Sbjct: 326 VLEGVDLESPKEL 338

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.9 bits (100), Expect = 5e-04
 Identities = 36/84 (42%), Positives = 45/84 (53%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +EE  EE  EE  EE  EE +EE  EE EE  EE +EE  EE EE  EE  EE  +E   
Sbjct: 1003 IEENVEENVEENIEENVEEYDEENVEEVEENVEEYDEENVEEIEENAEENVEENIEENIE 1062

Query: 404  EGHCDFVKLREMLIRTNMEDMREK 427
            E   + V+  E  I  N+E+  E+
Sbjct: 1063 EYDEENVEEIEENIEENIEENVEE 1086

Length = 1136

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.9 bits (100), Expect = 5e-04
 Identities = 30/60 (50%), Positives = 32/60 (53%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +EE+ EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE   EN
Sbjct: 955  VEEDAEENVEENVEENVEENVEENVEENVEENVEENVEENVEENVEENIEENVEENVEEN 1014

Length = 1136

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.9 bits (100), Expect = 5e-04
 Identities = 40/118 (33%), Positives = 57/118 (48%), Gaps = 1/118 (0%)

Query: 328  IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
            I++N+  + +       E  EE +EE  EE EE  EE  EE  EE  EE +EE  EE EE
Sbjct: 1015 IEENVEEYDEENVEEVEENVEEYDEENVEEIEENAEENVEENIEENIEEYDEENVEEIEE 1074

Query: 388  EEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES 445
              EE  EE  E+ +E E   +  +  E  +  N E+  E+    + E Y  +  EE +
Sbjct: 1075 NIEENIEENVEENVE-ENVEEIEENVEENVEENAEENAEENAEENAEEYDDENPEEHN 1131

Length = 1136

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 42.5 bits (101), Expect = 5e-04
 Identities = 13/59 (22%), Positives = 27/59 (45%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             LE E   +EE+  ++    E  + E   +  E+  +  E+  E+  +E  + E ++E
Sbjct: 411 EALETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLAEQAVDELIDIEGDEE 469

Length = 470

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 42.5 bits (101), Expect = 5e-04
 Identities = 11/60 (18%), Positives = 26/60 (43%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +        +EE+  ++    E  + E   +  E+  +  E+  E+  +E  + E +EE+
Sbjct: 411 EALETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLAEQAVDELIDIEGDEEK 470

Length = 470

>gnl|CDD|219256 pfam06991, Prp19_bind, Splicing factor, Prp19-binding domain

 Score = 42.2 bits (99), Expect = 5e-04
 Identities = 39/141 (27%), Positives = 60/141 (42%), Gaps = 39/141 (27%)

Query: 343 GLEEEEEEEEEEEEEEEEEEE----------------EEEEEEEEEEEEEEEEEEEEEEE 386
           G EEEEE EEEEE + E++ E                +E E E  +E+  EEE + + EE
Sbjct: 14  GEEEEEESEEEEETDSEDDMEPRLKPVFTRKKDRITIQEREREAAKEKALEEEAKRKAEE 73

Query: 387 ---------EEEEEEEEEEEEKELENEGHCDFV--------------KLREMLIRTNMED 423
                    EEE ++E E +++    E + D V              KLRE+       +
Sbjct: 74  RKRETLKIVEEEVKKELELKKRNTLLEANIDDVDTDDENEEEEYEAWKLRELKRIKRDRE 133

Query: 424 MREKTHCRHYELYRKKRLEEE 444
            RE+      E+ + + + EE
Sbjct: 134 EREEMEREKAEIEKMRNMTEE 154

This family represents the C-terminus (approximately 300 residues) of proteins that are involved as binding partners for Prp19 as part of the nuclear pore complex. The family in Drosophila is necessary for pre-mRNA splicing, and the human protein has been found in purifications of the spliceosome. In the past this family was thought, erroneously, to be associated with microfibrillin. Length = 277

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 43.1 bits (101), Expect = 5e-04
 Identities = 16/62 (25%), Positives = 35/62 (56%)

Query: 343  GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
              E +EE + E++E  ++E+  EE    +E+ ++++  +  E++E+  E+  EE  +E E
Sbjct: 4016 ADENKEEADAEKDEPMQDEDPLEENNTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQENE 4075

Query: 403  NE 404
              
Sbjct: 4076 ES 4077

Length = 4600

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 43.1 bits (101), Expect = 5e-04
 Identities = 17/63 (26%), Positives = 35/63 (55%)

Query: 346  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            EE    +E+ ++++  +  E++E+  E+  EE  +E EE  E+  + +EE E+ E+  + 
Sbjct: 4038 EENNTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQENEESTEDGVKSDEELEQGEVPEDQ 4097

Query: 406  HCD 408
              D
Sbjct: 4098 AID 4100

Length = 4600

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.2 bits (102), Expect = 5e-04
 Identities = 31/71 (43%), Positives = 41/71 (57%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LEEE   E+EE E  EE EE E+E  E EEE  E  E EE  +EE EE+ E+ E    E 
Sbjct: 486 LEEELSREKEEAELREEIEELEKELRELEEELIELLELEEALKEELEEKLEKLENLLEEL 545

Query: 404 EGHCDFVKLRE 414
           E   + ++L++
Sbjct: 546 EELKEKLQLQQ 556

Length = 908

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.2 bits (102), Expect = 5e-04
 Identities = 27/64 (42%), Positives = 37/64 (57%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            +E+  E  EEE +E ++ EE +EE+EEEE E+E E  EE   E EEE+E  EE +  L 
Sbjct: 200 DIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEKERLEELKARLL 259

Query: 403 NEGH 406
               
Sbjct: 260 EIES 263

Length = 908

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 18/64 (28%), Positives = 31/64 (48%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             L E  +E  +  E+E+  E EEE+ E +  +EE ++ + E +  EE  +E E +    
Sbjct: 6   EALAELAKELRKLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAAS 65

Query: 402 ENEG 405
              G
Sbjct: 66  GEGG 69

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|225887 COG3351, FlaD, Putative archaeal flagellar protein D/E [Cell motility and secretion]

 Score = 41.4 bits (97), Expect = 5e-04
 Identities = 16/67 (23%), Positives = 32/67 (47%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+ EE   + ++ ++E  EE  E  E+ +E    E+ +  EEE  E+E+   E+ +   +
Sbjct: 25  EKIEELPIQAKKSDDELVEELPERYEQTKENSLIEKVDSIEEEISEKEKVMSEKLKEPAQ 84

Query: 405 GHCDFVK 411
                 +
Sbjct: 85  MSSTSEE 91

Length = 214

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 43.1 bits (101), Expect = 5e-04
 Identities = 17/63 (26%), Positives = 28/63 (44%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            EE E ++   +      E++ ++    E+ E E    EE E EEE E+ E+E +     
Sbjct: 343 NEEAERKDYILDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRI 402

Query: 406 HCD 408
             D
Sbjct: 403 CDD 405

Length = 776

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 43.1 bits (101), Expect = 5e-04
 Identities = 17/57 (29%), Positives = 29/57 (50%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +      E++ ++    E+ E E    EE E EEE E+ E+E +  +   ++ ELEN
Sbjct: 354 DSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELEN 410

Length = 776

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 42.9 bits (101), Expect = 5e-04
 Identities = 23/52 (44%), Positives = 27/52 (51%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EE+    +E  E  +E+     E   EEEEEEEEEEEEE  E E   EE   
Sbjct: 377 EEDATTIDELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 43.1 bits (102), Expect = 5e-04
 Identities = 20/60 (33%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              E+E  E+E +E +E+  + +E+ +  E+E E    ++EE EEE EE E   ++LE+ 
Sbjct: 824 LTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESR 883

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 42.2 bits (100), Expect = 6e-04
 Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 12/71 (16%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEE------------EEEEEEEEEEEEEEEEEEEEEEEEEE 391
           +EEE  +   EEEE E + +EE            EE E+  +EE EE  +E E+ +E  E
Sbjct: 47  MEEERLKALAEEEERERKRKEERREGRAVLQEQIEEREKRRQEEYEERLQEREQMDEIIE 106

Query: 392 EEEEEEEKELE 402
             +EE+E E +
Sbjct: 107 RIQEEDEAEAQ 117

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 41.9 bits (98), Expect = 6e-04
 Identities = 24/60 (40%), Positives = 32/60 (53%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEEEE E  ++ E+  + E E  ++++ EEEE EEE     E E EEE   EE      E
Sbjct: 211 EEEEEAEGSDDGEDVVDYEGERIDKKQGEEEEMEEEVINLFEIEWEEESPSEEVPRNNEE 270

Length = 279

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 42.3 bits (99), Expect = 6e-04
 Identities = 20/56 (35%), Positives = 31/56 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             E EE +++ EE  +  EEEE+  ++EE + +  EEEE+   +EE E    E  E
Sbjct: 213 ALELEELKKKREERRKVLEEEEQRRKQEEADRKSREEEEKRRLKEEIERRRAEAAE 268

Length = 431

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.0 bits (101), Expect = 6e-04
 Identities = 34/102 (33%), Positives = 56/102 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+ +E E+E ++ E+E ++E+EE EE E+E +E E + E EEEEEE+ E+ +E+ E   E
Sbjct: 315 EKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKLEQLEE 374

Query: 405 GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESN 446
                 KL    + +  +   E+   ++ E    K L E S 
Sbjct: 375 ELLAKKKLESERLSSAAKLKEEELELKNEEEKEAKLLLELSE 416

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 43.0 bits (101), Expect = 6e-04
 Identities = 28/101 (27%), Positives = 53/101 (52%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
             +++  EE +  E++ +E+EEEEE+   ++EEEEEE+ E   +E+E  EEEE+ ++L+ 
Sbjct: 730 EAQDKINEELKLLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTEKLKV 789

Query: 404 EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
           E   +     +      +E+  ++      E       EE+
Sbjct: 790 EEEKEEKLKAQEEELRALEEELKEEAELLEEEQLLIEQEEK 830

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 42.6 bits (100), Expect = 6e-04
 Identities = 16/65 (24%), Positives = 29/65 (44%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE+ E E E +E    +E E  + E E  EEE  + ++++  +E +++ E   E      
Sbjct: 226 EEQGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSETPGEGARPAR 285

Query: 405 GHCDF 409
                
Sbjct: 286 PFTST 290

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein

 Score = 41.6 bits (98), Expect = 6e-04
 Identities = 11/62 (17%), Positives = 35/62 (56%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           +   +E+++EE+E + +  EE+    + ++ +   + +  +++ ++++ E+E     +EL
Sbjct: 92  SNEGDEDDDEEDEIKRKRIEEDARNSDADDSDSSSDSDSSDDDSDDDDSEDETAALLREL 151

Query: 402 EN 403
           E 
Sbjct: 152 EK 153

This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing. Length = 241

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 42.6 bits (100), Expect = 6e-04
 Identities = 16/46 (34%), Positives = 27/46 (58%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           N  EE E++   E   + E E++E+ EE EEE+ EEE    ++ ++
Sbjct: 295 NDPEEREDKLSPEIPAKPEIEQDEDSEESEEEKNEEEGGLSKKGKK 340

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 42.8 bits (101), Expect = 6e-04
 Identities = 24/58 (41%), Positives = 28/58 (48%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E     E  EE E E EE EE  EE +E+ E  +EE EE E   EE E+      E
Sbjct: 301 EGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAELEE 358

Length = 1163

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 42.7 bits (100), Expect = 6e-04
 Identities = 14/59 (23%), Positives = 45/59 (76%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           EE  EEE+++EE+++++++E+E++++++++E++E+E++++    ++   ++  E + E 
Sbjct: 47  EEAMEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGNETDNEA 105

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 42.6 bits (100), Expect = 6e-04
 Identities = 17/60 (28%), Positives = 40/60 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+++++E+ +EE ++ + +EE +E+   +E+E+E+E++ EE  + EEE++ E  +     
Sbjct: 116 EKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRP 175

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.9 bits (100), Expect = 6e-04
 Identities = 30/60 (50%), Positives = 31/60 (51%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
             EE  EE+ EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE   EN
Sbjct: 951  AEENVEEDAEENVEENVEENVEENVEENVEENVEENVEENVEENVEENVEENIEENVEEN 1010

Length = 1136

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.9 bits (100), Expect = 6e-04
 Identities = 29/63 (46%), Positives = 32/63 (50%)

Query: 346  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            EE  EE  EE  EE  EE  EE EE  EE  EE  EE  EE  EE  EE ++E   E+  
Sbjct: 1073 EENIEENIEENVEENVEENVEEIEENVEENVEENAEENAEENAEENAEEYDDENPEEHNE 1132

Query: 406  HCD 408
              D
Sbjct: 1133 EYD 1135

Length = 1136

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 42.5 bits (101), Expect = 6e-04
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 2/62 (3%)

Query: 342 NGLEEEEEEE--EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
            G +EE  EE  E  +E  E E   +EE+  ++    E  + E   +  E+  +  E+  
Sbjct: 395 EGFDEETVEELRERAKEALETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLA 454

Query: 400 EL 401
           E 
Sbjct: 455 EQ 456

Length = 470

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 42.2 bits (100), Expect = 6e-04
 Identities = 13/55 (23%), Positives = 26/55 (47%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           E   +EE+  ++    E  + E   +  E+  +  E+  E+  +E  + E +EEK
Sbjct: 416 EALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLAEQAVDELIDIEGDEEK 470

Length = 470

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 43.1 bits (101), Expect = 6e-04
 Identities = 16/62 (25%), Positives = 36/62 (58%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +++E+  EE    +E+ ++++  +  E++E+  E+  EE  +E EE  E+  + ++ELE 
Sbjct: 4031 MQDEDPLEENNTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQENEESTEDGVKSDEELEQ 4090

Query: 404  EG 405
              
Sbjct: 4091 GE 4092

Length = 4600

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 43.1 bits (101), Expect = 6e-04
 Identities = 20/72 (27%), Positives = 40/72 (55%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E +EE + E++E  ++E+  EE    +E+ ++++  +  E++E+  E+  EE  +   E
Sbjct: 4017 DENKEEADAEKDEPMQDEDPLEENNTLDEDIQQDDFSDLAEDDEKMNEDGFEENVQENEE 4076

Query: 405  GHCDFVKLREML 416
               D VK  E L
Sbjct: 4077 STEDGVKSDEEL 4088

Length = 4600

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 42.8 bits (101), Expect = 6e-04
 Identities = 32/110 (29%), Positives = 52/110 (47%), Gaps = 2/110 (1%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +    L E EEE  E  E EE  +EE EE+ E+ E   EE EE +E+ + ++ +EE  + 
Sbjct: 505 ELEKELRELEEELIELLELEEALKEELEEKLEKLENLLEELEELKEKLQLQQLKEELRQL 564

Query: 399 KELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVI 448
           ++   E     +     L+RT  E++ E          + K LEE  + +
Sbjct: 565 EDRLQELK--ELLEELRLLRTRKEELEELRERLKELKKKLKELEERLSQL 612

Length = 908

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 42.8 bits (101), Expect = 6e-04
 Identities = 35/107 (32%), Positives = 47/107 (43%), Gaps = 10/107 (9%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G E  EE E+E  E  E E EE EEE   E+EE E  EE EE E+E  E EEE  E    
Sbjct: 464 GQELPEEHEKELLELYELELEELEEELSREKEEAELREEIEELEKELRELEEELIELLEL 523

Query: 403 NEGHCDFVKLREMLIRTNME---DMREKTHCRHYELYRKKRLEEESN 446
            E         +  +   +E   ++ E+      +L  ++  EE   
Sbjct: 524 EE-------ALKEELEEKLEKLENLLEELEELKEKLQLQQLKEELRQ 563

Length = 908

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 42.8 bits (101), Expect = 6e-04
 Identities = 28/59 (47%), Positives = 38/59 (64%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           L E  E+ E+  E  EEE +E ++ EE +EE+EEEE E+E E  EE   E EEE++ LE
Sbjct: 194 LSELLEDIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEKERLE 252

Length = 908

>gnl|CDD|191249 pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylase N-terminal region

 Score = 41.5 bits (97), Expect = 6e-04
 Identities = 19/80 (23%), Positives = 39/80 (48%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCD 408
           EEE +E+ +   E+    ++EE+   +E + +E++    E+ ++ +E  E    +E   D
Sbjct: 102 EEEVKEQLQSLLEKIVVSKQEEDGPGKEPQLDEDKFLLAEDSDDRQETLEAGKVHEETED 161

Query: 409 FVKLREMLIRTNMEDMREKT 428
              + E       +DM+EK 
Sbjct: 162 SYHVEETASEQYKQDMKEKA 181

This family includes the N-terminal regions of the junctin, junctate and aspartyl beta-hydroxylase proteins. Junctate is an integral ER/SR membrane calcium binding protein, which comes from an alternatively spliced form of the same gene that generates aspartyl beta-hydroxylase and junctin. Aspartyl beta-hydroxylase catalyzes the post-translational hydroxylation of aspartic acid or asparagine residues contained within epidermal growth factor (EGF) domains of proteins. Length = 240

>gnl|CDD|235562 PRK05687, fliH, flagellar assembly protein H; Validated

 Score = 41.8 bits (99), Expect = 6e-04
 Identities = 15/52 (28%), Positives = 18/52 (34%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
              E    E      E  E EE  EEE     EEE E   ++  +E    G 
Sbjct: 26  PPPEPPPPEPAAPPPEPPEPEEVPEEEAAPLTEEELEAIRQQAHEEGFAAGK 77

Length = 246

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 42.7 bits (100), Expect = 6e-04
 Identities = 16/62 (25%), Positives = 30/62 (48%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              E++ ++    E+ E E    EE E EEE E+ E+E +  +   +++E E      +E
Sbjct: 358 VPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELENHFRAADE 417

Query: 405 GH 406
            +
Sbjct: 418 KN 419

Length = 776

>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain

 Score = 41.0 bits (97), Expect = 6e-04
 Identities = 22/55 (40%), Positives = 34/55 (61%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + E+ + E E+E ++ EEE+EE E+   E E + E  E+ EEEE + EEK   +E
Sbjct: 117 QAEQGKSELEQEIKKLEEEKEELEKRVAELEAKLEAIEKREEEERQIEEKRHADE 171

Axonemal dynein light chain proteins play a dynamic role in flagellar and cilia motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains. Length = 189

>gnl|CDD|237628 PRK14156, PRK14156, heat shock protein GrpE; Provisional

 Score = 41.0 bits (96), Expect = 6e-04
 Identities = 23/50 (46%), Positives = 26/50 (52%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            EE + EE EEE E  E EE  EE  EE  E+ E E   E  +E E K L
Sbjct: 2   SEEIKNEEVEEEVEATETEETVEEVVEETPEKSELELANERADEFENKYL 51

Length = 177

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 42.3 bits (99), Expect = 7e-04
 Identities = 20/60 (33%), Positives = 34/60 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++E   E EE +++ EE  +  EEEE+  ++EE + +  EEEE+   +EE E  +    E
Sbjct: 209 QQEAALELEELKKKREERRKVLEEEEQRRKQEEADRKSREEEEKRRLKEEIERRRAEAAE 268

Length = 431

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 41.7 bits (98), Expect = 7e-04
 Identities = 28/62 (45%), Positives = 35/62 (56%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
              + EEEE EE EE+EEEE EEE EE E   +  EE  E  E+ EE EE  +   E+ +
Sbjct: 75  ISEDGEEEEVEEGEEDEEEEGEEESEEFEPLGDTPEELTEASEQLEEHEEGFQAMVEQAV 134

Query: 402 EN 403
           E 
Sbjct: 135 ER 136

Length = 306

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 42.3 bits (99), Expect = 7e-04
 Identities = 19/61 (31%), Positives = 41/61 (67%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++ E E++E ++E  ++E + + EEE+EE++E+E++++EEE  E   ++ + +E  LE  
Sbjct: 271 DDAELEDDEPDKEAVKKEADSKPEEEDEEDDEQEDDQDEEEPPEAAMDKVKLDEPVLEGV 330

Query: 405 G 405
            
Sbjct: 331 D 331

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 39.5 bits (93), Expect = 7e-04
 Identities = 24/84 (28%), Positives = 45/84 (53%), Gaps = 8/84 (9%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EEE+   ++E ++   +E+ + E+++EE++ E E+  +   EE+ E E E+ EKELE  
Sbjct: 2   PEEEKTFTDKEVDKAIAKEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELE-- 59

Query: 405 GHCDFVKLREMLIRTNMEDMREKT 428
                 +L   L R  ++   +K 
Sbjct: 60  ------ELEAELARRELKAEAKKM 77

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|184539 PRK14150, PRK14150, heat shock protein GrpE; Provisional

 Score = 41.1 bits (97), Expect = 7e-04
 Identities = 18/46 (39%), Positives = 28/46 (60%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
             EE++  +E+  EE E E E++EE +E E E+E +E +    ELE
Sbjct: 2   SNEEQKTPQEQVSEEIEAEVEQQEEADEAELEDELDEADARIAELE 47

Length = 193

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.5 bits (99), Expect = 7e-04
 Identities = 30/60 (50%), Positives = 33/60 (55%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +EE+ EE  EE+ EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE   EN
Sbjct: 947  IEEDAEENVEEDAEENVEENVEENVEENVEENVEENVEENVEENVEENVEENVEENIEEN 1006

Length = 1136

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 42.1 bits (99), Expect = 7e-04
 Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 11/74 (14%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEE-----------EEEEEEEEEEEEEEEEEEEEEEEEEE 390
           +  EE  E++ ++EEEE+ + E+            +EEE EE       E+  E E +E 
Sbjct: 181 SKSEESAEDDSDDEEEEDSDSEDYSQYDGMLVDSSDEEEGEEAPSINYNEDTSESESDES 240

Query: 391 EEEEEEEEKELENE 404
           + E  E     ++E
Sbjct: 241 DSEISESRSVSDSE 254

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|217902 pfam04111, APG6, Autophagy protein Apg6

 Score = 42.2 bits (99), Expect = 7e-04
 Identities = 23/83 (27%), Positives = 46/83 (55%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+E ++EEE   +E EE E+E+++ + E  E +EE+E+ E EE +   E    +   L+ 
Sbjct: 72  LDELKKEEERLLDELEELEKEDDDLDGELVELQEEKEQLENEELQYLREYNLFDRNNLQL 131

Query: 404 EGHCDFVKLREMLIRTNMEDMRE 426
           E +   ++L+       ++ +R+
Sbjct: 132 EDNLQSLELQYEYSLNQLDKLRK 154

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway. Length = 356

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 42.0 bits (99), Expect = 7e-04
 Identities = 22/69 (31%), Positives = 34/69 (49%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+  E EEE+ E +  +EE ++ + E +  EE  +E E +     E    EEEE+E + E
Sbjct: 22  EKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAASGEGGGGEEEEEEAKAE 81

Query: 405 GHCDFVKLR 413
                  LR
Sbjct: 82  AAEFRAYLR 90

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|240413 PTZ00423, PTZ00423, glideosome-associated protein 45; Provisional

 Score = 40.9 bits (95), Expect = 7e-04
 Identities = 24/65 (36%), Positives = 41/65 (63%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L E E+ ++E EE  E++ E+  EE E++ EE  E+EEE EE++ +EE +   +E +  +
Sbjct: 21  LAEREKLKKEVEEIPEQKPEDIVEELEDQPEEPPEQEEENEEQKPKEEIDYPIQENKSFD 80

Query: 404 EGHCD 408
           E + D
Sbjct: 81  EKNLD 85

Length = 193

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.7 bits (101), Expect = 7e-04
 Identities = 19/61 (31%), Positives = 33/61 (54%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
             E+E +E +E+  + +E+ +  E+E E    ++EE EEE EE E    + E    +L+ 
Sbjct: 830 YLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKK 889

Query: 404 E 404
           E
Sbjct: 890 E 890

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|220112 pfam09110, HAND, HAND

 Score = 39.2 bits (92), Expect = 7e-04
 Identities = 18/46 (39%), Positives = 30/46 (65%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           ++  + +EE+EEE E + + E+E+ +  E   EEEEEE++ L  EG
Sbjct: 64  DDVGDGDEEDEEEREAKRKLEQEKIDNAEPLTEEEEEEKQRLLEEG 109

The HAND domain adopts a secondary structure consisting of four alpha helices, three of which (H2, H3, H4) form an L-like configuration. Helix H2 runs antiparallel to helices H3 and H4, packing closely against helix H4, whilst helix H1 reposes in the concave surface formed by these three helices and runs perpendicular to them. The domain confers DNA and nucleosome binding properties to the protein. Length = 109

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEE 371
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEE 372
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEE 373
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEE 374
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEE 375
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEE 376
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEE 377
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEE 378
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEE 379
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEE 380
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEE 381
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEE 382
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEE 383
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEE 384
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEE 385
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEE 386
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEE 387
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEE 388
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEE 389
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEE 390
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEEEE 391
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 366 EEEEEEEEEEEEEEEEEEEEEEEEEEE 392
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 367 EEEEEEEEEEEEEEEEEEEEEEEEEEE 393
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 368 EEEEEEEEEEEEEEEEEEEEEEEEEEE 394
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 369 EEEEEEEEEEEEEEEEEEEEEEEEEEE 395
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 370 EEEEEEEEEEEEEEEEEEEEEEEEEEE 396
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 371 EEEEEEEEEEEEEEEEEEEEEEEEEEE 397
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 39.4 bits (92), Expect = 7e-04
 Identities = 16/27 (59%), Positives = 22/27 (81%)

Query: 372 EEEEEEEEEEEEEEEEEEEEEEEEEEE 398
               EE+ EE+EEE+++EEE+EEEEEE
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEE 97

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|202427 pfam02841, GBP_C, Guanylate-binding protein, C-terminal domain

 Score = 41.5 bits (98), Expect = 7e-04
 Identities = 19/60 (31%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+  E E  + E  E E+E   E+++EEE+  E +E   +E  ++  E+ E E ++L  E
Sbjct: 203 EKAIEAERAKAEAAEAEQELLREKQKEEEQMMEAQERSYQEHVKQLIEKMEAEREKLLAE 262

Transcription of the anti-viral guanylate-binding protein (GBP) is induced by interferon-gamma during macrophage induction. This family contains GBP1 and GPB2, both GTPases capable of binding GTP, GDP and GMP. Length = 297

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 42.0 bits (99), Expect = 8e-04
 Identities = 27/43 (62%), Positives = 30/43 (69%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE  
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEEGT 206

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 42.3 bits (99), Expect = 8e-04
 Identities = 25/60 (41%), Positives = 43/60 (71%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++EE+ +E E+E ++ E+E ++E+EE EE E+E +E E + E EEEEEE+ E+ +E   +
Sbjct: 312 DDEEKLKESEKELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQLEKLQEKLEQ 371

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 42.3 bits (99), Expect = 8e-04
 Identities = 21/64 (32%), Positives = 32/64 (50%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +    EE   EE +E+E+EE+ +EEEEE  +     +EE          E EE+EE   +
Sbjct: 934 YESEPEELLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMAIAEFEEKEERYNK 993

Query: 401 LENE 404
            E +
Sbjct: 994 DELK 997

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 42.3 bits (99), Expect = 8e-04
 Identities = 38/159 (23%), Positives = 71/159 (44%), Gaps = 5/159 (3%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEE-EEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           ++K           N  EE+E++ +EEE +   +EEEE + E  + E  + ++EE+ +E 
Sbjct: 261 LEKEEEILAQVLKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRKVDDEEKLKES 320

Query: 387 EEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESN 446
           E+E ++ E+E +KE E     +       + R   E+  E+      +L  K    EE  
Sbjct: 321 EKELKKLEKELKKEKEEIEELEKELKELEIKREAEEEEEEQL----EKLQEKLEQLEEEL 376

Query: 447 VIGSNFRWSDFSAKTRFGWDYLPYINTGKRLPKIILHLS 485
           +          S+  +   + L   N  ++  K++L LS
Sbjct: 377 LAKKKLESERLSSAAKLKEEELELKNEEEKEAKLLLELS 415

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 42.4 bits (100), Expect = 8e-04
 Identities = 27/65 (41%), Positives = 33/65 (50%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +EE E E     E  EE E E EE EE  EE +E+ E  +EE EE E   EE E+   E 
Sbjct: 297 IEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLAEL 356

Query: 404 EGHCD 408
           E   +
Sbjct: 357 EEAKE 361

Length = 1163

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 42.2 bits (99), Expect = 8e-04
 Identities = 21/100 (21%), Positives = 46/100 (46%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+ +EE ++ + +EE +E+   +E+E+E+E++ EE  + EEE++ E    +   K+   +
Sbjct: 122 EKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPKKPPKK 181

Query: 405 GHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
              +  K      +                   ++R +EE
Sbjct: 182 KPPNKKKEPPEEEKQRQAAREAVKGKPEEPDVNEEREKEE 221

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.5 bits (99), Expect = 8e-04
 Identities = 36/102 (35%), Positives = 45/102 (44%)

Query: 346  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            EE  EE+ EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  E+ +E   
Sbjct: 952  EENVEEDAEENVEENVEENVEENVEENVEENVEENVEENVEENVEENVEENIEENVEENV 1011

Query: 406  HCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV 447
              +  +  E     N+E++ E       E   +     E NV
Sbjct: 1012 EENIEENVEEYDEENVEEVEENVEEYDEENVEEIEENAEENV 1053

Length = 1136

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 42.2 bits (100), Expect = 8e-04
 Identities = 22/62 (35%), Positives = 27/62 (43%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L EE     EE      EE  E E  +EE  EE  E  +E  E E   +EE+  +  L  
Sbjct: 372 LVEEGFSSLEELAYVPVEELLEIEGFDEETVEELRERAKEALETEALAQEEKLADDLLSL 431

Query: 404 EG 405
           EG
Sbjct: 432 EG 433

Length = 470

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 42.1 bits (99), Expect = 8e-04
 Identities = 17/57 (29%), Positives = 38/57 (66%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            ++ +++E +E  ++++EEE E E+E + EE  E++ ++EEEE+ + E+  + +  L
Sbjct: 155 TKKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEEEDSDSEDYSQYDGML 211

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 42.1 bits (99), Expect = 8e-04
 Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 11/70 (15%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----------EEEEEEEEEEEEEEEEEEEE 393
            E E+E + EE  E++ ++EEEE+ + E+            +EEE EE       E+  E
Sbjct: 175 SESEDESKSEESAEDDSDDEEEEDSDSEDYSQYDGMLVDSSDEEEGEEAPSINYNEDTSE 234

Query: 394 EEEEEKELEN 403
            E +E + E 
Sbjct: 235 SESDESDSEI 244

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 11/40 (27%), Positives = 14/40 (35%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           EEE+                 E    E E E E EEE ++
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEK 154

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|219069 pfam06512, Na_trans_assoc, Sodium ion transport-associated

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 10/65 (15%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE----------EEEEEEEEEEEEEEEEEEE 393
           L +E+   E     +EE ++   E  + EE+          + E  EEEEEE  EEEEE 
Sbjct: 117 LNDEDTSSESSYGFKEESKKGSAETLKLEEKDSSSSEGSTVDLEPPEEEEEEIAEEEEEV 176

Query: 394 EEEEE 398
           +E E+
Sbjct: 177 KEPED 181

Members of this family contain a region found exclusively in eukaryotic sodium channels or their subunits, many of which are voltage-gated. Members very often also contain between one and four copies of pfam00520 and, less often, one copy of pfam00612. Length = 230

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 42.4 bits (100), Expect = 8e-04
 Identities = 27/58 (46%), Positives = 35/58 (60%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           E + EE E + EE E + +E  EE  E EE+ EE +EE E  E E EE E E +ELE+
Sbjct: 315 ERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELES 372

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 42.4 bits (100), Expect = 8e-04
 Identities = 21/77 (27%), Positives = 38/77 (49%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           ++K L    +        EE  +EE EE+ E+ E   EE EE +E+ + ++ +EE  + E
Sbjct: 506 LEKELRELEEELIELLELEEALKEELEEKLEKLENLLEELEELKEKLQLQQLKEELRQLE 565

Query: 388 EEEEEEEEEEEKELENE 404
           +  +E +E  E+     
Sbjct: 566 DRLQELKELLEELRLLR 582

Length = 908

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 40.4 bits (95), Expect = 8e-04
 Identities = 12/61 (19%), Positives = 50/61 (81%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            ++++E  EE E+ ++E EE+++ + ++++ ++++++++++++++++++ E+++EKE E+
Sbjct: 61  KKKKKELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAED 120

Query: 404 E 404
           +
Sbjct: 121 K 121

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|235562 PRK05687, fliH, flagellar assembly protein H; Validated

 Score = 41.1 bits (97), Expect = 8e-04
 Identities = 18/60 (30%), Positives = 22/60 (36%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
              E    E      E  E EE  EEE     EEE E   ++  EE     + E   EG+
Sbjct: 26  PPPEPPPPEPAAPPPEPPEPEEVPEEEAAPLTEEELEAIRQQAHEEGFAAGKAEGRAEGY 85

Length = 246

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.4 bits (100), Expect = 8e-04
 Identities = 19/59 (32%), Positives = 34/59 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E++      E+E  E+E +E +E+  + +E+ +  E+E E    ++EE EEE +ELE  
Sbjct: 818 EQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAA 876

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 39.5 bits (93), Expect = 8e-04
 Identities = 10/47 (21%), Positives = 27/47 (57%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           L E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 4   LTEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 41.9 bits (98), Expect = 8e-04
 Identities = 15/57 (26%), Positives = 37/57 (64%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            E+  EE + ++  E+E  ++ E+E  + +E++++ EE E++ + E++++EE+  K 
Sbjct: 85  EEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARKA 141

Length = 387

>gnl|CDD|212055 cd11486, SLC5sbd_SGLT1, Na(+)/glucose cotransporter SGLT1;solute binding domain

 Score = 42.2 bits (99), Expect = 8e-04
 Identities = 23/92 (25%), Positives = 41/92 (44%), Gaps = 16/92 (17%)

Query: 324 SNPTIDKNLYSFFDC-KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--------- 373
           + P  DK+LY    C    N  EE  + + ++  E+E+E E E +EE ++          
Sbjct: 522 TKPIPDKHLYRL--CWSLRNSTEERIDLDADDWTEDEDENEMETDEERKKPGCCRKAYNW 579

Query: 374 ----EEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
               ++ +  +  EEEE   + +  +  EK L
Sbjct: 580 FCGFDQGKAPKLTEEEEAALKMKMTDTSEKPL 611

Human SGLT1 (hSGLT1) is a high-affinity/low-capacity glucose transporter, which can also transport galactose. In the transport mechanism, two Na+ ions first bind to the extracellular side of the transporter and induce a conformational change in the glucose binding site. This results in an increased affinity for glucose. A second conformational change in the transporter follows, bringing the Na+ and glucose binding sites to the inner surface of the membrane. Glucose is then released, followed by the Na+ ions. In the process, hSGLT1 is also able to transport water and urea and may be a major pathway for transport of these across the intestinal brush-border membrane. hSGLT1 is encoded by the SLC5A1 gene and expressed mostly in the intestine, but also in the trachea, kidney, heart, brain, testis, and prostate. The WHO/UNICEF oral rehydration solution (ORS) for the treatment of secretory diarrhea contains salt and glucose. The glucose, along with sodium ions, is transported by hSGLT1 and water is either co-transported along with these or follows by osmosis. Mutations in SGLT1 are associated with intestinal glucose galactose malabsorption (GGM). Up-regulation of intestinal SGLT1 may protect against enteric infections. SGLT1 is expressed in colorectal, head and neck, and prostate tumors. Epidermal growth factor receptor (EGFR) functions in cell survival by stabilizing SGLT1, and thereby maintaining intracellular glucose levels. SGLT1 is predicted to have 14 membrane-spanning regions. This subgroup belongs to the solute carrier 5 (SLC5)transporter family. Length = 635

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 42.0 bits (99), Expect = 9e-04
 Identities = 26/38 (68%), Positives = 29/38 (76%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
           L E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 167 LREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 42.5 bits (99), Expect = 9e-04
 Identities = 35/84 (41%), Positives = 45/84 (53%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +EE  EE  EE  EE +EE  EE EE  EE +EE  EE EE  EE  EE  EE  +E + 
Sbjct: 1007 VEENVEENIEENVEEYDEENVEEVEENVEEYDEENVEEIEENAEENVEENIEENIEEYDE 1066

Query: 404  EGHCDFVKLREMLIRTNMEDMREK 427
            E   +  +  E  I  N+E+  E+
Sbjct: 1067 ENVEEIEENIEENIEENVEENVEE 1090

Length = 1136

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 41.8 bits (99), Expect = 9e-04
 Identities = 13/61 (21%), Positives = 27/61 (44%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +E  E E   +EE+  ++    E  + E   +  E+  +  E+  E+  +E  + E + 
Sbjct: 409 AKEALETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLAEQAVDELIDIEGDE 468

Query: 404 E 404
           E
Sbjct: 469 E 469

Length = 470

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 42.4 bits (100), Expect = 9e-04
 Identities = 30/91 (32%), Positives = 43/91 (47%), Gaps = 5/91 (5%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             LE+  E  ++E EE  ++ EE E +E + E EE EEE EE +EE E  EE  EE +E 
Sbjct: 410 ERLEDRRERLQQEIEELLKKLEEAELKELQAELEELEEELEELQEELERLEEALEELREE 469

Query: 402 ENEGHCDFVKLREMLIRTN-----MEDMREK 427
             E           L +       +E ++E 
Sbjct: 470 LEEAEQALDAAERELAQLQARLDSLERLQEN 500

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 41.3 bits (98), Expect = 9e-04
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 366 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|191249 pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylase N-terminal region

 Score = 41.1 bits (96), Expect = 9e-04
 Identities = 16/65 (24%), Positives = 35/65 (53%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
               +E+  E+E E+ +E  E+ E  + E ++  EE+ +EE+   E+ +  +EE  ++ +
Sbjct: 174 KQDMKEKASEQENEDSKEPVEKAERTKAETDDVTEEDYDEEDNPVEDSKAIKEELAKEPV 233

Query: 402 ENEGH 406
           E +  
Sbjct: 234 EEQQE 238

This family includes the N-terminal regions of the junctin, junctate and aspartyl beta-hydroxylase proteins. Junctate is an integral ER/SR membrane calcium binding protein, which comes from an alternatively spliced form of the same gene that generates aspartyl beta-hydroxylase and junctin. Aspartyl beta-hydroxylase catalyzes the post-translational hydroxylation of aspartic acid or asparagine residues contained within epidermal growth factor (EGF) domains of proteins. Length = 240

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 42.3 bits (99), Expect = 9e-04
 Identities = 16/57 (28%), Positives = 29/57 (50%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           L+      E++ ++    E+ E E    EE E EEE E+ E+E +  +   +++E E
Sbjct: 353 LDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELE 409

Length = 776

>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]

 Score = 40.4 bits (95), Expect = 9e-04
 Identities = 23/57 (40%), Positives = 33/57 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E+  ++   E EEE EE  EE  EE E+ +EE + E EE  EE   + E+E E+E +
Sbjct: 5   EKLIKKILREAEEEAEEILEEAREEAEKIKEEAKREAEEAIEEILRKAEKEAERERQ 61

Length = 194

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 42.0 bits (99), Expect = 9e-04
 Identities = 28/61 (45%), Positives = 37/61 (60%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LE EE+E ++ EEE ++  EE  E E+  EE  +E EE E++  EEE EE  EE  EL  
Sbjct: 614 LEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELREEYLELSR 673

Query: 404 E 404
           E
Sbjct: 674 E 674

Length = 880

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 42.3 bits (99), Expect = 0.001
 Identities = 25/60 (41%), Positives = 34/60 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E  EE EE E+E E E E + E E E + +E E E E E E +E+E+E E +   + E
Sbjct: 731 EIETGEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGE 790

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 24/61 (39%), Positives = 35/61 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE E+E E E E + E E E + +E E E E E E +E+E+E E +  E+ E + +   E
Sbjct: 739 EEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKGDEGAE 798

Query: 405 G 405
           G
Sbjct: 799 G 799

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 41.8 bits (99), Expect = 0.001
 Identities = 25/40 (62%), Positives = 34/40 (85%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 378
            +    +EEEEEEE+E++EEE+EEEEEE EEE+EEEEE++
Sbjct: 434 AFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEEKEEEEEKK 473

Length = 482

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 27/41 (65%), Positives = 30/41 (73%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           E E  E EEEEEEEE  E +EE+E EEEEEEE EE  +EEE
Sbjct: 164 EVELREGEEEEEEEEVGEADEEDEGEEEEEEEPEEVPKEEE 204

This family includes the radial spoke head proteins RSP4 and RSP6 from Chlamydomonas reinhardtii, and several eukaryotic homologues, including mammalian RSHL1, the protein product of a familial ciliary dyskinesia candidate gene. Length = 481

>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510)

 Score = 40.5 bits (95), Expect = 0.001
 Identities = 21/46 (45%), Positives = 28/46 (60%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
            G  E+E+EE EEE EEE+EE  +E E+E EE+ E   E+E     
Sbjct: 81  KGDAEKEDEESEEENEEEDEESSDENEKETEEKTESNVEKEITNPS 126

This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown. Length = 214

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 19/54 (35%), Positives = 33/54 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           E   +++  + +E E++   +     E E+   E ++EEEE+EEEEEEE+E+E 
Sbjct: 354 ETLNKQKWTKAKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEG 407

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|223003 PHA03169, PHA03169, hypothetical protein; Provisional

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 8/65 (12%), Positives = 9/65 (13%), Gaps = 4/65 (6%)

Query: 345 EEEEE----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E+EE           E             EE       E       E             
Sbjct: 83  EKEERGQGGPSGSGSESVGSPTPSPSGSAEELASGLSPENTSGSSPESPASHSPPPSPPS 142

Query: 401 LENEG 405
                
Sbjct: 143 HPGPH 147

Length = 413

>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]

 Score = 41.9 bits (98), Expect = 0.001
 Identities = 14/46 (30%), Positives = 26/46 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
            E +E+EE +E  E+  E+E E +  +EE+ E+ +E E +   +  
Sbjct: 950 DETDEDEESDESSEDLSEDESENDSSDEEDGEDWDELESKAAYDSR 995

Length = 1001

>gnl|CDD|236545 PRK09510, tolA, cell envelope integrity inner membrane protein TolA; Provisional

 Score = 41.3 bits (97), Expect = 0.001
 Identities = 12/61 (19%), Positives = 29/61 (47%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LE+E    +E++++ EE  ++   ++++ EE   +     + + E E +      K+   
Sbjct: 106 LEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAAAAKAKAEAEAKRAAAAAKKAAA 165

Query: 404 E 404
           E
Sbjct: 166 E 166

Length = 387

>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381)

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 17/44 (38%), Positives = 26/44 (59%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           +    +++E+EEEEEEE E EE +EEE+ +E  E+E        
Sbjct: 92  KLLGLDKKEKEEEEEEEVEVEELDEEEQIDELLEKELAKLKREK 135

This domain is functionally uncharacterized. This domain is found in eukaryotes. This presumed domain is typically between 156 to 174 amino acids in length. This domain is found associated with pfam07780, pfam01728. Length = 154

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 41.5 bits (98), Expect = 0.001
 Identities = 15/63 (23%), Positives = 36/63 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +++EE +EE+EE  + E++E++++++++++    E   E      E EE+  E +    +
Sbjct: 128 DDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERRRRRREWEEKRAELEFYYYQ 187

Query: 405 GHC 407
           G  
Sbjct: 188 GTY 190

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|218333 pfam04931, DNA_pol_phi, DNA polymerase phi

 Score = 42.2 bits (99), Expect = 0.001
 Identities = 18/82 (21%), Positives = 35/82 (42%), Gaps = 12/82 (14%)

Query: 335 FFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--- 391
             D       +E+E E  E+ E E E + E+ EE+E+E++ E  E     ++        
Sbjct: 651 DEDDLEETDDDEDECEAIEDSESESESDGEDGEEDEQEDDAEANEGVVPIDKAVRRALPK 710

Query: 392 ---------EEEEEEEKELENE 404
                      + E+E+ +++E
Sbjct: 711 VLNLPDALDGGDSEDEEGMDDE 732

This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localised exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units. Length = 784

>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 18/66 (27%), Positives = 34/66 (51%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           D + F  +  +     +  EE  ++  EE+ +EE+ ++++ +  E+ E   EE E  +E 
Sbjct: 201 DQQAFARVVRDMLGSMDMAEETGDDGIEEDADEEDGDDDQPDNNEDSEAGREESEGSDES 260

Query: 397 EEKELE 402
           EE E E
Sbjct: 261 EEDEAE 266

Length = 620

>gnl|CDD|220972 pfam11081, DUF2890, Protein of unknown function (DUF2890)

 Score = 39.9 bits (93), Expect = 0.001
 Identities = 18/53 (33%), Positives = 26/53 (49%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
              E EE+EEE E+ E+  +EE+EE EE EEE     +      +   +E   
Sbjct: 27  QAEEVEEDEEEMEDWEDSLDEEDEEAEEVEEETAASSKAPSSSSKSSSQETIS 79

This family is conserved in dsDNA adenoviruses of vertebrates. The function is not known. Length = 172

>gnl|CDD|225880 COG3343, RpoE, DNA-directed RNA polymerase, delta subunit [Transcription]

 Score = 39.7 bits (93), Expect = 0.001
 Identities = 15/47 (31%), Positives = 35/47 (74%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
             E +  ++E ++E+E+++E  E   E++E +E+E+++E+EE+EE++
Sbjct: 129 DDEVDSLDDENDDEDEDDDEIVEILIEDDEVDEDEDDDEDEEDEEDK 175

Length = 175

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 42.3 bits (99), Expect = 0.001
 Identities = 19/67 (28%), Positives = 29/67 (43%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
              +     +EE          E EE+EE   ++E ++E  EEE++E   E  EE  +   
Sbjct: 962  RNKRLLLAKEELGNVNLMAIAEFEEKEERYNKDELKKERLEEEKKELLREIIEETCQRFK 1021

Query: 404  EGHCDFV 410
            E    FV
Sbjct: 1022 EFLELFV 1028

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 42.3 bits (99), Expect = 0.001
 Identities = 23/73 (31%), Positives = 37/73 (50%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            LEE +E+E+EE+ +EEEEE  +     +EE          E EE+EE   ++E +KE   
Sbjct: 943  LEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMAIAEFEEKEERYNKDELKKERLE 1002

Query: 404  EGHCDFVKLREML 416
            E   + ++     
Sbjct: 1003 EEKKELLREIIEE 1015

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 12/56 (21%), Positives = 38/56 (67%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +E +EE    EE+ ++++++  + +++  +++   +++ +EE+ +EE++E++E E 
Sbjct: 74  DEIDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 21/61 (34%), Positives = 37/61 (60%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +E+E EE  EE +   EE ++E E++ +E +E  +  EEE ++EE+ E E+ E   ++E 
Sbjct: 43  KEKEREERIEERKRIREERKQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVEDDEW 102

Query: 406 H 406
            
Sbjct: 103 E 103

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 20/87 (22%), Positives = 48/87 (55%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            +  ++E  ++E + + EEE+EE++E+E++++EEE  E   ++ + +E   E  + E  +
Sbjct: 277 DDEPDKEAVKKEADSKPEEEDEEDDEQEDDQDEEEPPEAAMDKVKLDEPVLEGVDLESPK 336

Query: 401 LENEGHCDFVKLREMLIRTNMEDMREK 427
             +       KL++ + +   E++  K
Sbjct: 337 ELSSFEKRQAKLKQQIEQLEKENLAPK 363

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 39.6 bits (91), Expect = 0.001
 Identities = 30/62 (48%), Positives = 37/62 (59%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G +  +   ++    + ++E EEEEE E EEE EEE E EEE EEE E EE  EEE E E
Sbjct: 44  GEKGTKVGADDTNGTDPDDEPEEEEEPEPEEEGEEEPEPEEEGEEEPEPEETGEEEPEPE 103

Query: 403 NE 404
            E
Sbjct: 104 PE 105

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.8 bits (98), Expect = 0.001
 Identities = 18/58 (31%), Positives = 40/58 (68%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             EE+++++E+ +EE ++ + +EE +E+   +E+E+E+E++ EE  + EEE++ E   
Sbjct: 113 VKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVR 170

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 16/56 (28%), Positives = 36/56 (64%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +E+ +EE ++ + +EE +E+   +E+E+E+E++ EE  + EEE++ E    +   +
Sbjct: 121 KEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKRERVRAKSRPK 176

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional

 Score = 41.6 bits (97), Expect = 0.001
 Identities = 25/62 (40%), Positives = 41/62 (66%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G ++EEEE+E+ EE EE EE E  EEE +++E+ E+++E+E + E +E E   E   E  
Sbjct: 104 GTQKEEEEDEDVEEIEEVEEVEVVEEEYDDDEDSEKDDEKESDAEGDENELAGEYIIEEV 163

Query: 403 NE 404
           ++
Sbjct: 164 DD 165

Length = 374

>gnl|CDD|236410 PRK09202, nusA, transcription elongation factor NusA; Validated

 Score = 41.8 bits (99), Expect = 0.001
 Identities = 11/57 (19%), Positives = 26/57 (45%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             E   +EE+  ++    E  + E   +  E+  +  E+  E+  +E  + E +E++
Sbjct: 414 ETEALAQEEKLADDLLSLEGLDRELAFKLAEKGIKTLEDLAEQAVDELIDIEGDEEK 470

Length = 470

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 17/62 (27%), Positives = 42/62 (67%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           ++ + +++ ++ +++E +E  ++++EEE E E+E + EE  E++ ++EEEE+ + E+   
Sbjct: 147 KKGKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEEEDSDSEDYSQ 206

Query: 407 CD 408
            D
Sbjct: 207 YD 208

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 41.9 bits (98), Expect = 0.001
 Identities = 15/62 (24%), Positives = 35/62 (56%)

Query: 342  NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            + LE E++  E+     E +   +E++ +  E+++ +E+E+EEE  ++   ++E +    
Sbjct: 3915 DLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDRQEKEDEEEMSDDVGIDDEIQPDIQ 3974

Query: 402  EN 403
            EN
Sbjct: 3975 EN 3976

Length = 4600

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 41.9 bits (98), Expect = 0.001
 Identities = 23/101 (22%), Positives = 47/101 (46%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            L+  E+ + +E+E +  ++ + E+ + E  +E +EE + E++E  ++E+  EE     E+
Sbjct: 3987 LDLPEDLKLDEKEGDVSKDSDLEDMDMEAADENKEEADAEKDEPMQDEDPLEENNTLDED 4046

Query: 404  EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
                DF  L E   + N +   E             + +EE
Sbjct: 4047 IQQDDFSDLAEDDEKMNEDGFEENVQENEESTEDGVKSDEE 4087

Length = 4600

>gnl|CDD|219655 pfam07946, DUF1682, Protein of unknown function (DUF1682)

 Score = 41.1 bits (97), Expect = 0.001
 Identities = 20/55 (36%), Positives = 37/55 (67%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           EEE+  +  EEE +EE +E++EE+++EE E +  +   EE+ + EE+E +++  K
Sbjct: 268 EEEKILKAAEEERQEEAQEKKEEKKKEEREAKLAKLSPEEQRKLEEKERKKQARK 322

The members of this family are all hypothetical eukaryotic proteins of unknown function. One member is described as being an adipocyte-specific protein, but no evidence of this was found. Length = 322

>gnl|CDD|222160 pfam13476, AAA_23, AAA domain

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 25/76 (32%), Positives = 43/76 (56%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           +  +        Y      EE + + +E++E  EE E+E EE E+E++  E+  EE+E++
Sbjct: 127 LKSDKEILPLLLYLGQERLEELKFKRKEKKERLEELEKELEELEDEKDLLEKLLEEKEKK 186

Query: 388 EEEEEEEEEEEKELEN 403
           +E EE +EE E+ LE 
Sbjct: 187 KELEELKEELEELLEE 202

Length = 204

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/34 (35%), Positives = 30/34 (88%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           E EE+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 7   EGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 42.4 bits (100), Expect = 0.001
 Identities = 22/60 (36%), Positives = 27/60 (45%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              ++    E E E+ EE   +  +E  E E E EE EE  EE EEE  E E E E    
Sbjct: 730 ALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEA 789

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 28/59 (47%), Positives = 34/59 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE E + +E  EE  E EE+ EE +EE E  E E EE E E EE E   EE E++LE  
Sbjct: 326 EELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETL 384

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 7/70 (10%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-------EEEEEEEEEKEL 401
           +  E  ++EE + E EE   E E EEE +EEE EE  ++         E  E+E E K+L
Sbjct: 380 QRAEARKKEENDAEIEELRRELEGEEESDEEENEEPSKKNVGRRKFGPENGEKEAESKKL 439

Query: 402 ENEGHCDFVK 411
           + E   +F +
Sbjct: 440 KKENKNEFKE 449

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 23/58 (39%), Positives = 39/58 (67%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
              L++E + E +E++E +EEEE E+EEE + E+   +  +  E+ ++EEEEEE +EE
Sbjct: 436 SKKLKKENKNEFKEKKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEEEEEELDEE 493

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 40.5 bits (96), Expect = 0.001
 Identities = 22/34 (64%), Positives = 22/34 (64%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 375
                 E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 225 RQGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 14/60 (23%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + E++ EE E++   E+  ++E E+    E+  ++ E+  ++ EE++++ EE + +   E
Sbjct: 72  KLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAE 131

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 14/59 (23%), Positives = 36/59 (61%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           E+E +++ E++ EE E++   E+  ++E E+    E+  ++ E+  ++ EE++++  E 
Sbjct: 66  EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEA 124

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.0 bits (96), Expect = 0.001
 Identities = 13/59 (22%), Positives = 34/59 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E++   E+  ++E E+    E+  ++ E+  ++ EE++++ EE + ++  E + + E E
Sbjct: 81  EKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAE 139

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|217902 pfam04111, APG6, Autophagy protein Apg6

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 5/71 (7%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----EEEEEEEEE 393
           +Y + LE +  E    E  + E +E ++EEE   +E EE E+E+++      E +EE+E+
Sbjct: 50  QYLSKLESQNVEISNYEALDSELDELKKEEERLLDELEELEKEDDDLDGELVELQEEKEQ 109

Query: 394 EEEEEKELENE 404
            E EE +   E
Sbjct: 110 LENEELQYLRE 120

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway. Length = 356

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 19/79 (24%), Positives = 37/79 (46%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              EE EE +E+ + ++ +EE  + E+  +E +E  EE       +EE EE  E+  E +
Sbjct: 540 NLLEELEELKEKLQLQQLKEELRQLEDRLQELKELLEELRLLRTRKEELEELRERLKELK 599

Query: 405 GHCDFVKLREMLIRTNMED 423
                ++ R   +   ++ 
Sbjct: 600 KKLKELEERLSQLEELLQS 618

Length = 908

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 31/94 (32%), Positives = 46/94 (48%), Gaps = 3/94 (3%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           EE+ E  EE E E EE EEE E      EE EE  E+ +  EE  E+ EE+ ++LE+E  
Sbjct: 287 EEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELE 346

Query: 407 CDFVKLREMLIRTNMEDMREKTHCRHYELYRKKR 440
            +  + +  L +  + + R K      E   K+ 
Sbjct: 347 -ELAEEKNELAK--LLEERLKELEERLEELEKEL 377

Length = 908

>gnl|CDD|234055 TIGR02907, spore_VI_D, stage VI sporulation protein D

 Score = 41.0 bits (96), Expect = 0.001
 Identities = 27/100 (27%), Positives = 47/100 (47%), Gaps = 2/100 (2%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E+  +++ +E +    E  + E E E   EEE  EE E+E E E E+EE+  +++ E+  
Sbjct: 190 EQPADDDPDEWKISASEPFQLESEVEASPEEENYEEYEDETELEVEDEEKALDEQTEDPQ 249

Query: 406 HCDFVKLREMLIRTNMEDMREKTHCRHY--ELYRKKRLEE 443
             D +           E+  E+     Y  +L+RK   E+
Sbjct: 250 QEDALAGDAKKALEEEEEKGERPENATYLTKLFRKAEEEQ 289

SpoVID, the stage VI sporulation protein D, is restricted to endospore-forming members of the bacteria, all of which are found among the Firmicutes. It is widely distributed but not quite universal in this group. Between well-conserved N-terminal and C-terminal domains is a poorly conserved, low-complexity region of variable length, rich enough in glutamic acid to cause spurious BLAST search results unless a filter is used. The seed alignment for this model was trimmed, in effect, by choosing member sequences in which these regions are relatively short. SpoVID is involved in spore coat assembly by the mother cell compartment late in the process of sporulation [Cellular processes, Sporulation and germination]. Length = 338

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 20/82 (24%), Positives = 35/82 (42%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +  E+E+  E EEE+ E +  +EE ++ + E +  EE  +E E +     E    E E E
Sbjct: 17  KLTEDEKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAASGEGGGGEEEEE 76

Query: 405 GHCDFVKLREMLIRTNMEDMRE 426
                       +R   + + E
Sbjct: 77  EAKAEAAEFRAYLRGGDDALAE 98

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|225368 COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]

 Score = 38.6 bits (90), Expect = 0.001
 Identities = 27/55 (49%), Positives = 33/55 (60%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            +EE EE +EE E+  +E  EE  E  EE EEE E+  +E  EE  EE EEE EE
Sbjct: 19  ADEEIEEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEILEEAREEAEEEAEE 73

Length = 108

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 41.9 bits (98), Expect = 0.001
 Identities = 15/60 (25%), Positives = 29/60 (48%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E ++   +      E++ ++    E+ E E    EE E EEE E+ E+E +  K + ++
Sbjct: 346 AERKDYILDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDD 405

Length = 776

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 24/56 (42%), Positives = 29/56 (51%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           EE+    +E  E  +E+     E   EEEEEEEEEEEEE  E E   EE     E+
Sbjct: 377 EEDATTIDELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVPGFEV 432

Length = 470

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 41.7 bits (98), Expect = 0.001
 Identities = 23/52 (44%), Positives = 27/52 (51%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           EE+    +E  E  +E+     E   EEEEEEEEEEEEE  E E   EE   
Sbjct: 377 EEDATTIDELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 41.3 bits (97), Expect = 0.001
 Identities = 20/39 (51%), Positives = 22/39 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
           L+E+     E   EEEEEEEEEEEEE  E E   EE   
Sbjct: 390 LKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.0 bits (99), Expect = 0.001
 Identities = 19/60 (31%), Positives = 33/60 (55%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            +E  E+E +E +E+  + +E+ +  E+E E    ++EE EEE EE E    + E  L +
Sbjct: 827 EKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGD 886

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain

 Score = 39.9 bits (94), Expect = 0.001
 Identities = 21/56 (37%), Positives = 35/56 (62%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           L+ E+ + E E+E ++ EEE+EE E+   E E + E  E+ EEEE + EE+   ++
Sbjct: 116 LQAEQGKSELEQEIKKLEEEKEELEKRVAELEAKLEAIEKREEEERQIEEKRHADE 171

Axonemal dynein light chain proteins play a dynamic role in flagellar and cilia motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains. Length = 189

>gnl|CDD|237628 PRK14156, PRK14156, heat shock protein GrpE; Provisional

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 22/48 (45%), Positives = 25/48 (52%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE + EE EEE E  E EE  EE  EE  E+ E E   E   E EN+
Sbjct: 2   SEEIKNEEVEEEVEATETEETVEEVVEETPEKSELELANERADEFENK 49

Length = 177

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 38.6 bits (90), Expect = 0.001
 Identities = 16/30 (53%), Positives = 23/30 (76%)

Query: 373 EEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
               EE+ EE+EEE+++EEE+EEEEE+ L 
Sbjct: 71  AAAAEEKAEEKEEEKKKEEEKEEEEEEALA 100

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 41.5 bits (97), Expect = 0.001
 Identities = 16/58 (27%), Positives = 40/58 (68%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E++ +++EE+  EE + ++  E+E  ++ E+E  + +E++++ EE E++ + E+K+ E
Sbjct: 78  EQQRKKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQE 135

Length = 387

>gnl|CDD|224308 COG1390, NtpE, Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]

 Score = 40.4 bits (95), Expect = 0.001
 Identities = 23/55 (41%), Positives = 31/55 (56%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            LE+  ++   E EEE EE  EE  EE E+ +EE + E EE  EE   + E+E E
Sbjct: 3   ELEKLIKKILREAEEEAEEILEEAREEAEKIKEEAKREAEEAIEEILRKAEKEAE 57

Length = 194

>gnl|CDD|224236 COG1317, FliH, Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 22/72 (30%), Positives = 32/72 (44%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
              +   E+   EEEE E+  E +EEE E   +E +E  EE   E  EE  +   +E   
Sbjct: 26  AGPKVAPEKAVLEEEELEQALEAKEEELESAAQELQEGIEEGAREGYEEGFQLGYEEGFE 85

Query: 404 EGHCDFVKLREM 415
           EG  +   L  +
Sbjct: 86  EGQEEGRVLERL 97

Length = 234

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 41.9 bits (99), Expect = 0.001
 Identities = 26/59 (44%), Positives = 30/59 (50%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE   E  E  EE+ E  EE  E   E E E EE+ E   E EEE EE  EE  EL ++
Sbjct: 522 EELIAERRETIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSK 580

Length = 880

>gnl|CDD|234352 TIGR03779, Bac_Flav_CT_M, Bacteroides conjugative transposon TraM protein

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 15/45 (33%), Positives = 19/45 (42%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            E  + +EE+E   E EE E     E     E EE+    EK  E
Sbjct: 137 YEYPKTDEEKELLREVEELESRLATEPSPAPELEEQLALMEKSYE 181

Members of this protein family are designated TraM and are found in a proposed transfer region of a class of conjugative transposon found in the Bacteroides lineage [Cellular processes, DNA transformation]. Length = 410

>gnl|CDD|234352 TIGR03779, Bac_Flav_CT_M, Bacteroides conjugative transposon TraM protein

 Score = 41.3 bits (97), Expect = 0.001
 Identities = 18/100 (18%), Positives = 30/100 (30%), Gaps = 26/100 (26%)

Query: 330 KNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEE------------------------ 365
           ++L   F+       +    +   +EE +E  E                           
Sbjct: 79  QDLADSFEKSDKESQDYSSSDSGFDEEPDEPAETAGSLRPIRSSAAAYRDINRELGSFYE 138

Query: 366 --EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
             + +EE+E   E EE E     E     E EE+   +E 
Sbjct: 139 YPKTDEEKELLREVEELESRLATEPSPAPELEEQLALMEK 178

Members of this protein family are designated TraM and are found in a proposed transfer region of a class of conjugative transposon found in the Bacteroides lineage [Cellular processes, DNA transformation]. Length = 410

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 41.9 bits (99), Expect = 0.001
 Identities = 14/56 (25%), Positives = 19/56 (33%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            +E  E  E   E ++E  + EE  E  E    E E   +       E   E E  
Sbjct: 939 AQEVAEHAEPVVEPQDETADIEEAAETAEVVVAEPEVVAQPAAPVVAEVAAEVETV 994

Length = 1068

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 41.5 bits (98), Expect = 0.001
 Identities = 10/49 (20%), Positives = 21/49 (42%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   + 
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQR 50

Length = 325

>gnl|CDD|234366 TIGR03825, FliH_bacil, flagellar assembly protein FliH

 Score = 40.9 bits (96), Expect = 0.001
 Identities = 19/54 (35%), Positives = 31/54 (57%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E E+E  +EE+E E+  E+ E E  +  E+ E +     E+ E+E  + EEE+E
Sbjct: 30  ETEQELADEEQEFEQILEKAEAEAAQIIEQAEAQAAAIREQIEQERAQWEEERE 83

This bacillus clade of FliH proteins is not found by the Pfam FliH model pfam02108, but is closely related to the sequences identified by that model. Sequences identified by this model are observed in flagellar operons in an analogous position relative to other flagellar operon genes. Length = 255

>gnl|CDD|234366 TIGR03825, FliH_bacil, flagellar assembly protein FliH

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 3/67 (4%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK---EL 401
           E E+E  +EE+E E+  E+ E E  +  E+ E +     E+ E+E  + EEE E+   E 
Sbjct: 30  ETEQELADEEQEFEQILEKAEAEAAQIIEQAEAQAAAIREQIEQERAQWEEERERLIQEA 89

Query: 402 ENEGHCD 408
           + EG+  
Sbjct: 90  KQEGYEA 96

This bacillus clade of FliH proteins is not found by the Pfam FliH model pfam02108, but is closely related to the sequences identified by that model. Sequences identified by this model are observed in flagellar operons in an analogous position relative to other flagellar operon genes. Length = 255

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 37.6 bits (88), Expect = 0.001
 Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 2/55 (3%)

Query: 318 MQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEE 372
              +   NP          D  Y +  E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 22  SSVILPRNPL--SQDLPGLDYDYDSDAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|227458 COG5129, MAK16, Nuclear protein with HMG-like acidic region [General function prediction only]

 Score = 41.2 bits (96), Expect = 0.001
 Identities = 25/111 (22%), Positives = 51/111 (45%), Gaps = 14/111 (12%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE---------EEEEEEEEEEEEEEEEEE 393
             ++E+E   EEEEE + E E   ++ E+E+ +          ++  E  E EEEE  E 
Sbjct: 195 KRQDEKERYVEEEEESDTELEAVTDDSEKEKTKKKDLEKWLGSDQSMETSESEEEESSES 254

Query: 394 EEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
           E +E+++ +N+G     K+R+       +  +   H  + +    +++   
Sbjct: 255 ESDEDEDEDNKG-----KIRKRKTDDAKKSRKPHIHIEYEQERENEKIPAV 300

Length = 303

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 376
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 377
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 378
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 366 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 38.5 bits (90), Expect = 0.001
 Identities = 13/32 (40%), Positives = 18/32 (56%)

Query: 367 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
                  E   E +E EEEE+EEE EEE +++
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102

Length = 109

>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional

 Score = 39.7 bits (93), Expect = 0.001
 Identities = 10/50 (20%), Positives = 15/50 (30%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           FN    E +     E    ++++   E    E      E       EEE 
Sbjct: 106 FNAALAEADGGPTAEATTPKKKKAAAEAAAAEAAAPAAEAAAAAAAEEEA 155

Length = 155

>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional

 Score = 39.3 bits (92), Expect = 0.001
 Identities = 10/54 (18%), Positives = 15/54 (27%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
            LE       E +     E    ++++   E    E      E       EEE 
Sbjct: 102 KLELFNAALAEADGGPTAEATTPKKKKAAAEAAAAEAAAPAAEAAAAAAAEEEA 155

Length = 155

>gnl|CDD|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]

 Score = 41.6 bits (97), Expect = 0.001
 Identities = 15/51 (29%), Positives = 25/51 (49%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
                  EE +   EE+     E+   E    EE+++++EE + +KELE E
Sbjct: 459 RASLMTMEETQRHSEEDLVNRFEDVRYEHVAGEEDDDDDEELQAQKELELE 509

Length = 591

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 25/70 (35%), Positives = 41/70 (58%), Gaps = 8/70 (11%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEE--------EEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           +EE+ EE+E E+EE+E +EE+E+E        EE E+  EE E+ + +      ++E+ +
Sbjct: 14  IEEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKPLARYADDEDYD 73

Query: 396 EEEKELENEG 405
           EE KE E   
Sbjct: 74  EELKEQERWD 83

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|220371 pfam09736, Bud13, Pre-mRNA-splicing factor of RES complex

 Score = 39.2 bits (92), Expect = 0.001
 Identities = 23/62 (37%), Positives = 36/62 (58%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLRE 414
           EE+ EE+E E+EE+E +EE+E+E  +   ++EE E+  EE E+ K      + D     E
Sbjct: 15  EEKREEKEREKEEKERKEEKEKEWGKGLVQKEEREKRLEELEKAKNKPLARYADDEDYDE 74

Query: 415 ML 416
            L
Sbjct: 75  EL 76

This entry is characterized by proteins with alternating conserved and low-complexity regions. Bud13 together with Snu17p and a newly identified factor, Pml1p/Ylr016c, form a novel trimeric complex. called The RES complex, pre-mRNA retention and splicing complex. Subunits of this complex are not essential for viability of yeasts but they are required for efficient splicing in vitro and in vivo. Furthermore, inactivation of this complex causes pre-mRNA leakage from the nucleus. Bud13 contains a unique, phylogenetically conserved C-terminal region of unknown function. Length = 141

>gnl|CDD|148682 pfam07222, PBP_sp32, Proacrosin binding protein sp32

 Score = 40.4 bits (94), Expect = 0.001
 Identities = 16/56 (28%), Positives = 34/56 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
              + +  + ++E+   + +E  +E + EE++ +EE+EEEE EEE ++EE +   +
Sbjct: 188 GSVQVKAPKPKQEQLLSKLQEYLQEHKTEEKQPQEEQEEEEVEEEAKQEEGQGTDD 243

This family consists of several mammalian specific proacrosin binding protein sp32 sequences. sp32 is a sperm specific protein which is known to bind with with 55- and 53-kDa proacrosins and the 49-kDa acrosin intermediate. The exact function of sp32 is unclear, it is thought however that the binding of sp32 to proacrosin may be involved in packaging the acrosin zymogen into the acrosomal matrix. Length = 243

>gnl|CDD|224581 COG1667, COG1667, Uncharacterized protein conserved in archaea [Function unknown]

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 22/78 (28%), Positives = 30/78 (38%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           N  E        EEE E E EE +  E EE  E+      E EE E   +E    +    
Sbjct: 108 NKDECVLSVPITEEEVENEMEELKSSEREELLEKYGIRVPEIEEIERILDEAVGSDYFSE 167

Query: 402 ENEGHCDFVKLREMLIRT 419
           E E       L+++ I+ 
Sbjct: 168 EIEEPSREELLKKLGIKE 185

Length = 254

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 41.5 bits (97), Expect = 0.002
 Identities = 25/61 (40%), Positives = 36/61 (59%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE EE E+E E E E + E E E + +E E E E E E +E+E+E E +  E+ +   +E
Sbjct: 736 EEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKGDE 795

Query: 405 G 405
           G
Sbjct: 796 G 796

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 23/62 (37%), Positives = 28/62 (45%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L + +  E E   E   EE E   E E E  EE   E E+E E E + E E E E   E 
Sbjct: 630 LSKGDVAEAEHTGERTGEEGERPTEAEGENGEESGGEAEQEGETETKGENESEGEIPAER 689

Query: 404 EG 405
           +G
Sbjct: 690 KG 691

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 19/66 (28%), Positives = 36/66 (54%), Gaps = 1/66 (1%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNM 421
            E+E ++ + E  EE+  +E E +EE++ +EE+ E E+  + E   D  +  E+ I   +
Sbjct: 1   MEKECKDAKHENMEEDCCKENENKEEDKGKEEDLEFEEIEKEEIIEDSEESNEVKIE-EL 59

Query: 422 EDMREK 427
           +D   K
Sbjct: 60  KDENNK 65

Length = 211

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 21/61 (34%), Positives = 36/61 (59%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHC 407
           E   +++  + +E E++   +     E E+   E ++EEEE+EEEEEEE+E E  ++ H 
Sbjct: 354 ETLNKQKWTKAKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHS 413

Query: 408 D 408
           D
Sbjct: 414 D 414

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 24/67 (35%), Positives = 32/67 (47%), Gaps = 10/67 (14%)

Query: 344 LEEEEEEEEEEEEEEEEEEE----------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
             E+EE E+E  E+   +            EE+EE    E EEE EE E   EEE E + 
Sbjct: 268 QAEDEELEQENAEKRRMKRLEHRRELEQQIEEKEERRAAEREEELEEGERLREEEAERQA 327

Query: 394 EEEEEKE 400
             EEE++
Sbjct: 328 RIEEERQ 334

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|227693 COG5406, COG5406, Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]

 Score = 41.2 bits (96), Expect = 0.002
 Identities = 14/46 (30%), Positives = 27/46 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           +E +E+EE +E  E+  E+E E +  +EE+ E+ +E E +   +  
Sbjct: 950 DETDEDEESDESSEDLSEDESENDSSDEEDGEDWDELESKAAYDSR 995

Length = 1001

>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon

 Score = 40.4 bits (94), Expect = 0.002
 Identities = 19/60 (31%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++++E   E EE +++ EE  +  EEEE+  ++EE + +  EEEE+   +EE E+     
Sbjct: 207 QKQQEAALELEELKKKREERRKVLEEEEQRRKQEEADRKSREEEEKRRLKEEIERRRAEA 266

Length = 431

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 18/47 (38%), Positives = 30/47 (63%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
               E+E+E  E E E+  E++E+EE  +EEE+EEE E+ +++E   
Sbjct: 61  YEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAEDVKQQEVFS 107

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|222571 pfam14153, Spore_coat_CotO, Spore coat protein CotO

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 18/47 (38%), Positives = 30/47 (63%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           Y    +E+E  E E E+  E++E+EE  +EEE+EEE E+ +++E   
Sbjct: 61  YEEAEKEKEAGEPEREDIAEQQEKEEIAQEEEKEEEAEDVKQQEVFS 107

Bacillus spores are protected by a protein shell consisting of over 50 different polypeptides, known as the coat. This family of proteins has an important morphogenetic role in coat assembly, it is involved in the assembly of at least 5 different coat proteins including CotB, CotG, CotS, CotSA and CotW. It is likely to act at a late stage of coat assembly. Length = 185

>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional

 Score = 41.3 bits (96), Expect = 0.002
 Identities = 26/102 (25%), Positives = 55/102 (53%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            L EEE++ + EE ++ EE + + EE ++ EEE+++ E+ +++E EE+++ EE ++ E EN
Sbjct: 1600 LYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEEN 1659

Query: 404  EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES 445
            +        +    +   E+ ++            K+  EE+
Sbjct: 1660 KIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEALKKEAEEA 1701

Length = 2084

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.5 bits (97), Expect = 0.002
 Identities = 26/69 (37%), Positives = 41/69 (59%)

Query: 334 SFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
                      EE +  E++ +E+EEEEE+   ++EEEEEE+ E   +E+E  EEEE+ E
Sbjct: 726 DKVQEAQDKINEELKLLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTE 785

Query: 394 EEEEEKELE 402
           + + E+E E
Sbjct: 786 KLKVEEEKE 794

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 25/84 (29%), Positives = 40/84 (47%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E EEEEEE+ E+ +E+ E+ EEE   +++ E E      + +EEE E + EEEKE +  
Sbjct: 352 REAEEEEEEQLEKLQEKLEQLEEELLAKKKLESERLSSAAKLKEEELELKNEEEKEAKLL 411

Query: 405 GHCDFVKLREMLIRTNMEDMREKT 428
                 +   +      E    + 
Sbjct: 412 LELSEQEEDLLKEEKKEELKIVEE 435

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 20/59 (33%), Positives = 36/59 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           L+  +  EE  +  +E   +E+EE E  ++E E+EEE   +  +E +EEE+E++ +E E
Sbjct: 230 LDYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEEE 288

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 18/64 (28%), Positives = 28/64 (43%)

Query: 342  NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            N      +EE          E EE+EE   ++E ++E  EEE++E   E  EE  +  + 
Sbjct: 963  NKRLLLAKEELGNVNLMAIAEFEEKEERYNKDELKKERLEEEKKELLREIIEETCQRFKE 1022

Query: 402  ENEG 405
              E 
Sbjct: 1023 FLEL 1026

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 20/63 (31%), Positives = 32/63 (50%)

Query: 340  YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
                 +E+E+EE+ +EEEEE  +     +EE          E EE+EE   ++E ++E  
Sbjct: 942  LLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMAIAEFEEKEERYNKDELKKERL 1001

Query: 400  ELE 402
            E E
Sbjct: 1002 EEE 1004

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 40.7 bits (95), Expect = 0.002
 Identities = 20/57 (35%), Positives = 35/57 (61%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +  +  EE  +  +E   +E+EE E  ++E E+EEE   +  +E +EEE+EK+L+ E
Sbjct: 231 DYLKLNEERIDLLQELLRDEQEEIESSKQELEKEEEILAQVLKENKEEEKEKKLQEE 287

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 40.7 bits (95), Expect = 0.002
 Identities = 22/62 (35%), Positives = 31/62 (50%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           N +EE   EE     + E E EE   EE +E+E+EE+ +EEEEE  +     +EE     
Sbjct: 918 NEIEERIAEEAIILLKYESEPEELLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVN 977

Query: 402 EN 403
             
Sbjct: 978 LM 979

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|183610 PRK12585, PRK12585, putative monovalent cation/H+ antiporter subunit G; Reviewed

 Score = 39.7 bits (92), Expect = 0.002
 Identities = 21/61 (34%), Positives = 37/61 (60%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLR 413
           +E+ E+  +E EE EE  E E  EE+ +E E++EE+E E EE+  +E  ++   + ++  
Sbjct: 125 QEQIEKARQEREELEERMEWERREEKIDEREDQEEQEREREEQTIEEQSDDSEHEIIEQD 184

Query: 414 E 414
           E
Sbjct: 185 E 185

Length = 197

>gnl|CDD|218752 pfam05793, TFIIF_alpha, Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 17/75 (22%), Positives = 35/75 (46%)

Query: 330 KNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           KN     D K      +++ +E + ++ ++E  EE+   +      + EE E++   E  
Sbjct: 250 KNKKKLDDDKKGKRGGDDDADEYDSDDGDDEGREEDYISDSSASGNDPEEREDKLSPEIP 309

Query: 390 EEEEEEEEEKELENE 404
            + E E++E   E+E
Sbjct: 310 AKPEIEQDEDSEESE 324

Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) or RNA polymerase II-associating protein 74 (RAP74) is the large subunit of transcription factor IIF (TFIIF), which is essential for accurate initiation and stimulates elongation by RNA polymerase II. Length = 528

>gnl|CDD|235033 PRK02363, PRK02363, DNA-directed RNA polymerase subunit delta; Reviewed

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 11/54 (20%), Positives = 32/54 (59%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
           ID+ +    +       +  + +++  +++   +++ +EE+ +EE++E+EE+EE
Sbjct: 76  IDEEIIPLEEKFDKKKKKFMDGDDDIIDDDILPDDDFDEEDLDEEDDEDEEDEE 129

Length = 129

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 27/65 (41%), Positives = 35/65 (53%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +    L EE   + EE E + EE + E    EEE E+ +   EE EEE EE EEE EE +
Sbjct: 698 RSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEEELEELQ 757

Query: 399 KELEN 403
           + LE 
Sbjct: 758 ERLEE 762

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 27/59 (45%), Positives = 32/59 (54%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +EE EE E E     E  EE E E EE EE  EE +E+ E  +EE EE E   +ELE  
Sbjct: 294 KEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQL 352

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 32/59 (54%), Positives = 38/59 (64%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EEE    EEE EE +EE EE E+E EE + E EE  EE EE +EE  E +EE +ELE E
Sbjct: 245 EEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGE 303

Length = 1163

>gnl|CDD|220413 pfam09805, Nop25, Nucleolar protein 12 (25kDa)

 Score = 38.8 bits (91), Expect = 0.002
 Identities = 25/66 (37%), Positives = 42/66 (63%), Gaps = 5/66 (7%)

Query: 345 EEEEEEEEEEEEEEE-----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +EE +E+E EE  EE     EE ++E E++ +E +E  +  EEE ++EE+ E E+ E+ +
Sbjct: 39  QEEAKEKEREERIEERKRIREERKQELEKQLKERKEALKLLEEENDDEEDAETEDTEDVE 98

Query: 400 ELENEG 405
           + E EG
Sbjct: 99  DDEWEG 104

Members of this family of proteins are part of the yeast nuclear pore complex-associated pre-60S ribosomal subunit. The family functions as a highly conserved exonuclease that is required for the 5'-end maturation of 5.8S and 25S rRNAs, demonstrating that 5'-end processing also has a redundant pathway. Nop25 binds late pre-60S ribosomes, accompanying them from the nucleolus to the nuclear periphery; and there is evidence for both physical and functional links between late 60S subunit processing and export. Length = 134

>gnl|CDD|217840 pfam04006, Mpp10, Mpp10 protein

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 16/71 (22%), Positives = 35/71 (49%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            ++  E    +E      + ++ E  E+  +  + + E+  ++EEEEEE+E  E++ +++
Sbjct: 75  NQKYVEFLINKEHIRVLAKLQDSESHEDGSDGSDMDSEDSADDEEEEEEDESLEDEMIDD 134

Query: 404 EGHCDFVKLRE 414
           E   D     E
Sbjct: 135 EDEADLFNESE 145

This family includes proteins related to Mpp10 (M phase phosphoprotein 10). The U3 small nucleolar ribonucleoprotein (snoRNP) is required for three cleavage events that generate the mature 18S rRNA from the pre-rRNA. In Saccharomyces cerevisiae, depletion of Mpp10, a U3 snoRNP-specific protein, halts 18S rRNA production and impairs cleavage at the three U3 snoRNP-dependent sites. Length = 613

>gnl|CDD|221333 pfam11942, Spt5_N, Spt5 transcription elongation factor, acidic N-terminal

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 17/46 (36%), Positives = 30/46 (65%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           + E E ++EEEEEEEEE++ E+  +E+E  +E E E++ +    + 
Sbjct: 3   DTEAEVDDEEEEEEEEEDDLEDLSDEDEFIDEAEAEDDRRHRRLDR 48

This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4. Length = 92

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 38.8 bits (89), Expect = 0.002
 Identities = 33/67 (49%), Positives = 39/67 (58%), Gaps = 1/67 (1%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEE-EEEEEEEEEEEEEEEEEEEEEEEEEE 397
           K   G +   ++    + ++E EEEEE E EEE EEE E EEE EEE E EE  EEE E 
Sbjct: 43  KGEKGTKVGADDTNGTDPDDEPEEEEEPEPEEEGEEEPEPEEEGEEEPEPEETGEEEPEP 102

Query: 398 EKELENE 404
           E E E E
Sbjct: 103 EPEPEPE 109

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|114603 pfam05887, Trypan_PARP, Procyclic acidic repetitive protein (PARP)

 Score = 38.4 bits (88), Expect = 0.002
 Identities = 30/51 (58%), Positives = 30/51 (58%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
             EEE EEE E EEE EEE E EE  EEE E E E E E E E E E E E
Sbjct: 71  EPEEEGEEEPEPEEEGEEEPEPEETGEEEPEPEPEPEPEPEPEPEPEPEPE 121

This family consists of several Trypanosoma brucei procyclic acidic repetitive protein (PARP) like sequences. The procyclic acidic repetitive protein (parp) genes of Trypanosoma brucei encode a small family of abundant surface proteins whose expression is restricted to the procyclic form of the parasite. They are found at two unlinked loci, parpA and parpB; transcription of both loci is developmentally regulated. Length = 145

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 40.6 bits (95), Expect = 0.002
 Identities = 17/62 (27%), Positives = 38/62 (61%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           K       +    + +  +E + E  +EEE+E+E+ +EE+++++E+ +EE ++ + +EE 
Sbjct: 78  KRVEKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEA 137

Query: 399 KE 400
           KE
Sbjct: 138 KE 139

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional

 Score = 40.8 bits (95), Expect = 0.002
 Identities = 25/59 (42%), Positives = 39/59 (66%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           N  E   ++EEEE+E+ EE EE EE E  EEE +++E+ E+++E+E + E +E E   E
Sbjct: 99  NEEERGTQKEEEEDEDVEEIEEVEEVEVVEEEYDDDEDSEKDDEKESDAEGDENELAGE 157

Length = 374

>gnl|CDD|221203 pfam11748, DUF3306, Protein of unknown function (DUF3306)

 Score = 38.1 bits (89), Expect = 0.002
 Identities = 16/48 (33%), Positives = 20/48 (41%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
            E  E  EEE          EEEEE E E+EE  EE +  + +     
Sbjct: 19  AEPAETAEEEAAAAAPAPAPEEEEEAELEDEELLEELDLPDPDTLTPG 66

This family of proteobacterial species proteins has no known function. Length = 115

>gnl|CDD|237744 PRK14521, rpsP, 30S ribosomal protein S16; Provisional

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 18/50 (36%), Positives = 20/50 (40%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           K  N    E   E++  E      EE    EEEE EE   EE   EE  E
Sbjct: 137 KKVNEARAEAVAEKKAAEAAAVAAEEAAAAEEEEAEEAPAEEAPAEESAE 186

Length = 186

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 41.3 bits (96), Expect = 0.002
 Identities = 34/102 (33%), Positives = 44/102 (43%)

Query: 346  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            EE+ EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  EE  E+ +E   
Sbjct: 956  EEDAEENVEENVEENVEENVEENVEENVEENVEENVEENVEENVEENIEENVEENVEENI 1015

Query: 406  HCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV 447
              +  +  E  +    E++ E       E+        E N+
Sbjct: 1016 EENVEEYDEENVEEVEENVEEYDEENVEEIEENAEENVEENI 1057

Length = 1136

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 40.9 bits (95), Expect = 0.002
 Identities = 29/57 (50%), Positives = 33/57 (57%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            +EE  EE  EE  EE  EE  EE  EE +EE  EE EE  EE +EE  EE EE  +E
Sbjct: 995  VEENVEENIEENVEENVEENIEENVEEYDEENVEEVEENVEEYDEENVEEIEENAEE 1051

Length = 1136

>gnl|CDD|237047 PRK12298, obgE, GTPase CgtA; Reviewed

 Score = 40.6 bits (96), Expect = 0.002
 Identities = 18/52 (34%), Positives = 31/52 (59%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           EE   EE EE E  E+ E   ++   E+ EE EEE++++ +++  E ++EG 
Sbjct: 333 EENPREEAEEAEAPEKVEFMWDDYHREQLEEVEEEDDDDWDDDWDEDDDEGV 384

Length = 390

>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27

 Score = 41.0 bits (96), Expect = 0.002
 Identities = 27/68 (39%), Positives = 42/68 (61%), Gaps = 5/68 (7%)

Query: 342 NGLEEEEEEEE-----EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
            GL+E+E+E+E     E  + EEE EE+E+E+ +  ++  E+E+E+EE E   E   EEE
Sbjct: 263 TGLDEDEDEDEPKPSGERSDSEEETEEKEKEKRKRLKKMMEDEDEDEEMEIVPESPVEEE 322

Query: 397 EEKELENE 404
           E +E E  
Sbjct: 323 ESEEPEPP 330

This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterized by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. Length = 427

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 41.0 bits (96), Expect = 0.002
 Identities = 15/57 (26%), Positives = 39/57 (68%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           ++ + +++ ++ +++E +E  ++++EEE E E+E + EE  E++ ++EEEE+    +
Sbjct: 147 KKGKAKKKTKKSKKKEAKESSDKDDEEESESEDESKSEESAEDDSDDEEEEDSDSED 203

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|217502 pfam03343, SART-1, SART-1 family

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 19/61 (31%), Positives = 35/61 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            ++E  EE  + EE++E+EE+E+ + + E    + +EE+EEE++E       EE+     
Sbjct: 414 NKDESVEEISDAEEDDEDEEDEDGDGDVEMSAVDNDEEKEEEDKEAIPSTILEEEPTVGG 473

Query: 405 G 405
           G
Sbjct: 474 G 474

SART-1 is a protein involved in cell cycle arrest and pre-mRNA splicing. It has been shown to be a component of U4/U6 x U5 tri-snRNP complex in human, Schizosaccharomyces pombe and Saccharomyces cerevisiae. SART-1 is a known tumour antigen in a range of cancers recognised by T cells. Length = 603

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 14/30 (46%), Positives = 18/30 (60%)

Query: 376 EEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                  EE++EEEEEEEE+EE +E    G
Sbjct: 71  AAAAAAAEEKKEEEEEEEEKEESEEEAAAG 100

Length = 106

>gnl|CDD|222160 pfam13476, AAA_23, AAA domain

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 26/73 (35%), Positives = 43/73 (58%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
               L  +   +    L+ + +E++E  EE E+E EE E+E++  E+  EE+E+++E EE
Sbjct: 132 EILPLLLYLGQERLEELKFKRKEKKERLEELEKELEELEDEKDLLEKLLEEKEKKKELEE 191

Query: 388 EEEEEEEEEEEKE 400
            +EE EE  EE E
Sbjct: 192 LKEELEELLEELE 204

Length = 204

>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation domain

 Score = 38.2 bits (88), Expect = 0.002
 Identities = 11/36 (30%), Positives = 30/36 (83%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 375
           +  G E+ + + +EEE++++E+EE+++E+++E+++E
Sbjct: 5   FLEGEEDSDSDSDEEEDDDDEDEEDDDEDDDEDDDE 40

The centromere protein B (CENP-B) dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation. Length = 101

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 27/59 (45%), Positives = 34/59 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E + EE E + +E  EE  E EE+ EE +EE E  E E EE E E EE E   +ELE +
Sbjct: 322 EAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQ 380

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 9/65 (13%)

Query: 344 LEEEEEEEEEEEEEE---------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           L + +E E++EE             E  ++EE + E EE   E E EEE +EEE EE  +
Sbjct: 358 LGKLKEGEDDEENSGLLSMKFMQRAEARKKEENDAEIEELRRELEGEEESDEEENEEPSK 417

Query: 395 EEEEK 399
           +   +
Sbjct: 418 KNVGR 422

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 40.1 bits (95), Expect = 0.002
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 368 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 40.1 bits (95), Expect = 0.002
 Identities = 21/33 (63%), Positives = 23/33 (69%)

Query: 367 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +    E  EEEEEE EEEEEEEEEEE EE E +
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 41.0 bits (96), Expect = 0.002
 Identities = 15/57 (26%), Positives = 35/57 (61%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+E +++ E++ EE E++   E+  ++E E+    E+  ++ E+  ++ EEK+ + E
Sbjct: 66  EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAE 122

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 40.6 bits (95), Expect = 0.002
 Identities = 13/57 (22%), Positives = 32/57 (56%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
             E+  ++E E+    E+  ++ E+  ++ EE++++ EE + ++  E + + E E E
Sbjct: 85  AAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAE 141

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 40.6 bits (95), Expect = 0.002
 Identities = 14/58 (24%), Positives = 35/58 (60%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+E +++ E++ EE E++   E+  ++E E+    E+  ++ E+  ++ EE+++   E
Sbjct: 66  EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEE 123

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 40.9 bits (96), Expect = 0.002
 Identities = 34/105 (32%), Positives = 50/105 (47%), Gaps = 5/105 (4%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           ++E + + EE E +  E  E+ E+  E  EEE +E ++ EE +EE+EEEE E+E + LE 
Sbjct: 180 IKEAKAKIEELEGQLSELLEDIEDLLEALEEELKELKKLEEIQEEQEEEELEQEIEALEE 239

Query: 404 EGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVI 448
                  +L E   R      R        EL   K  EEE   +
Sbjct: 240 R----LAELEEEKERLEELKARLL-EIESLELEALKIREEELREL 279

Length = 908

>gnl|CDD|191249 pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylase N-terminal region

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 22/82 (26%), Positives = 45/82 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE E+    EE   E+ +++ +E+  E+E E+ +E  E+ E  + E ++  EE+ + E+ 
Sbjct: 157 EETEDSYHVEETASEQYKQDMKEKASEQENEDSKEPVEKAERTKAETDDVTEEDYDEEDN 216

Query: 405 GHCDFVKLREMLIRTNMEDMRE 426
              D   ++E L +  +E+ +E
Sbjct: 217 PVEDSKAIKEELAKEPVEEQQE 238

This family includes the N-terminal regions of the junctin, junctate and aspartyl beta-hydroxylase proteins. Junctate is an integral ER/SR membrane calcium binding protein, which comes from an alternatively spliced form of the same gene that generates aspartyl beta-hydroxylase and junctin. Aspartyl beta-hydroxylase catalyzes the post-translational hydroxylation of aspartic acid or asparagine residues contained within epidermal growth factor (EGF) domains of proteins. Length = 240

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 12/56 (21%), Positives = 46/56 (82%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            EE E+ ++E EE+++ + ++++ ++++++++++++++++++ E+++E+E E +LE
Sbjct: 68  AEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLE 123

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|233467 TIGR01554, major_cap_HK97, phage major capsid protein, HK97 family

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 22/63 (34%), Positives = 31/63 (49%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             L E EEE+ E +  +EE ++ + E +  EE  +E E +     E    EEEEEE K  
Sbjct: 22  EKLAEAEEEKAEYDALKEEIDKLDAEIDRLEELLDELEAKPAASGEGGGGEEEEEEAKAE 81

Query: 402 ENE 404
             E
Sbjct: 82  AAE 84

This model family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease [Mobile and extrachromosomal element functions, Prophage functions]. Length = 384

>gnl|CDD|235562 PRK05687, fliH, flagellar assembly protein H; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 15/48 (31%), Positives = 18/48 (37%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
            +   E    E      E  E EE  EEE     EEE E   ++  EE
Sbjct: 24  FDPPPEPPPPEPAAPPPEPPEPEEVPEEEAAPLTEEELEAIRQQAHEE 71

Length = 246

>gnl|CDD|225368 COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]

 Score = 38.2 bits (89), Expect = 0.002
 Identities = 29/60 (48%), Positives = 34/60 (56%), Gaps = 2/60 (3%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEKELE 402
           EE +EE E+  +E  EE  E  EE EEE E+  +E  EE  EE EEE EE   E EKE  
Sbjct: 24  EEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEILEEAREEAEEEAEEILAEAEKEAS 83

Length = 108

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
            +   E++ ++    E+ E E    EE E EEE E+ E+E +  +   +++E E 
Sbjct: 356 SSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELEN 410

Length = 776

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 41.1 bits (96), Expect = 0.002
 Identities = 16/59 (27%), Positives = 28/59 (47%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           Y         E++ ++    E+ E E    EE E EEE E+ E+E +  +   +++E E
Sbjct: 351 YILDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELE 409

Length = 776

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 40.7 bits (95), Expect = 0.002
 Identities = 17/60 (28%), Positives = 31/60 (51%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LE++ ++    E+ E E    EE E EEE E+ E+E +  +   +++E E      + +N
Sbjct: 360 LEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELENHFRAADEKN 419

Length = 776

>gnl|CDD|221429 pfam12118, SprA-related, SprA-related family

 Score = 40.2 bits (94), Expect = 0.002
 Identities = 15/61 (24%), Positives = 38/61 (62%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            G   +E +++  E  +EE   EEE E+++ E  ++  ++++E++++EE++  E + ++ 
Sbjct: 62  AGSASQELQKQASESNDEEVVGEEEPEKDQAEAGKQLSQKQQEQQQQEEKQVRELKARDR 121

Query: 402 E 402
           E
Sbjct: 122 E 122

This protein is found in bacteria. Proteins in this family are typically between 234 to 465 amino acids in length. There is a conserved GEV sequence motif.Most members are annotated as being SprA-related. Length = 261

>gnl|CDD|184536 PRK14145, PRK14145, heat shock protein GrpE; Provisional

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 13/59 (22%), Positives = 36/59 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           + +EEE++       E+ E   E+E+ ++ + +++  +E EE +++ +++E E ++ L+
Sbjct: 8   INKEEEKDVNNLSSNEQMEGPPEDEQAQQNQPQQQTVDEIEELKQKLQQKEVEAQEYLD 66

Length = 196

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 40.6 bits (95), Expect = 0.002
 Identities = 22/50 (44%), Positives = 25/50 (50%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           D    + L E  +E+     E   EEEEEEEEEEEEE  E E   EE   
Sbjct: 379 DATTIDELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|237628 PRK14156, PRK14156, heat shock protein GrpE; Provisional

 Score = 39.4 bits (92), Expect = 0.002
 Identities = 23/58 (39%), Positives = 29/58 (50%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            EE + EE EEE E  E EE  EE  EE  E+ E E   E  +E E +      E++N
Sbjct: 2   SEEIKNEEVEEEVEATETEETVEEVVEETPEKSELELANERADEFENKYLRAHAEMQN 59

Length = 177

>gnl|CDD|220112 pfam09110, HAND, HAND

 Score = 38.0 bits (89), Expect = 0.002
 Identities = 18/46 (39%), Positives = 30/46 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           L++  + +EE+EEE E + + E+E+ +  E   EEEEEE++   EE
Sbjct: 63  LDDVGDGDEEDEEEREAKRKLEQEKIDNAEPLTEEEEEEKQRLLEE 108

The HAND domain adopts a secondary structure consisting of four alpha helices, three of which (H2, H3, H4) form an L-like configuration. Helix H2 runs antiparallel to helices H3 and H4, packing closely against helix H4, whilst helix H1 reposes in the concave surface formed by these three helices and runs perpendicular to them. The domain confers DNA and nucleosome binding properties to the protein. Length = 109

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 38.4 bits (90), Expect = 0.002
 Identities = 10/46 (21%), Positives = 27/46 (58%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + ENE
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 40.7 bits (95), Expect = 0.002
 Identities = 16/61 (26%), Positives = 40/61 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            EE+  EE + ++  E+E  ++ E+E  + +E++++ EE E++ + E++++EE+ ++   
Sbjct: 84  KEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARKAAA 143

Query: 404 E 404
           E
Sbjct: 144 E 144

Length = 387

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 39/106 (36%), Positives = 52/106 (49%), Gaps = 2/106 (1%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           K+    E  EE  +E+E+E EE   E  E   E  E  EE E+ E+E +E EE +EE EE
Sbjct: 183 KFIKRTENIEELIKEKEKELEEVLREINEISSELPELREELEKLEKEVKELEELKEEIEE 242

Query: 399 KELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRK-KRLEE 443
            E E E      +  E  IR  +E+  E+      EL  K K L+E
Sbjct: 243 LEKELESLEGSKRKLEEKIR-ELEERIEELKKEIEELEEKVKELKE 287

Length = 880

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 31/90 (34%), Positives = 42/90 (46%), Gaps = 6/90 (6%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           + E  E  EE+ E  EE  E   E E E EE+ E   E EEE EE  EE  E   K  E 
Sbjct: 525 IAERRETIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAEL 584

Query: 404 EGHCDFV-KLREML-----IRTNMEDMREK 427
           +   + + ++R +L         +E +REK
Sbjct: 585 KERIESLERIRTLLAAIADAEDEIERLREK 614

Length = 880

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 26/65 (40%), Positives = 31/65 (47%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LEE  E+ EE   E  E  EE+ E  EE  E   E E E EE+ E   E EEE E+  E 
Sbjct: 514 LEERREDLEELIAERRETIEEKRERAEELRERAAELEAEAEEKREAAAEAEEEAEEAREE 573

Query: 404 EGHCD 408
               +
Sbjct: 574 VAELN 578

Length = 880

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 14/55 (25%), Positives = 18/55 (32%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           E  E  E   E ++E  + EE  E  E    E E   +       E   E E   
Sbjct: 941 EVAEHAEPVVEPQDETADIEEAAETAEVVVAEPEVVAQPAAPVVAEVAAEVETVT 995

Length = 1068

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 14/60 (23%), Positives = 18/60 (30%)

Query: 346  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
             E ++E  + EE  E  E    E E   +       E   E E     E E       E 
Sbjct: 950  VEPQDETADIEEAAETAEVVVAEPEVVAQPAAPVVAEVAAEVETVTAVEPEVAPAQVPEA 1009

Length = 1068

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 14/57 (24%), Positives = 18/57 (31%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             E   E ++E  + EE  E  E    E E   +       E   E E     E E  
Sbjct: 946  AEPVVEPQDETADIEEAAETAEVVVAEPEVVAQPAAPVVAEVAAEVETVTAVEPEVA 1002

Length = 1068

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.7 bits (96), Expect = 0.002
 Identities = 11/47 (23%), Positives = 22/47 (46%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           L+  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 3   LKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 11/51 (21%), Positives = 23/51 (45%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   ++ L
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQRVL 52

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 10/48 (20%), Positives = 21/48 (43%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 10/48 (20%), Positives = 21/48 (43%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 10/48 (20%), Positives = 21/48 (43%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 10/48 (20%), Positives = 21/48 (43%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 10/48 (20%), Positives = 21/48 (43%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 10/48 (20%), Positives = 21/48 (43%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 374
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 375
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 376
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 377
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 378
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 379
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 380
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 381
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 383
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 361 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 366 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 367 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 368 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 369 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           + E EEEEE E+ E E+EE+EEE+++++ +
Sbjct: 45  DAEWEEEEEGEDLESEDEEDEEEDDDDDMD 74

The CAF-1 or chromatin assembly factor-1 consists of three subunits, and this is the first, or A. The A domain is uniquely required for the progression of S phase in mouse cells, independent of its ability to promote histone deposition but dependent on its ability to interact with HP1 - heterochromatin protein 1-rich heterochromatin domains next to centromeres that are crucial for chromosome segregation during mitosis. This HP1-CAF-1 interaction module functions as a built-in replication control for heterochromatin, which, like a control barrier, has an impact on S-phase progression in addition to DNA-based checkpoints. Length = 76

>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 8/49 (16%), Positives = 13/49 (26%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
                E +     E    ++++   E    E      E       EEE 
Sbjct: 107 NAALAEADGGPTAEATTPKKKKAAAEAAAAEAAAPAAEAAAAAAAEEEA 155

Length = 155

>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 8/49 (16%), Positives = 13/49 (26%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
                E +     E    ++++   E    E      E       EEE 
Sbjct: 107 NAALAEADGGPTAEATTPKKKKAAAEAAAAEAAAPAAEAAAAAAAEEEA 155

Length = 155

>gnl|CDD|227492 COG5163, NOP7, Protein required for biogenesis of the 60S ribosomal subunit [Translation, ribosomal structure and biogenesis]

 Score = 41.2 bits (96), Expect = 0.002
 Identities = 15/54 (27%), Positives = 27/54 (50%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                  EE +   EE+     E+   E    EE+++++EE + ++E ELE +G
Sbjct: 459 RASLMTMEETQRHSEEDLVNRFEDVRYEHVAGEEDDDDDEELQAQKELELEAQG 512

Length = 591

>gnl|CDD|148682 pfam07222, PBP_sp32, Proacrosin binding protein sp32

 Score = 40.0 bits (93), Expect = 0.002
 Identities = 17/57 (29%), Positives = 36/57 (63%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            G  + +  + ++E+   + +E  +E + EE++ +EE+EEEE EEE ++EE +  ++
Sbjct: 187 GGSVQVKAPKPKQEQLLSKLQEYLQEHKTEEKQPQEEQEEEEVEEEAKQEEGQGTDD 243

This family consists of several mammalian specific proacrosin binding protein sp32 sequences. sp32 is a sperm specific protein which is known to bind with with 55- and 53-kDa proacrosins and the 49-kDa acrosin intermediate. The exact function of sp32 is unclear, it is thought however that the binding of sp32 to proacrosin may be involved in packaging the acrosin zymogen into the acrosomal matrix. Length = 243

>gnl|CDD|177755 PLN00152, PLN00152, DNA-directed RNA polymerase; Provisional

 Score = 38.7 bits (90), Expect = 0.002
 Identities = 16/52 (30%), Positives = 27/52 (51%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           +N ++   E+E  E E EE  EE+ E    +E +    E E++EE+E  +  
Sbjct: 2   YNDMDMGYEDEPSEPEIEEGAEEDSESNNNDEVKGSIGENEDKEEQEPVQRP 53

Length = 130

>gnl|CDD|218115 pfam04502, DUF572, Family of unknown function (DUF572)

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 27/91 (29%), Positives = 37/91 (40%), Gaps = 30/91 (32%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEE-------EEEEEEEEEEEEEEEEEEE----------- 382
           +   + +EE+EE  E+E EEE         E    + + E E  E  EE           
Sbjct: 108 YEADKLDEEQEERVEKEREEELAGDAMKKLENRTADSKREMEVLERLEELKELQSRRADV 167

Query: 383 ------------EEEEEEEEEEEEEEEEKEL 401
                       E++EEEEEEEE+E   K L
Sbjct: 168 DVNSMLEALFRREKKEEEEEEEEDEALIKSL 198

Family of eukaryotic proteins with undetermined function. Length = 321

>gnl|CDD|224188 COG1269, NtpI, Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]

 Score = 40.8 bits (96), Expect = 0.002
 Identities = 21/67 (31%), Positives = 26/67 (38%)

Query: 338 CKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            K  N L  E  E  E +    E   E EE   E ++E E    E E   E+  EE    
Sbjct: 207 SKILNELGFELYEVPEFDGGPSELISELEEVIAEIQDELESLRSELEALAEKIAEELLAV 266

Query: 398 EKELENE 404
            + LE E
Sbjct: 267 REILEIE 273

Length = 660

>gnl|CDD|218556 pfam05327, RRN3, RNA polymerase I specific transcription initiation factor RRN3

 Score = 40.7 bits (96), Expect = 0.002
 Identities = 13/43 (30%), Positives = 30/43 (69%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
           N L++ ++EEEE    +E++++E++  + ++++EEE + E E 
Sbjct: 220 NELDDIDDEEEERVLADEDDDDEDDMFDMDDDDEEESDPEVER 262

This family consists of several eukaryotic proteins which are homologous to the yeast RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in Saccharomyces cerevisiae. Length = 554

>gnl|CDD|217956 pfam04194, PDCD2_C, Programmed cell death protein 2, C-terminal putative domain

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 20/52 (38%), Positives = 24/52 (46%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCD 408
            EEEE E        EE EE E +  EE E+E    +E+EE  E E     D
Sbjct: 8   PEEEEYETLHAPSLPEEPEEREIDAFEELEKEGGGGKEDEETDESEKAKSDD 59

Length = 165

>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 20/63 (31%), Positives = 41/63 (65%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
               E   E E  E+E   + E+E E EEEE++E+++++E ++E++E+++++EK +E +G
Sbjct: 123 GPPSELGSESETSEKETTAKVEKEAEVEEEEKKEKKKKKEVKKEKKEKKDKKEKMVEPKG 182

Query: 406 HCD 408
              
Sbjct: 183 SKK 185

5. This is a family of proteins conserved from yeasts to human. Subunit A34.5 of RNA polymerase I is a non-essential subunit which is thought to help Pol I overcome topological constraints imposed on ribosomal DNA during the process of transcription. Length = 193

>gnl|CDD|218561 pfam05340, DUF740, Protein of unknown function (DUF740)

 Score = 40.8 bits (95), Expect = 0.002
 Identities = 21/41 (51%), Positives = 29/41 (70%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            EEEEE E EE+EE  E+E  +  +E+ EEEEEEE K +++
Sbjct: 140 LEEEEEVEMEEDEEYYEKEPGKVVDEKSEEEEEEELKTMKD 180

This family consists of several uncharacterized plant proteins of unknown function. Length = 565

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 40.4 bits (94), Expect = 0.003
 Identities = 24/62 (38%), Positives = 35/62 (56%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G E EE E+E E E E + E E E + +E E E E E E +E+E+E E +  E+ E + +
Sbjct: 735 GEEGEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEGEIQAGEDGEMKGD 794

Query: 403 NE 404
             
Sbjct: 795 EG 796

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 16/46 (34%), Positives = 29/46 (63%)

Query: 359 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              E E ++ EE+EE  EE+E++E  +EEE +  ++E++E+    E
Sbjct: 1   SGSESESDDGEEDEELPEEDEDDESSDEEEVDLPDDEQDEESDSEE 46

Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay. Length = 171

>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 20/62 (32%), Positives = 35/62 (56%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           E   +++  + +E E++   +     E E+   E ++EEEE+EEEEEEE+E++    E  
Sbjct: 354 ETLNKQKWTKAKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDEGPSKEHS 413

Query: 407 CD 408
            D
Sbjct: 414 DD 415

This is a family of fungal and plant proteins and contains many hypothetical proteins. VID27 is a cytoplasmic protein that plays a potential role in vacuolar protein degradation. Length = 794

>gnl|CDD|223649 COG0576, GrpE, Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]

 Score = 38.9 bits (91), Expect = 0.003
 Identities = 26/60 (43%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E+ EEEE EEEE EEE E EEE++E  E E + EE +++    + E E   +  E E E
Sbjct: 19  AEKSEEEEAEEEEPEEENELEEEQQEIAELEAQLEELKDKYLRAQAEFENLRKRTERERE 78

Length = 193

>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein

 Score = 40.4 bits (95), Expect = 0.003
 Identities = 15/58 (25%), Positives = 33/58 (56%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
             ++EE +EE+EE  + E++E++++++++++    E   E      E EE+  E E  
Sbjct: 127 DDDDEESDEEDEESSKSEDDEDDDDDDDDDDIATRERSLERRRRRREWEEKRAELEFY 184

CDC45 is an essential gene required for initiation of DNA replication in S. cerevisiae, forming a complex with MCM5/CDC46. Homologues of CDC45 have been identified in human, mouse and smut fungus among others. Length = 583

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 40.7 bits (95), Expect = 0.003
 Identities = 20/64 (31%), Positives = 30/64 (46%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
              +   + E E EE   EE +E+E+EE+ +EEEEE  +     +EE          E E
Sbjct: 926 EEAIILLKYESEPEELLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMAIAEFE 985

Query: 401 LENE 404
            + E
Sbjct: 986 EKEE 989

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 40.7 bits (95), Expect = 0.003
 Identities = 21/63 (33%), Positives = 30/63 (47%)

Query: 338 CKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
                  E E EE   EE +E+E+EE+ +EEEEE  +     +EE          E EE+
Sbjct: 928 AIILLKYESEPEELLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLMAIAEFEEK 987

Query: 398 EKE 400
           E+ 
Sbjct: 988 EER 990

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 40.3 bits (94), Expect = 0.003
 Identities = 25/63 (39%), Positives = 41/63 (65%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
              E +  E++ +E+EEEEE+   ++EEEEEE+ E   +E+E  EEEE+ E+ + EE++ 
Sbjct: 735 INEELKLLEQKIKEKEEEEEKSRLKKEEEEEEKSELSLKEKELAEEEEKTEKLKVEEEKE 794

Query: 402 ENE 404
           E  
Sbjct: 795 EKL 797

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|217051 pfam02463, SMC_N, RecF/RecN/SMC N terminal domain

 Score = 40.3 bits (94), Expect = 0.003
 Identities = 23/70 (32%), Positives = 34/70 (48%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE   EE     + E E EE   EE +E+E+EE+ +EEEEE  +     +EE   +   
Sbjct: 920 IEERIAEEAIILLKYESEPEELLLEEADEKEKEEDNKEEEEERNKRLLLAKEELGNVNLM 979

Query: 405 GHCDFVKLRE 414
              +F +  E
Sbjct: 980 AIAEFEEKEE 989

This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination. Length = 1162

>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown]

 Score = 40.2 bits (94), Expect = 0.003
 Identities = 15/65 (23%), Positives = 34/65 (52%)

Query: 340 YFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
                EE +   +   ++ +E  +E  ++ ++  ++  E ++E +  EE E + +EE+ K
Sbjct: 349 LTKLYEEVKSNTDLSGDKRQELLKEYNKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLK 408

Query: 400 ELENE 404
           + ENE
Sbjct: 409 QEENE 413

Length = 434

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 39.4 bits (92), Expect = 0.003
 Identities = 20/54 (37%), Positives = 28/54 (51%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E  E E  ++     +   E++E   E    E+ EEEE EE EE+EE+E E E 
Sbjct: 46  ELAEPETSDDPYGNPDPFGEDDEGRIEVRISEDGEEEEVEEGEEDEEEEGEEES 99

Length = 306

>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein

 Score = 39.7 bits (93), Expect = 0.003
 Identities = 15/80 (18%), Positives = 38/80 (47%), Gaps = 12/80 (15%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE- 395
           +    N  +E+++EE+E + +  EE+    + ++ +   + +  +++ ++++ E+E    
Sbjct: 88  NLDASNEGDEDDDEEDEIKRKRIEEDARNSDADDSDSSSDSDSSDDDSDDDDSEDETAAL 147

Query: 396 -----------EEEKELENE 404
                       EEKE E E
Sbjct: 148 LRELEKIKKERAEEKEREEE 167

This family represents Cwf15/Cwc15 (from Schizosaccharomyces pombe and Saccharomyces cerevisiae respectively) and their homologues. The function of these proteins is unknown, but they form part of the spliceosome and are thus thought to be involved in mRNA splicing. Length = 241

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 27/61 (44%), Positives = 32/61 (52%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            E EE E E     E  EE E E EE EE  EE +E+ E  +EE EE E   EE ++L  
Sbjct: 295 EEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLA 354

Query: 404 E 404
           E
Sbjct: 355 E 355

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 25/62 (40%), Positives = 29/62 (46%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           LEE EE  E   EE  E E E  E   E EE + E E  EE  E   E  E+ +E+  E 
Sbjct: 371 LEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKEL 430

Query: 404 EG 405
           E 
Sbjct: 431 EA 432

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 24/59 (40%), Positives = 29/59 (49%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           L EE EE  E   EE  E E E  E   E EE + E E  EE  E   E  E+ ++EL+
Sbjct: 370 LLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELK 428

Length = 1163

>gnl|CDD|221333 pfam11942, Spt5_N, Spt5 transcription elongation factor, acidic N-terminal

 Score = 37.0 bits (86), Expect = 0.003
 Identities = 20/55 (36%), Positives = 33/55 (60%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           EEEEEE++ E+  +E+E  +E E E++      +   E+EEEE+ EE  E   ++
Sbjct: 14  EEEEEEDDLEDLSDEDEFIDEAEAEDDRRHRRLDRRREKEEEEDAEELAEYLRKR 68

This is the very acidic N-terminal region of the early transcription elongation factor Spt5. The Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The actual function of this N-terminal domain is not known although it is dispensable for binding to Spt4. Length = 92

>gnl|CDD|222636 pfam14265, DUF4355, Domain of unknown function (DUF4355)

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 19/55 (34%), Positives = 30/55 (54%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           K     E+++EE++ E E+  +   EE+ E E E+ E+E EE E E    E + E
Sbjct: 19  KEKAKWEKKQEEKKSEAEKLAKMSAEEKAEYELEKLEKELEELEAELARRELKAE 73

This family of proteins is found in bacteria and viruses. Proteins in this family are typically between 180 and 214 amino acids in length. Length = 125

>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457)

 Score = 40.0 bits (93), Expect = 0.003
 Identities = 12/55 (21%), Positives = 44/55 (80%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +EEE+++EE+++++++E+E++++++++E++E+E++++    ++   ++  E + E
Sbjct: 50  MEEEDDDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGNETDNE 104

This is a family of uncharacterized proteins. Length = 449

>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional

 Score = 40.0 bits (93), Expect = 0.003
 Identities = 31/77 (40%), Positives = 47/77 (61%), Gaps = 2/77 (2%)

Query: 331 NLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE--EEEEE 388
           N+ S  + K  N  + E E      + EEE   ++EEEE+E+ EE EE EE E  EEE +
Sbjct: 73  NVASIANDKSDNENDVELEGLNIIVKNEEERGTQKEEEEDEDVEEIEEVEEVEVVEEEYD 132

Query: 389 EEEEEEEEEEKELENEG 405
           ++E+ E+++EKE + EG
Sbjct: 133 DDEDSEKDDEKESDAEG 149

Length = 374

>gnl|CDD|173534 PTZ00341, PTZ00341, Ring-infected erythrocyte surface antigen; Provisional

 Score = 40.5 bits (94), Expect = 0.003
 Identities = 29/57 (50%), Positives = 33/57 (57%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            +EE  EE  EE  EE  EE  EE  EE  EE +EE  EE EE  EE +EE  EE +E
Sbjct: 991  VEENVEENVEENIEENVEENVEENIEENVEEYDEENVEEVEENVEEYDEENVEEIEE 1047

Length = 1136

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 40.8 bits (95), Expect = 0.003
 Identities = 17/61 (27%), Positives = 28/61 (45%)

Query: 344  LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
            LEE   EE+   + + +E E  E E +     ++    E E  + EEE ++ +EE     
Sbjct: 3837 LEELANEEDTANQSDLDESEARELESDMNGVTKDSVVSENENSDSEEENQDLDEEVNDIP 3896

Query: 404  E 404
            E
Sbjct: 3897 E 3897

Length = 4600

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 40.8 bits (95), Expect = 0.003
 Identities = 18/85 (21%), Positives = 44/85 (51%), Gaps = 5/85 (5%)

Query: 342  NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
              LE+++ +E+E+EEE  ++   ++E + + +E   +   E E+ +  E+ + +E+E ++
Sbjct: 3943 KALEDKDRQEKEDEEEMSDDVGIDDEIQPDIQENNSQPPPENEDLDLPEDLKLDEKEGDV 4002

Query: 402  ENEGHCDFVKLREMLIRTNMEDMRE 426
              +       L +M +    E+  E
Sbjct: 4003 SKD-----SDLEDMDMEAADENKEE 4022

Length = 4600

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 40.8 bits (95), Expect = 0.003
 Identities = 15/60 (25%), Positives = 36/60 (60%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +E  EE+  E E++  E+     E +   +E++ +  E+++ +E+E+EEE  ++  +++E
Sbjct: 3909 DEPNEEDLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDRQEKEDEEEMSDDVGIDDE 3968

Length = 4600

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 11/43 (25%), Positives = 14/43 (32%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           EEE+                 E    E E E E EE+  +  G
Sbjct: 115 EEEDAAAPTCSCCPVCSVNMTECTGPEPEPEPEPEEEPEKKSG 157

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.8 bits (96), Expect = 0.003
 Identities = 34/95 (35%), Positives = 45/95 (47%), Gaps = 1/95 (1%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
            EE  E EE+ EE +EE E  E E EE E E EE E   EE EE+ E    +  +LE + 
Sbjct: 336 AEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQLETLRSKVAQLELQI 395

Query: 406 HCDFVKLREMLIRTNM-EDMREKTHCRHYELYRKK 439
                ++  +  R    ED RE+      EL +K 
Sbjct: 396 ASLNNEIERLEARLERLEDRRERLQQEIEELLKKL 430

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.4 bits (95), Expect = 0.003
 Identities = 28/59 (47%), Positives = 34/59 (57%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           LEE E + EE E + +E  EE  E EE+ EE +EE E  E E EE E E EE E +  E
Sbjct: 318 LEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEE 376

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 40.8 bits (96), Expect = 0.003
 Identities = 23/58 (39%), Positives = 38/58 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            +E + E +E++E +EEEE E+EEE + E+   +  +  E+ ++EEEEEE +EE   L
Sbjct: 440 KKENKNEFKEKKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEEEEEELDEENPWL 497

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 40.4 bits (95), Expect = 0.003
 Identities = 22/63 (34%), Positives = 40/63 (63%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
                ++ ++E + E +E++E +EEEE E+EEE + E+   +  +  E+ ++EEEEEE +
Sbjct: 432 KEAESKKLKKENKNEFKEKKESDEEEELEDEEEAKVEKVANKLLKRSEKAQKEEEEEELD 491

Query: 401 LEN 403
            EN
Sbjct: 492 EEN 494

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.8 bits (93), Expect = 0.003
 Identities = 13/55 (23%), Positives = 32/55 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           E E++   E+  ++E E+    E+  ++ E+  ++ EE++++ EE + ++  E K
Sbjct: 79  EAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAK 133

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 18/29 (62%), Positives = 19/29 (65%)

Query: 377 EEEEEEEEEEEEEEEEEEEEEEKELENEG 405
                EEEEEEEEEEEEEEEE +E    G
Sbjct: 71  AAAAAEEEEEEEEEEEEEEEESEEEAMAG 99

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|217902 pfam04111, APG6, Autophagy protein Apg6

 Score = 39.9 bits (93), Expect = 0.003
 Identities = 20/60 (33%), Positives = 34/60 (56%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
             E +E ++EEE   +E EE E+E+++ + E  E +EE+E+ E EE +   E    +  N
Sbjct: 69  DSELDELKKEEERLLDELEELEKEDDDLDGELVELQEEKEQLENEELQYLREYNLFDRNN 128

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. Autophagy is a bulk degradation process induced by starvation in eukaryotic cells. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway. Length = 356

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 27/75 (36%), Positives = 37/75 (49%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             LE  ++ EE  +E +EE  E     EE +EE EE E+E EE E E EE EEE ++ E 
Sbjct: 379 KALERLKQLEEAIQELKEELAELSAALEEIQEELEELEKELEELERELEELEEEIKKLEE 438

Query: 402 ENEGHCDFVKLREML 416
           +         +   L
Sbjct: 439 QINQLESKELMIAEL 453

Length = 908

>gnl|CDD|191249 pfam05279, Asp-B-Hydro_N, Aspartyl beta-hydroxylase N-terminal region

 Score = 39.5 bits (92), Expect = 0.003
 Identities = 23/108 (21%), Positives = 46/108 (42%), Gaps = 5/108 (4%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEE-----EEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           G  +E + +E++    E+ ++ +E  E     EE E+    EE   E+ +++ +E+  E+
Sbjct: 125 GPGKEPQLDEDKFLLAEDSDDRQETLEAGKVHEETEDSYHVEETASEQYKQDMKEKASEQ 184

Query: 398 EKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES 445
           E E   E      + +        ED  E+ +        K+ L +E 
Sbjct: 185 ENEDSKEPVEKAERTKAETDDVTEEDYDEEDNPVEDSKAIKEELAKEP 232

This family includes the N-terminal regions of the junctin, junctate and aspartyl beta-hydroxylase proteins. Junctate is an integral ER/SR membrane calcium binding protein, which comes from an alternatively spliced form of the same gene that generates aspartyl beta-hydroxylase and junctin. Aspartyl beta-hydroxylase catalyzes the post-translational hydroxylation of aspartic acid or asparagine residues contained within epidermal growth factor (EGF) domains of proteins. Length = 240

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 38.5 bits (90), Expect = 0.003
 Identities = 8/63 (12%), Positives = 45/63 (71%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
             +++E EE+++ + ++++ ++++++++++++++++++ E+++E+E E++ E+  +    
Sbjct: 72  EKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSE 131

Query: 402 ENE 404
              
Sbjct: 132 TLS 134

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|235562 PRK05687, fliH, flagellar assembly protein H; Validated

 Score = 39.5 bits (93), Expect = 0.003
 Identities = 18/62 (29%), Positives = 22/62 (35%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            E    E      E  E EE  EEE     EEE E   ++  EE     + E   E    
Sbjct: 28  PEPPPPEPAAPPPEPPEPEEVPEEEAAPLTEEELEAIRQQAHEEGFAAGKAEGRAEGYEA 87

Query: 405 GH 406
           G+
Sbjct: 88  GY 89

Length = 246

>gnl|CDD|240413 PTZ00423, PTZ00423, glideosome-associated protein 45; Provisional

 Score = 38.9 bits (90), Expect = 0.003
 Identities = 23/59 (38%), Positives = 38/59 (64%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E  E E+ ++E EE  E++ E+  EE E++ EE  E+EEE EE++ +EE +    EN+
Sbjct: 19  DELAEREKLKKEVEEIPEQKPEDIVEELEDQPEEPPEQEEENEEQKPKEEIDYPIQENK 77

Length = 193

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 40.2 bits (94), Expect = 0.003
 Identities = 23/53 (43%), Positives = 27/53 (50%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           EE+    +E  E  +E+     E   EEEEEEEEEEEEE  E E   E    G
Sbjct: 377 EEDATTIDELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVPG 429

Length = 470

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 40.2 bits (94), Expect = 0.003
 Identities = 22/52 (42%), Positives = 28/52 (53%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           EE+    +E  E  +E+     E   EEEEEEEEEEEEE  E E   E+ + 
Sbjct: 377 EEDATTIDELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 40.8 bits (96), Expect = 0.003
 Identities = 23/57 (40%), Positives = 33/57 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E+EEE+ +E  EE EE+    E+E E  + E +E E   EE EE+  + EE   +LE
Sbjct: 729 EQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLE 785

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain

 Score = 38.7 bits (91), Expect = 0.003
 Identities = 21/57 (36%), Positives = 34/57 (59%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           + E+ + E E+E ++ EEE+EE E+   E E + E  E+ EEEE + EE+    E+ 
Sbjct: 117 QAEQGKSELEQEIKKLEEEKEELEKRVAELEAKLEAIEKREEEERQIEEKRHADEIA 173

Axonemal dynein light chain proteins play a dynamic role in flagellar and cilia motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains. Length = 189

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 40.3 bits (94), Expect = 0.003
 Identities = 15/61 (24%), Positives = 40/61 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L+ ++  E+E  ++ E+E  + +E++++ EE E++ + E++++EE+  +   E++K+ E 
Sbjct: 92  LKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEA 151

Query: 404 E 404
            
Sbjct: 152 A 152

Length = 387

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 39.9 bits (93), Expect = 0.003
 Identities = 15/57 (26%), Positives = 39/57 (68%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
            ++EE+  EE + ++  E+E  ++ E+E  + +E++++ EE E++ + E++++EE+ 
Sbjct: 82  KKKEEQVAEELKPKQAAEQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQA 138

Length = 387

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 40.8 bits (96), Expect = 0.003
 Identities = 28/63 (44%), Positives = 34/63 (53%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
           NGLE E  E +EE E  EE+ E+  E  +E +E  EE EE  EE E  E E E+  E   
Sbjct: 209 NGLESELAELDEEIERYEEQREQARETRDEADEVLEEHEERREELETLEAEIEDLRETIA 268

Query: 402 ENE 404
           E E
Sbjct: 269 ETE 271

Length = 880

>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional

 Score = 38.1 bits (89), Expect = 0.003
 Identities = 7/49 (14%), Positives = 13/49 (26%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
                E +     E    ++++   E    E      E       EE+ 
Sbjct: 107 NAALAEADGGPTAEATTPKKKKAAAEAAAAEAAAPAAEAAAAAAAEEEA 155

Length = 155

>gnl|CDD|236277 PRK08493, PRK08493, NADH dehydrogenase subunit G; Validated

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 21/86 (24%), Positives = 39/86 (45%), Gaps = 2/86 (2%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           +      LEE ++   +E      EE  E+  E+ E+  E +EE ++E  ++ ++  E +
Sbjct: 445 EEAILKSLEEFKQSIVKEAALSILEEIREKVLEQAEQGCENQEEVKKEVPKKVKKIPEVD 504

Query: 397 EEKELENEG--HCDFVKLREMLIRTN 420
               LE  G     + KL  +L + N
Sbjct: 505 TYLLLEELGINEETYEKLEALLAKKN 530

Length = 819

>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y

 Score = 40.3 bits (95), Expect = 0.003
 Identities = 21/59 (35%), Positives = 36/59 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           LE    + EE  + + E  +++EE  E++E+E   +E+  +E+EEE EE   E+ +ELE
Sbjct: 81  LERRLLQREETLDRKMESLDKKEENLEKKEKELSNKEKNLDEKEEELEELIAEQREELE 139

Members of this family are RNase Y, an endoribonuclease. The member from Bacillus subtilis, YmdA, has been shown to be involved in turnover of yitJ riboswitch [Transcription, Degradation of RNA]. Length = 514

>gnl|CDD|215656 pfam00012, HSP70, Hsp70 protein

 Score = 40.3 bits (95), Expect = 0.003
 Identities = 27/108 (25%), Positives = 49/108 (45%), Gaps = 13/108 (12%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           GL ++E E   ++ EE   E+++ +E  E + E EE     E+  +EE ++  E +K+  
Sbjct: 500 GLSDDEIERMVKDAEEYAAEDKKRKERIEAKNEAEEYVYSLEKSLKEEGDKLPEADKKKV 559

Query: 403 NEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNVIGS 450
            E       L+E L   + E++  KT          + L++    IG 
Sbjct: 560 EEAIEW---LKEELEGEDKEEIEAKT----------EELQKVVQPIGE 594

Hsp70 chaperones help to fold many proteins. Hsp70 assisted folding involves repeated cycles of substrate binding and release. Hsp70 activity is ATP dependent. Hsp70 proteins are made up of two regions: the amino terminus is the ATPase domain and the carboxyl terminus is the substrate binding region. Length = 598

>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated

 Score = 40.6 bits (96), Expect = 0.003
 Identities = 18/74 (24%), Positives = 39/74 (52%), Gaps = 1/74 (1%)

Query: 328 IDKNLYSFFDCKYFN-GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           + K        +Y   G    + + E ++ +EE E+ E ++EEE+E+  +E  E  ++ E
Sbjct: 139 LKKKHLPKLIKQYEKFGFGILKIDFEIDDSKEELEKFEAQKEEEDEKLAKEALEAMKKLE 198

Query: 387 EEEEEEEEEEEEKE 400
            E++++ +  + KE
Sbjct: 199 AEKKKQSKNFDPKE 212

Length = 1437

>gnl|CDD|221756 pfam12757, DUF3812, Protein of unknown function (DUF3812)

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 14/41 (34%), Positives = 27/41 (65%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 384
           L+E +E  E +   +EE++ +EEE + + EE +E E E+++
Sbjct: 86  LDEIDERAEAQRARDEEKKLDEEEAKRQHEEAKEREREKKK 126

This is a family of fungal proteins whose function is not known. Length = 126

>gnl|CDD|221756 pfam12757, DUF3812, Protein of unknown function (DUF3812)

 Score = 37.7 bits (88), Expect = 0.003
 Identities = 13/37 (35%), Positives = 24/37 (64%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           +E  E +   +EE++ +EEE + + EE +E E E+K+
Sbjct: 90  DERAEAQRARDEEKKLDEEEAKRQHEEAKEREREKKK 126

This is a family of fungal proteins whose function is not known. Length = 126

>gnl|CDD|233692 TIGR02031, BchD-ChlD, magnesium chelatase ATPase subunit D

 Score = 40.2 bits (94), Expect = 0.003
 Identities = 13/44 (29%), Positives = 22/44 (50%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           L E E +        E  E EEE +E ++ + ++ EE ++  EE
Sbjct: 266 LPEPEPQPPPPPPPPEPPEPEEEPDEPDQTDPDDGEETDQIPEE 309

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea [Biosynthesis of cofactors, prosthetic groups, and carriers, Chlorophyll and bacteriochlorphyll]. Length = 589

>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family

 Score = 39.3 bits (92), Expect = 0.003
 Identities = 27/83 (32%), Positives = 42/83 (50%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           EE E E++E EE  E+ EE+    ++E EE EE   E EE+ ++EEEE +  E+K  E E
Sbjct: 1   EEAEREQQELEERMEQMEEDMRRAQKELEEYEETALELEEKLKQEEEEAQLLEKKADELE 60

Query: 405 GHCDFVKLREMLIRTNMEDMREK 427
                ++          E +  +
Sbjct: 61  EENRRLEEEAAASEEERERLEAE 83

This family of proteins contain a band 4.1 domain (pfam00373), at their amino terminus. This family represents the rest of these proteins. Length = 244

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 39.9 bits (93), Expect = 0.004
 Identities = 29/79 (36%), Positives = 36/79 (45%), Gaps = 19/79 (24%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEE-------------------EEEEEEEEEEEEEEE 385
           EEEEEEEE+E EEEE E+EEEEEE E                   EE EE+ E    E  
Sbjct: 452 EEEEEEEEQESEEEEGEDEEEEEEVEADNGSEEEMEGSSEGDGDGEEPEEDAERRNSEMA 511

Query: 386 EEEEEEEEEEEEEKELENE 404
                 E ++     ++ E
Sbjct: 512 GISRMSEGQQPRGSSVQPE 530

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|217503 pfam03344, Daxx, Daxx Family

 Score = 39.9 bits (93), Expect = 0.004
 Identities = 20/61 (32%), Positives = 28/61 (45%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+EEEEEE E +   EEE E   E + + EE EE+ E    E        E ++    + 
Sbjct: 468 EDEEEEEEVEADNGSEEEMEGSSEGDGDGEEPEEDAERRNSEMAGISRMSEGQQPRGSSV 527

Query: 405 G 405
            
Sbjct: 528 Q 528

The Daxx protein (also known as the Fas-binding protein) is thought to play a role in apoptosis, but precise role played by Daxx remains to be determined. Daxx forms a complex with Axin. Length = 715

>gnl|CDD|148630 pfam07133, Merozoite_SPAM, Merozoite surface protein (SPAM)

 Score = 38.3 bits (89), Expect = 0.004
 Identities = 17/56 (30%), Positives = 34/56 (60%)

Query: 337 DCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           + +    +EE E+ E+EEE  E+EEEEEE+EE+  + ++ E++   +     +++ 
Sbjct: 55  EEEDEEEIEEPEDIEDEEEIVEDEEEEEEDEEDNVDLKDIEKKNINDIFNSTQDDN 110

This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteristic of a well-defined structural element. Length = 164

>gnl|CDD|217861 pfam04050, Upf2, Up-frameshift suppressor 2

 Score = 38.5 bits (90), Expect = 0.004
 Identities = 15/44 (34%), Positives = 29/44 (65%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
              E E ++ EE+EE  EE+E++E  +EEE +  ++E++ E++ 
Sbjct: 1   SGSESESDDGEEDEELPEEDEDDESSDEEEVDLPDDEQDEESDS 44

Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay. Length = 171

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 39.5 bits (93), Expect = 0.004
 Identities = 31/88 (35%), Positives = 40/88 (45%), Gaps = 22/88 (25%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEE-----EEEEEEEEEEEEEEE---------------- 377
           +      EE+EE  +EE  EEE E     E++ E+EE E+E  E                
Sbjct: 237 RAREEQIEEKEERLQEERAEEEAERERMLEKQAEDEELEQENAEKRRMKRLEHRRELEQQ 296

Query: 378 -EEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE+EE    E EEE EE E  +E E E
Sbjct: 297 IEEKEERRAAEREEELEEGERLREEEAE 324

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]

 Score = 39.2 bits (91), Expect = 0.004
 Identities = 17/58 (29%), Positives = 28/58 (48%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           E+          + +E+ +E    + + + EEEE  EE +  EEEE+EE   +   EG
Sbjct: 147 EKPRVTRFNIVWDNDEDNDEAPPAQPDVDNEEEERLEESDGREEEEDEEVGSDSYGEG 204

Length = 279

>gnl|CDD|130712 TIGR01651, CobT, cobaltochelatase, CobT subunit

 Score = 39.9 bits (93), Expect = 0.004
 Identities = 14/52 (26%), Positives = 26/52 (50%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
            G  E E +E    +E E  + E E  EEE  + ++++  +E +++ E   E
Sbjct: 228 QGEGEGEGQEGSAPQESEATDRESESGEEEMVQSDQDDLPDESDDDSETPGE 279

This model describes Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit that functions in cobalamin biosynthesis. Cobalamin (vitamin B12) can be synthesized via several pathways, including an aerobic pathway (found in Pseudomonas denitrificans) and an anaerobic pathway (found in P. shermanii and Salmonella typhimurium). These pathways differ in the point of cobalt insertion during corrin ring formation. There are apparently a number of variations on these two pathways, where the major differences seem to be concerned with the process of ring contraction. Confusion regarding the functions of enzymes found in the aerobic vs. anaerobic pathways has arisen because nonhomologous genes in these different pathways were given the same gene symbols. Thus, cobT in the aerobic pathway (P. denitrificans) is not a homolog of cobT in the anaerobic pathway (S. typhimurium). It should be noted that E. coli synthesizes cobalamin only when it is supplied with the precursor cobinamide, which is a complex intermediate. Additionally, all E. coli cobalamin synthesis genes (cobU, cobS and cobT) were named after their Salmonella typhimurium homologs which function in the anaerobic cobalamin synthesis pathway. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model [Biosynthesis of cofactors, prosthetic groups, and carriers, Heme, porphyrin, and cobalamin]. Length = 600

>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 20/62 (32%), Positives = 30/62 (48%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKL 412
           E  E E  ++     +   E++E   E    E+ EEEE EE EE+E+E   E   +F  L
Sbjct: 46  ELAEPETSDDPYGNPDPFGEDDEGRIEVRISEDGEEEEVEEGEEDEEEEGEEESEEFEPL 105

Query: 413 RE 414
            +
Sbjct: 106 GD 107

Length = 306

>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function unknown]

 Score = 40.1 bits (94), Expect = 0.004
 Identities = 25/97 (25%), Positives = 43/97 (44%), Gaps = 7/97 (7%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           EE + E E+ E E E    E  ++  ++ E    +   E  E+E EE+++  +ELE    
Sbjct: 446 EELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELER--- 502

Query: 407 CDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
               KL E+     +E   + T  +  E    + +EE
Sbjct: 503 ----KLAELRKMRKLELSGKGTPVKVVEKLTLEAIEE 535

Length = 652

>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed

 Score = 40.0 bits (93), Expect = 0.004
 Identities = 10/53 (18%), Positives = 17/53 (32%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E     EE  E + E E+  +   +     + + E      EE      E  +
Sbjct: 358 ESTPAVEETSEADIEREQPGDLAGQAPAAHQVDAEAASAAPEEPAALASEAHD 410

Length = 460

>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 10/40 (25%), Positives = 19/40 (47%)

Query: 365 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              +  EEE        E++++  E+EEE+++ E     E
Sbjct: 260 APPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAEDRALEE 299

Length = 584

>gnl|CDD|220102 pfam09073, BUD22, BUD22

 Score = 39.8 bits (93), Expect = 0.004
 Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 11/67 (16%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEE-----------EEEEEEEEEEEEEEEEEEEEEEEEE 393
           E + EE  E++ ++EEEE+ + E+            +EEE EE       E+  E E +E
Sbjct: 180 ESKSEESAEDDSDDEEEEDSDSEDYSQYDGMLVDSSDEEEGEEAPSINYNEDTSESESDE 239

Query: 394 EEEEEKE 400
            + E  E
Sbjct: 240 SDSEISE 246

BUD22 has been shown in yeast to be a nuclear protein involved in bud-site selection. It plays a role in positioning the proximal bud pole signal. More recently it has been shown to be involved in ribosome biogenesis. Length = 424

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 40.4 bits (94), Expect = 0.004
 Identities = 14/60 (23%), Positives = 35/60 (58%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            EE+  E E++  E+     E +   +E++ +  E+++ +E+E+EEE  ++   + E++ +
Sbjct: 3913 EEDLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDRQEKEDEEEMSDDVGIDDEIQPD 3972

Length = 4600

>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

 Score = 40.4 bits (94), Expect = 0.004
 Identities = 18/70 (25%), Positives = 40/70 (57%)

Query: 342  NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL 401
            N L E+  +E  EE+  E E++  E+     E +   +E++ +  E+++ +E+E+EE+  
Sbjct: 3901 NSLNEKLWDEPNEEDLLETEQKSNEQSAANNESDLVSKEDDNKALEDKDRQEKEDEEEMS 3960

Query: 402  ENEGHCDFVK 411
            ++ G  D ++
Sbjct: 3961 DDVGIDDEIQ 3970

Length = 4600

>gnl|CDD|222648 pfam14283, DUF4366, Domain of unknown function (DUF4366)

 Score = 38.9 bits (91), Expect = 0.004
 Identities = 16/85 (18%), Positives = 28/85 (32%), Gaps = 31/85 (36%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEE-------------------------------EEE 373
                  E    E E E E EEE E+                               +E+
Sbjct: 129 VCSVNMTECTGPEPEPEPEPEEEPEKKSGMGPLLLVLAVALIGGGAYYYFKFYKPKQQEK 188

Query: 374 EEEEEEEEEEEEEEEEEEEEEEEEE 398
              +++ +E +  +E+EEE++E   
Sbjct: 189 GAPDDDLDEYDYGDEDEEEDDEPPW 213

This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 227 and 387 amino acids in length. Length = 213

>gnl|CDD|219069 pfam06512, Na_trans_assoc, Sodium ion transport-associated

 Score = 38.9 bits (91), Expect = 0.004
 Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE----EEEEEEEEEEEEKELEN 403
           E   +E+   E     +EE ++   E  + EE++    E    + E  EEEEEE  E E 
Sbjct: 115 ENLNDEDTSSESSYGFKEESKKGSAETLKLEEKDSSSSEGSTVDLEPPEEEEEEIAEEEE 174

Query: 404 E 404
           E
Sbjct: 175 E 175

Members of this family contain a region found exclusively in eukaryotic sodium channels or their subunits, many of which are voltage-gated. Members very often also contain between one and four copies of pfam00520 and, less often, one copy of pfam00612. Length = 230

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.0 bits (94), Expect = 0.004
 Identities = 30/58 (51%), Positives = 35/58 (60%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           EE  EE EE +EE +E EEE EE   E +E EE+ EE   E  E EEE EE +KEL  
Sbjct: 235 EELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYA 292

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 40.0 bits (94), Expect = 0.004
 Identities = 26/59 (44%), Positives = 32/59 (54%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
               E + EE E + EE E + +E  EE  E EE+ EE +EE E  E E EE E ELE 
Sbjct: 311 LANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEE 369

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|218177 pfam04615, Utp14, Utp14 protein

 Score = 39.7 bits (93), Expect = 0.004
 Identities = 25/70 (35%), Positives = 41/70 (58%), Gaps = 6/70 (8%)

Query: 341 FNGLEEEEEEEEEEEEEEEE------EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
             G EE +EEE EE  ++         E  E+E E ++ ++E + E +E++E +EEEE E
Sbjct: 401 LEGEEESDEEENEEPSKKNVGRRKFGPENGEKEAESKKLKKENKNEFKEKKESDEEEELE 460

Query: 395 EEEEKELENE 404
           +EEE ++E  
Sbjct: 461 DEEEAKVEKV 470

This protein is found to be part of a large ribonucleoprotein complex containing the U3 snoRNA. Depletion of the Utp proteins impedes production of the 18S rRNA, indicating that they are part of the active pre-rRNA processing complex. This large RNP complex has been termed the small subunit (SSU) processome. Length = 728

>gnl|CDD|235396 PRK05299, rpsB, 30S ribosomal protein S2; Provisional

 Score = 39.0 bits (92), Expect = 0.004
 Identities = 22/33 (66%), Positives = 23/33 (69%)

Query: 370 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           +    E  EEEEEE EEEEEEEEEEE EE E E
Sbjct: 226 QGRLAEAAEEEEEEAEEEEEEEEEEEAEEAEAE 258

Length = 258

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 14/60 (23%), Positives = 35/60 (58%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +  ++E E+    E+  ++ E+  ++ EE++++ EE + ++  E + + E E EK+ + E
Sbjct: 88  QARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKEE 147

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 13/59 (22%), Positives = 35/59 (59%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            +++   ++E+E +++ E++ EE E++   E+  ++E E+    E+  ++ E+  K+ E
Sbjct: 57  QQKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAE 115

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 12/59 (20%), Positives = 34/59 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +++   ++E+E +++ E++ EE E++   E+  ++E E+    E+  ++ E+  +   E
Sbjct: 58  QKKPAAKKEQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEE 116

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 13/60 (21%), Positives = 34/60 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           ++   E+  ++E E+    E+  ++ E+  ++ EE++++ EE + ++  E + + E E E
Sbjct: 82  KQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAE 141

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 13/60 (21%), Positives = 34/60 (56%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E+  ++E E+    E+  ++ E+  ++ EE++++ EE + ++  E + + E E ++   E
Sbjct: 87  EQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAEAEKKAKE 146

TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB [Transport and binding proteins, Other, Cellular processes, Pathogenesis]. Length = 346

>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742)

 Score = 38.5 bits (90), Expect = 0.004
 Identities = 12/59 (20%), Positives = 47/59 (79%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +E  EE E+ ++E EE+++ + ++++ ++++++++++++++++++ E+++E+E E + E
Sbjct: 65  KELAEEIEKVKKEYEEKQKWKWKKKKSKKKKDKDKDKKDDKKDDKSEKKDEKEAEDKLE 123

This is a family of fungal proteins of unknown function. Length = 182

>gnl|CDD|225368 COG2811, NtpF, Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 24/57 (42%), Positives = 32/57 (56%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + E   +EE EE +EE E+  +E  EE  E  EE EEE E+  +E  EE  +E E E
Sbjct: 14  KAEISADEEIEEAKEEAEQIIKEAREEAREIIEEAEEEAEKLAQEILEEAREEAEEE 70

Length = 108

>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]

 Score = 40.0 bits (93), Expect = 0.004
 Identities = 19/73 (26%), Positives = 30/73 (41%)

Query: 329 DKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           D  L S          +    E+ E E    EE E EEE E+ E+E +  +   +++E E
Sbjct: 350 DYILDSSSVPLEKQFDDILYFEKMEIENRNPEESEHEEEVEDYEDENDHSKRICDDDELE 409

Query: 389 EEEEEEEEEEKEL 401
                 +E+   L
Sbjct: 410 NHFRAADEKNSHL 422

Length = 776

>gnl|CDD|221429 pfam12118, SprA-related, SprA-related family

 Score = 39.0 bits (91), Expect = 0.004
 Identities = 12/52 (23%), Positives = 32/52 (61%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
                 +E +++  E  +EE   EEE E+++ E  ++  ++++E++++EE++
Sbjct: 61  AAGSASQELQKQASESNDEEVVGEEEPEKDQAEAGKQLSQKQQEQQQQEEKQ 112

This protein is found in bacteria. Proteins in this family are typically between 234 to 465 amino acids in length. There is a conserved GEV sequence motif.Most members are annotated as being SprA-related. Length = 261

>gnl|CDD|224530 COG1614, CdhC, CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]

 Score = 39.8 bits (93), Expect = 0.004
 Identities = 21/46 (45%), Positives = 25/46 (54%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           ++E  E  +E+     E   EEEEEEEEEEEEE  E E   EE   
Sbjct: 383 IDELREFLKEKGHPVVERWAEEEEEEEEEEEEEAAEAEAPMEEPVP 428

Length = 470

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 40.1 bits (94), Expect = 0.004
 Identities = 22/68 (32%), Positives = 36/68 (52%), Gaps = 6/68 (8%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEE------EEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           LE+E +E +E+  + +E+ +  E+E E      EE EEE EE E    + E    + ++E
Sbjct: 831 LEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKE 890

Query: 398 EKELENEG 405
             ELE + 
Sbjct: 891 RDELEAQL 898

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain

 Score = 38.7 bits (91), Expect = 0.004
 Identities = 21/57 (36%), Positives = 36/57 (63%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           G+ +  + E+ + E E+E ++ EEE+EE E+   E E + E  E+ EEEE + EE++
Sbjct: 111 GMRKALQAEQGKSELEQEIKKLEEEKEELEKRVAELEAKLEAIEKREEEERQIEEKR 167

Axonemal dynein light chain proteins play a dynamic role in flagellar and cilia motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains. Length = 189

>gnl|CDD|237628 PRK14156, PRK14156, heat shock protein GrpE; Provisional

 Score = 38.7 bits (90), Expect = 0.004
 Identities = 21/47 (44%), Positives = 25/47 (53%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           + EE + EE EEE E  E EE  EE  EE  E+ E E   E  +E E
Sbjct: 1   MSEEIKNEEVEEEVEATETEETVEEVVEETPEKSELELANERADEFE 47

Length = 177

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22

 Score = 37.6 bits (88), Expect = 0.004
 Identities = 9/46 (19%), Positives = 26/46 (56%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
            E E+E  +E+    +   +EE ++++E++ + + +  ++ + E E
Sbjct: 5   TEVEDETFQEKPAAPKNLAQEESDDDDEDDTDTDSDISDDSDFENE 50

The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins. The N terminal region of Tom22 has been shown to have chaperone-like activity, and the C terminal region faces the intermembrane face. Length = 136

>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]

 Score = 39.9 bits (93), Expect = 0.004
 Identities = 14/55 (25%), Positives = 37/55 (67%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           E+E  ++ E+E  + +E++++ EE E++ + E++++EE+  +   E++++ E  K
Sbjct: 99  EQERLKQLEKERLKAQEQQKQAEEAEKQAQLEQKQQEEQARKAAAEQKKKAEAAK 153

Length = 387

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 40.0 bits (94), Expect = 0.004
 Identities = 28/80 (35%), Positives = 45/80 (56%), Gaps = 4/80 (5%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
             +  L++ E+E E EE+E ++ EEE ++  EE  E E+  EE  +E EE E++  EEE 
Sbjct: 602 NEYLELKDAEKELEREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEY 661

Query: 399 KELENEGHCDFVKLREMLIR 418
           +EL  E    +++L   L  
Sbjct: 662 EELREE----YLELSRELAG 677

Length = 880

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 40.0 bits (94), Expect = 0.004
 Identities = 14/58 (24%), Positives = 19/58 (32%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            E ++E  + EE  E  E    E E   +       E   E E     E E    +  E
Sbjct: 951  EPQDETADIEEAAETAEVVVAEPEVVAQPAAPVVAEVAAEVETVTAVEPEVAPAQVPE 1008

Length = 1068

>gnl|CDD|236766 PRK10811, rne, ribonuclease E; Reviewed

 Score = 40.0 bits (94), Expect = 0.004
 Identities = 14/60 (23%), Positives = 19/60 (31%)

Query: 345  EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              E   E ++E  + EE  E  E    E E   +       E   E E     E E+   
Sbjct: 945  HAEPVVEPQDETADIEEAAETAEVVVAEPEVVAQPAAPVVAEVAAEVETVTAVEPEVAPA 1004

Length = 1068

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 11/44 (25%), Positives = 21/44 (47%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           + L E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 6   HDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated

 Score = 39.6 bits (93), Expect = 0.004
 Identities = 10/48 (20%), Positives = 21/48 (43%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             +  +  E+ + +E   E  +E+   EEE  + +  EEE   +   +
Sbjct: 2   TLKVHDLNEDADFDENGVEVFDEKALVEEEPSDNDLAEEELLSQGATQ 49

Length = 325

>gnl|CDD|234366 TIGR03825, FliH_bacil, flagellar assembly protein FliH

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 20/66 (30%), Positives = 34/66 (51%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +    + E E+E  +EE+E E+  E+ E E  +  E+ E +     E+ E+E  + EEE 
Sbjct: 23  RQVTDVPETEQELADEEQEFEQILEKAEAEAAQIIEQAEAQAAAIREQIEQERAQWEEER 82

Query: 399 KELENE 404
           + L  E
Sbjct: 83  ERLIQE 88

This bacillus clade of FliH proteins is not found by the Pfam FliH model pfam02108, but is closely related to the sequences identified by that model. Sequences identified by this model are observed in flagellar operons in an analogous position relative to other flagellar operon genes. Length = 255

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 37.0 bits (86), Expect = 0.004
 Identities = 13/31 (41%), Positives = 16/31 (51%)

Query: 370 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
                  E   E +E EEEE+EEE EEE  +
Sbjct: 71  AAAAAGAEAAAEADEAEEEEKEEEAEEESDD 101

Length = 109

>gnl|CDD|148682 pfam07222, PBP_sp32, Proacrosin binding protein sp32

 Score = 39.3 bits (91), Expect = 0.004
 Identities = 17/57 (29%), Positives = 35/57 (61%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           L    + +  + ++E+   + +E  +E + EE++ +EE+EEEE EEE ++EE +  +
Sbjct: 186 LGGSVQVKAPKPKQEQLLSKLQEYLQEHKTEEKQPQEEQEEEEVEEEAKQEEGQGTD 242

This family consists of several mammalian specific proacrosin binding protein sp32 sequences. sp32 is a sperm specific protein which is known to bind with with 55- and 53-kDa proacrosins and the 49-kDa acrosin intermediate. The exact function of sp32 is unclear, it is thought however that the binding of sp32 to proacrosin may be involved in packaging the acrosin zymogen into the acrosomal matrix. Length = 243

>gnl|CDD|148682 pfam07222, PBP_sp32, Proacrosin binding protein sp32

 Score = 39.3 bits (91), Expect = 0.004
 Identities = 16/56 (28%), Positives = 35/56 (62%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
              + +  + ++E+   + +E  +E + EE++ +EE+EEEE EEE ++EE +  ++
Sbjct: 188 GSVQVKAPKPKQEQLLSKLQEYLQEHKTEEKQPQEEQEEEEVEEEAKQEEGQGTDD 243

This family consists of several mammalian specific proacrosin binding protein sp32 sequences. sp32 is a sperm specific protein which is known to bind with with 55- and 53-kDa proacrosins and the 49-kDa acrosin intermediate. The exact function of sp32 is unclear, it is thought however that the binding of sp32 to proacrosin may be involved in packaging the acrosin zymogen into the acrosomal matrix. Length = 243

>gnl|CDD|148682 pfam07222, PBP_sp32, Proacrosin binding protein sp32

 Score = 38.9 bits (90), Expect = 0.004
 Identities = 17/53 (32%), Positives = 33/53 (62%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
              + +  + ++E+   + +E  +E + EE++ +EE+EEEE EEE K+ E +G
Sbjct: 188 GSVQVKAPKPKQEQLLSKLQEYLQEHKTEEKQPQEEQEEEEVEEEAKQEEGQG 240

This family consists of several mammalian specific proacrosin binding protein sp32 sequences. sp32 is a sperm specific protein which is known to bind with with 55- and 53-kDa proacrosins and the 49-kDa acrosin intermediate. The exact function of sp32 is unclear, it is thought however that the binding of sp32 to proacrosin may be involved in packaging the acrosin zymogen into the acrosomal matrix. Length = 243

>gnl|CDD|218561 pfam05340, DUF740, Protein of unknown function (DUF740)

 Score = 40.0 bits (93), Expect = 0.004
 Identities = 22/46 (47%), Positives = 31/46 (67%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            EEEEE E EE+EE  E+E  +  +E+ EEEEEEE +  ++  +LE
Sbjct: 140 LEEEEEVEMEEDEEYYEKEPGKVVDEKSEEEEEEELKTMKDFIDLE 185

This family consists of several uncharacterized plant proteins of unknown function. Length = 565

>gnl|CDD|218576 pfam05395, DARPP-32, Protein phosphatase inhibitor 1/DARPP-32

 Score = 38.3 bits (89), Expect = 0.004
 Identities = 16/58 (27%), Positives = 25/58 (43%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
              EE +  EEE+E +  +E      E E  E ++ EE      ++ + E  LE   H
Sbjct: 95  GSLEENQASEEEDELDSPDELGYPTGETESTEAQDSEEPGSCPTQDAQSEVGLEGPWH 152

This family consists of several mammalian protein phosphatase inhibitor 1 (IPP-1) and dopamine- and cAMP-regulated neuronal phosphoprotein (DARPP-32) proteins. Protein phosphatase inhibitor-1 is involved in signal transduction and is an endogenous inhibitor of protein phosphatase-1. It has been demonstrated that DARPP-32, if phosphorylated, can inhibit protein-phosphatase-1. DARPP-32 has a key role in many neurotransmitter pathways throughout the brain and has been shown to be involved in controlling receptors, ion channels and other physiological factors including the brain's response to drugs of abuse, such as cocaine, opiates and nicotine. DARPP-32 is reciprocally regulated by the two neurotransmitters that are most often implicated in schizophrenia - dopamine and glutamate. Dopamine activates DARPP-32 through the D1 receptor pathway and disables DARPP-32 through the D2 receptor. Glutamate, acting through the N-methyl-d-aspartate receptor, renders DARPP-32 inactive. A mutant form of DARPP-32 has been linked with gastric cancers. Length = 170

>gnl|CDD|221668 pfam12619, MCM2_N, Mini-chromosome maintenance protein 2

 Score = 37.7 bits (88), Expect = 0.004
 Identities = 20/63 (31%), Positives = 37/63 (58%), Gaps = 5/63 (7%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEE-----EEEEEEEEEEEEEEEEEEEEEEEEEK 399
           E+E +EEEE E++ ++ +EE EEEE+ E+      E +     E +  +E+  ++E + +
Sbjct: 1   EDEPDEEEELEDDIDDLDEEAEEEEDGEDLFGDNMERDYRANPELDRYDEDGLDDESDYE 60

Query: 400 ELE 402
           EL 
Sbjct: 61  ELS 63

This domain family is found in eukaryotes, and is typically between 138 and 153 amino acids in length. The family is found in association with pfam00493. Mini-chromosome maintenance (MCM) proteins are essential for DNA replication. These proteins use ATPase activity to perform this function. Length = 145

>gnl|CDD|218954 pfam06246, Isy1, Isy1-like splicing family

 Score = 39.2 bits (92), Expect = 0.004
 Identities = 22/69 (31%), Positives = 37/69 (53%)

Query: 330 KNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
             LY   D  Y+   +EE+    E E E E+E  E+  EE +E ++E+ + EE+E EE+ 
Sbjct: 156 AELYKRIDADYYGYRDEEDGVLLEYEAEREKELIEKLVEEWKEIQDEDLQAEEDEREEDI 215

Query: 390 EEEEEEEEE 398
               +++ E
Sbjct: 216 YIPLDDDAE 224

Isy1 protein is important in the optimisation of splicing. Length = 253

>gnl|CDD|240331 PTZ00254, PTZ00254, 40S ribosomal protein SA; Provisional

 Score = 38.9 bits (91), Expect = 0.004
 Identities = 16/44 (36%), Positives = 19/44 (43%)

Query: 360 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           + EE EE+EE   E    E+      E EE EE       E EN
Sbjct: 206 DPEEAEEKEEAAAETAGVEDAAAAAAEAEEGEEWVAAANNEWEN 249

Length = 249

>gnl|CDD|165026 PHA02644, PHA02644, hypothetical protein; Provisional

 Score = 37.3 bits (85), Expect = 0.004
 Identities = 29/86 (33%), Positives = 50/86 (58%), Gaps = 3/86 (3%)

Query: 323 GSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 382
           GS+P +D  + S    KY       E+E +   E  ++E E+E++ E+ E E+E++ E+ 
Sbjct: 27  GSSPYMDVRIVS---NKYDKIFISNEDEMKTTHEHIKKENEDEKKPEKPENEDEKKPEKP 83

Query: 383 EEEEEEEEEEEEEEEEKELENEGHCD 408
           E E+E++ E+ E E+EKE E+    D
Sbjct: 84  ENEDEKKPEKPENEDEKEFEDSDASD 109

Length = 112

>gnl|CDD|237799 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional

 Score = 40.2 bits (94), Expect = 0.004
 Identities = 18/41 (43%), Positives = 28/41 (68%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E++EE++EE+ EE + EE +EE EEEE+    E  E+  +E
Sbjct: 281 EKKEEKDEEKSEEVKTEEVDEEFEEEEKGFYYELYEKVNIE 321

Length = 1627

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	650
KOG1547|consensus	336		100.0
KOG3859|consensus	406		100.0
KOG2655|consensus	366		100.0
COG5019	373	CDC3 Septin family protein [Cell division and chro	100.0
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	100.0
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	100.0
KOG1547|consensus	336		100.0
KOG2655|consensus	366		100.0
COG5019	373	CDC3 Septin family protein [Cell division and chro	100.0
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.97
KOG3859|consensus	406		99.93
COG0218	200	Predicted GTPase [General function prediction only	99.84
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.83
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.15
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.15
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.98
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.94
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.92
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.87
KOG2486|consensus	320		98.78
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.78
COG1159	298	Era GTPase [General function prediction only]	98.77
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.75
PRK00089	292	era GTPase Era; Reviewed	98.71
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.7
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.69
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.63
cd00881	189	GTP_translation_factor GTP translation factor fami	98.63
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.6
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.57
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.57
KOG1189|consensus	960		98.56
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.55
PRK12298	390	obgE GTPase CgtA; Reviewed	98.52
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.46
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.43
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.43
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.42
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	98.42
PRK00093	435	GTP-binding protein Der; Reviewed	98.42
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.41
COG0486	454	ThdF Predicted GTPase [General function prediction	98.4
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.35
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.34
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.33
COG1160	444	Predicted GTPases [General function prediction onl	98.32
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	98.31
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	98.31
PRK03003	472	GTP-binding protein Der; Reviewed	98.29
PRK04213	201	GTP-binding protein; Provisional	98.28
PRK15494	339	era GTPase Era; Provisional	98.28
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	98.27
PRK12297	424	obgE GTPase CgtA; Reviewed	98.27
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.27
PRK00093	435	GTP-binding protein Der; Reviewed	98.24
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	98.23
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.23
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.22
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	98.21
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.2
PRK03003	472	GTP-binding protein Der; Reviewed	98.2
COG1160	444	Predicted GTPases [General function prediction onl	98.2
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.18
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	98.16
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.15
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	98.14
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	98.14
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	98.14
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	98.13
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.12
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.12
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.12
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.11
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.09
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	98.08
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.06
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	98.06
PRK12299	335	obgE GTPase CgtA; Reviewed	98.06
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.02
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.02
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	98.01
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	97.99
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	97.99
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	97.98
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.98
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	97.98
PRK12296	500	obgE GTPase CgtA; Reviewed	97.95
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	97.95
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	97.93
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	97.93
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	97.92
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	97.92
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.92
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	97.92
CHL00071	409	tufA elongation factor Tu	97.91
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	97.9
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	97.9
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.89
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	97.88
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	97.86
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	97.86
PLN03118	211	Rab family protein; Provisional	97.85
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	97.85
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	97.84
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	97.84
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	97.84
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	97.83
PRK11058	426	GTPase HflX; Provisional	97.83
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	97.81
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	97.81
PRK15467	158	ethanolamine utilization protein EutP; Provisional	97.8
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	97.79
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	97.78
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.76
PTZ00369	189	Ras-like protein; Provisional	97.76
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	97.76
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	97.75
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	97.75
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	97.75
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	97.75
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	97.74
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	97.74
COG1084	346	Predicted GTPase [General function prediction only	97.74
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	97.74
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	97.73
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	97.73
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	97.73
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	97.72
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	97.71
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	97.71
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	97.71
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.69
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	97.69
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	97.68
smart00178	184	SAR Sar1p-like members of the Ras-family of small	97.68
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	97.67
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	97.65
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	97.65
PLN03110	216	Rab GTPase; Provisional	97.64
PRK09866	741	hypothetical protein; Provisional	97.64
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	97.63
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	97.63
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	97.62
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	97.6
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	97.6
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	97.59
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	97.59
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	97.59
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	97.58
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	97.57
PLN03108	210	Rab family protein; Provisional	97.56
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	97.55
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	97.54
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	97.54
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	97.54
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	97.53
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	97.53
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	97.53
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.52
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.51
PRK12736	394	elongation factor Tu; Reviewed	97.49
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	97.47
COG5406	1001	Nucleosome binding factor SPN, SPT16 subunit [Tran	97.47
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	97.47
cd04105	203	SR_beta Signal recognition particle receptor, beta	97.47
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	97.46
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	97.45
PRK12317	425	elongation factor 1-alpha; Reviewed	97.45
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	97.44
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	97.44
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	97.44
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	97.44
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	97.43
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.4
KOG1191|consensus	531		97.4
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	97.39
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	97.38
PRK13768	253	GTPase; Provisional	97.37
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	97.32
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.32
PRK12735	396	elongation factor Tu; Reviewed	97.32
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	97.31
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.3
PTZ00133	182	ADP-ribosylation factor; Provisional	97.28
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	97.28
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	97.26
PLN00223	181	ADP-ribosylation factor; Provisional	97.25
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	97.23
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	97.23
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	97.22
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	97.21
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	97.21
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	97.21
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	97.19
PRK00049	396	elongation factor Tu; Reviewed	97.19
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	97.17
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	97.17
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.15
PLN03126	478	Elongation factor Tu; Provisional	97.15
CHL00189	742	infB translation initiation factor 2; Provisional	97.13
COG3596	296	Predicted GTPase [General function prediction only	97.13
PRK05306	787	infB translation initiation factor IF-2; Validated	97.13
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	97.12
PRK04004	586	translation initiation factor IF-2; Validated	97.12
cd01896	233	DRG The developmentally regulated GTP-binding prot	97.11
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	97.09
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	97.08
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	97.08
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	97.05
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	97.05
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	97.03
PLN03127	447	Elongation factor Tu; Provisional	97.02
PRK12288	347	GTPase RsgA; Reviewed	97.01
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	97.01
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	97.01
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	97.0
PRK04000	411	translation initiation factor IF-2 subunit gamma;	96.97
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	96.97
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	96.94
COG2262	411	HflX GTPases [General function prediction only]	96.92
PLN00023	334	GTP-binding protein; Provisional	96.92
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	96.9
KOG1423|consensus	379		96.89
COG1162	301	Predicted GTPases [General function prediction onl	96.84
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	96.83
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	96.83
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	96.81
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	96.81
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	96.81
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	96.8
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	96.79
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	96.74
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	96.73
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	96.73
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	96.73
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	96.73
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	96.67
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	96.65
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	96.65
PRK00007	693	elongation factor G; Reviewed	96.62
KOG1424|consensus	562		96.59
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	96.59
PRK12289	352	GTPase RsgA; Reviewed	96.57
PRK12739	691	elongation factor G; Reviewed	96.56
KOG1490|consensus	620		96.49
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.47
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	96.42
KOG0094|consensus	221		96.39
PRK13351	687	elongation factor G; Reviewed	96.36
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	96.32
PRK10218	607	GTP-binding protein; Provisional	96.31
PRK05433	600	GTP-binding protein LepA; Provisional	96.28
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	96.17
COG1161	322	Predicted GTPases [General function prediction onl	96.12
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	96.11
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	96.11
PRK13796	365	GTPase YqeH; Provisional	96.07
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	95.98
COG1100	219	GTPase SAR1 and related small G proteins [General	95.93
PRK12740	668	elongation factor G; Reviewed	95.87
TIGR00503	527	prfC peptide chain release factor 3. This translat	95.86
PRK00741	526	prfC peptide chain release factor 3; Provisional	95.83
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	95.79
PRK00098	298	GTPase RsgA; Reviewed	95.79
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	95.73
PRK09563	287	rbgA GTPase YlqF; Reviewed	95.63
PTZ00416	836	elongation factor 2; Provisional	95.62
PRK09601	364	GTP-binding protein YchF; Reviewed	95.58
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	95.54
KOG0078|consensus	207		95.48
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	95.44
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	95.2
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	95.17
KOG0084|consensus	205		95.14
COG0536	369	Obg Predicted GTPase [General function prediction	95.14
KOG0073|consensus	185		95.03
COG3276	447	SelB Selenocysteine-specific translation elongatio	95.02
PF09439	181	SRPRB: Signal recognition particle receptor beta s	94.99
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	94.85
KOG0057|consensus	591		94.63
PF00005	137	ABC_tran: ABC transporter This structure is on hol	94.63
cd00881	189	GTP_translation_factor GTP translation factor fami	94.57
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	94.55
PTZ00141	446	elongation factor 1- alpha; Provisional	94.5
KOG2423|consensus	572		94.4
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	94.32
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	94.29
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	94.12
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.07
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	94.06
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	93.99
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	93.98
KOG3886|consensus	295		93.93
COG2229	187	Predicted GTPase [General function prediction only	93.89
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	93.74
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	93.74
COG2884	223	FtsE Predicted ATPase involved in cell division [C	93.72
PLN00116	843	translation elongation factor EF-2 subunit; Provis	93.68
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	93.61
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	93.51
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	93.49
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	93.41
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	93.15
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	93.1
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	93.06
PF13555	62	AAA_29: P-loop containing region of AAA domain	93.05
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	93.04
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	93.04
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	93.01
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	93.01
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	92.93
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	92.88
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	92.88
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	92.86
PTZ00258	390	GTP-binding protein; Provisional	92.86
KOG0054|consensus	1381		92.82
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	92.81
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	92.81
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	92.8
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	92.76
cd03269	210	ABC_putative_ATPase This subfamily is involved in	92.72
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	92.72
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	92.69
PRK00089	292	era GTPase Era; Reviewed	92.62
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	92.61
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	92.59
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	92.53
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	92.52
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	92.52
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	92.5
PRK07560	731	elongation factor EF-2; Reviewed	92.45
COG0410	237	LivF ABC-type branched-chain amino acid transport	92.45
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	92.45
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	92.44
KOG0092|consensus	200		92.42
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	92.42
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	92.38
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	92.34
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	92.33
PF04931	784	DNA_pol_phi: DNA polymerase phi; InterPro: IPR0070	92.3
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	92.26
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	92.25
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	92.21
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	92.21
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	92.2
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	92.19
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	92.16
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	92.11
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	92.1
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	92.07
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	92.07
PRK13537	306	nodulation ABC transporter NodI; Provisional	92.07
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	92.06
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	92.04
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	91.99
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	91.96
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	91.96
PRK13768	253	GTPase; Provisional	91.95
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	91.94
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	91.94
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	91.91
cd03216	163	ABC_Carb_Monos_I This family represents the domain	91.91
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	91.89
PLN00043	447	elongation factor 1-alpha; Provisional	91.89
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	91.88
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	91.88
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	91.86
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	91.84
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	91.84
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	91.83
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	91.81
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	91.8
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	91.79
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	91.78
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	91.77
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	91.76
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	91.74
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	91.72
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	91.7
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	91.68
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	91.63
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	91.62
COG1163	365	DRG Predicted GTPase [General function prediction	91.62
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	91.62
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	91.59
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	91.59
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	91.56
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	91.55
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	91.52
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	91.51
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	91.5
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	91.49
PRK01889	356	GTPase RsgA; Reviewed	91.49
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	91.48
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	91.47
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	91.46
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	91.45
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	91.44
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	91.44
COG0218	200	Predicted GTPase [General function prediction only	91.42
PRK14845	1049	translation initiation factor IF-2; Provisional	91.41
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	91.4
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	91.39
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	91.38
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	91.36
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	91.35
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	91.35
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	91.32
cd03234	226	ABCG_White The White subfamily represents ABC tran	91.31
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	91.29
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	91.29
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	91.28
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	91.27
KOG0080|consensus	209		91.27
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	91.27
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	91.25
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	91.25
KOG1489|consensus	366		91.24
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	91.24
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	91.23
PRK03695	248	vitamin B12-transporter ATPase; Provisional	91.23
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	91.21
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	91.19
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	91.18
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	91.18
KOG0394|consensus	210		91.15
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	91.15
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	91.12
COG3845	501	ABC-type uncharacterized transport systems, ATPase	91.12
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	91.06
cd03215	182	ABC_Carb_Monos_II This family represents domain II	91.05
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	91.04
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	91.02
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	91.02
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	91.02
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	91.02
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	91.01
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	90.98
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	90.98
KOG1145|consensus	683		90.98
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	90.96
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	90.95
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	90.94
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	90.93
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	90.93
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	90.9
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	90.9
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	90.89
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	90.88
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	90.87
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	90.87
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	90.83
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	90.81
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	90.76
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	90.75
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	90.73
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	90.72
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	90.72
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	90.69
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	90.68
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	90.68
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	90.66
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	90.65
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	90.63
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	90.63
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	90.63
TIGR00235	207	udk uridine kinase. Model contains a number of lon	90.62
PRK10908	222	cell division protein FtsE; Provisional	90.61
PRK09984	262	phosphonate/organophosphate ester transporter subu	90.6
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	90.58
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	90.58
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	90.56
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	90.54
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	90.53
KOG0410|consensus	410		90.52
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	90.52
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	90.52
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	90.51
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	90.5
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	90.49
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	90.48
COG4988	559	CydD ABC-type transport system involved in cytochr	90.48
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	90.48
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	90.48
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	90.47
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	90.46
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	90.46
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	90.42
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	90.35
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	90.35
COG1132	567	MdlB ABC-type multidrug transport system, ATPase a	90.33
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	90.32
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	90.3
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	90.29
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	90.26
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	90.24
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	90.22
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	90.21
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	90.19
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	90.13

>KOG1547|consensus

Probab=100.00  E-value=2.7e-58  Score=456.89  Aligned_cols=276  Identities=37%  Similarity=0.613  Sum_probs=246.9

Q ss_pred             CCCCCCCccCccCCCCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCCC----C-CCCCcEEEEEE
Q psy8479          77 PLESGPFSRCWVNTRTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTPS----P-HSLPSVKLKAH  148 (650)
Q Consensus        77 ~~~~~~~~~~~vG~~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s----~-~~~~T~~I~~~  148 (650)
                      |.+.+.-.-+||||+++.+|+.+|.+|  .||+||   ||+||+||||||||||.+.+..+.+    . ...+|++|...
T Consensus        16 p~S~~~~~lgyvGidtI~~Qm~~k~mk--~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~   93 (336)
T KOG1547|consen   16 PMSINSNLLGYVGIDTIIEQMRKKTMK--TGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSI   93 (336)
T ss_pred             CCCccCCccccccHHHHHHHHHHHHHh--ccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEee
Confidence            333333346899999999999999999  999999   9999999999999999998876522    2 45689999999


Q ss_pred             EEEeeCCceeec---------------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCc
Q psy8479         149 TYELQENNVKLK---------------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKS  213 (650)
Q Consensus       149 ~~~l~e~g~~L~---------------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~  213 (650)
                      ++.|.|+|++|+               .+||+||++||.+||++||++|..+.|. +.+.|+|||||||||+|+||.|++
T Consensus        94 thvieE~gVklkltviDTPGfGDqInN~ncWePI~kyIneQye~yL~eElni~R~-kripDTRVHcclyFi~ptGhsLrp  172 (336)
T KOG1547|consen   94 THVIEEKGVKLKLTVIDTPGFGDQINNDNCWEPIEKYINEQYEQYLREELNIARE-KRIPDTRVHCCLYFIPPTGHSLRP  172 (336)
T ss_pred             eeeeeecceEEEEEEecCCCcccccCccchhHHHHHHHHHHHHHHHHHHHhHHhh-hcCCCceEEEEEEEeCCCCCccCc
Confidence            999999999876               6899999999999999999999999998 489999999999999999999999


Q ss_pred             chHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCCCchh--HHHHHHHhhhccCCCCCcccc
Q psy8479         214 LDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDET--MSDVNAAMTIFSSIPCDRSLI  291 (650)
Q Consensus       214 lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~d~~~--~~~~~~~~~~~~~~P~~~~~~  291 (650)
                      +||++||+|.+-|||||||+|||+||-+|..+||++|++.|..|+|++|+...+|++  ...+|.+++..  +|      
T Consensus       173 lDieflkrLt~vvNvvPVIakaDtlTleEr~~FkqrI~~el~~~~i~vYPq~~fded~ed~~lN~kvR~~--iP------  244 (336)
T KOG1547|consen  173 LDIEFLKRLTEVVNVVPVIAKADTLTLEERSAFKQRIRKELEKHGIDVYPQDSFDEDLEDKTLNDKVRES--IP------  244 (336)
T ss_pred             ccHHHHHHHhhhheeeeeEeecccccHHHHHHHHHHHHHHHHhcCcccccccccccchhHHHHHHHHHhh--CC------
Confidence            999999999999999999999999999999999999999999999999988755443  34477888765  99      


Q ss_pred             ccccCcccccCCCCCCCCcccccccccccccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         292 HTIFPPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEE  371 (650)
Q Consensus       292 ~t~~~~c~~st~~~s~~~~~~~nil~~~~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedee  371 (650)
                         ||| |||                .+...++|++|.++...|       +.                           
T Consensus       245 ---FAV-VGs----------------d~e~~vnG~~vlGRktrW-------g~---------------------------  270 (336)
T KOG1547|consen  245 ---FAV-VGS----------------DKEIQVNGRRVLGRKTRW-------GI---------------------------  270 (336)
T ss_pred             ---eEE-ecc----------------cceEEEcCeEeecccccc-------ce---------------------------
Confidence               999 999                677889999999999999       54                           


Q ss_pred             hhhhhhhhhhhhhhhhhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhh
Q psy8479         372 EEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE  444 (650)
Q Consensus       372 eeeEeeEeeeeeeeeeeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~  444 (650)
                                                 -+.+...+++|..|+.+++++|+|++++.++..|||.||.+++.+.
T Consensus       271 ---------------------------IeVen~nhCeF~~LRdfliRtHlQdlke~Ts~iHyE~yR~krLn~~  316 (336)
T KOG1547|consen  271 ---------------------------IEVENLNHCEFVLLRDFLIRTHLQDLKETTSNIHYETYRAKRLNEL  316 (336)
T ss_pred             ---------------------------EEecccccchhHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHhhh
Confidence                                       3345667999999999999999999999999999999999999874

>KOG3859|consensus

Probab=100.00  E-value=1.8e-58  Score=465.59  Aligned_cols=271  Identities=65%  Similarity=0.990  Sum_probs=257.5

Q ss_pred             cCccCCCCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-
Q psy8479          85 RCWVNTRTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-  160 (650)
Q Consensus        85 ~~~vG~~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-  160 (650)
                      .+.|||++||+|+..|++.  .||.||   ||++|+||||||+||||+++...+++|..+++.+...+|+|++.+++|+ 
T Consensus        20 ~GHvGFdsLPdQLV~ksv~--~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKL   97 (406)
T KOG3859|consen   20 AGHVGFDSLPDQLVNKSVS--QGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKL   97 (406)
T ss_pred             cCccCcccChHHHHHHHHh--cCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEE
Confidence            6899999999999999999  999999   9999999999999999999999999999999999999999999998775 


Q ss_pred             --------------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCC
Q psy8479         161 --------------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKV  226 (650)
Q Consensus       161 --------------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~v  226 (650)
                                    ..++++|++||+.||+.||++|.+|+|++..+.|+|||+|||||.|+||+|+.+|+.+||.|..+|
T Consensus        98 tiv~tvGfGDQinK~~Syk~iVdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH~LKslDLvtmk~LdskV  177 (406)
T KOG3859|consen   98 TIVDTVGFGDQINKEDSYKPIVDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGHSLKSLDLVTMKKLDSKV  177 (406)
T ss_pred             EEEeecccccccCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCcchhHHHHHHHHHHhhhh
Confidence                          679999999999999999999999999987899999999999999999999999999999999999


Q ss_pred             CeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCCCchhHHHHHHHhhhccCCCCCccccccccCcccccCCCCC
Q psy8479         227 NIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSS  306 (650)
Q Consensus       227 nvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~d~~~~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~st~~~s  306 (650)
                      ||||||+|||+.+.+||..||.+|+..|..+||+||+||.|+++..+.|..++.+  +|         ||| |||     
T Consensus       178 NIIPvIAKaDtisK~eL~~FK~kimsEL~sngv~IYqfPtDdetva~~N~~mn~~--lP---------FAV-vGS-----  240 (406)
T KOG3859|consen  178 NIIPVIAKADTISKEELKRFKIKIMSELVSNGVQIYQFPTDDETVAKANSEMNHS--LP---------FAV-VGS-----  240 (406)
T ss_pred             hhHHHHHHhhhhhHHHHHHHHHHHHHHHHhcCceeeeccchHHHHHHHHHHhhcC--Cc---------eeE-ecc-----
Confidence            9999999999999999999999999999999999999999999999999999987  99         999 999     


Q ss_pred             CCCcccccccccccccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         307 PPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  386 (650)
Q Consensus       307 ~~~~~~~nil~~~~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeeeeeeee  386 (650)
                                 ...+++++|-|+++.|+|       +.                                          
T Consensus       241 -----------te~vKvgnkmvraRqyPw-------G~------------------------------------------  260 (406)
T KOG3859|consen  241 -----------TEEVKVGNKMVKARQYPW-------GT------------------------------------------  260 (406)
T ss_pred             -----------hHhhhhhhhhhhhccCCC-------Cc------------------------------------------
Confidence                       667888899999999999       54                                          


Q ss_pred             hhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhhhc
Q psy8479         387 EEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESN  446 (650)
Q Consensus       387 eeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~~d  446 (650)
                                  -+.+.+.|++|++|++++++++|+++++.+|.+||++||+.+++++..
T Consensus       261 ------------v~vENE~HCDFVKLREmLirtNmedlReqTHtrhYElyRr~kL~~Mgf  308 (406)
T KOG3859|consen  261 ------------VQVENELHCDFVKLREMLIRTNMEDLREQTHTRHYELYRRCKLEEMGF  308 (406)
T ss_pred             ------------eeecchhhhHHHHHHHHHccccHHHHhhhccccchHHHHHHHHHHcCC
Confidence                        345566799999999999999999999999999999999999998754

>KOG2655|consensus

Probab=100.00  E-value=1.4e-55  Score=466.49  Aligned_cols=268  Identities=41%  Similarity=0.719  Sum_probs=239.9

Q ss_pred             ccCCCCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCC-----CCCCCCCcEEEEEEEEEeeCCcee
Q psy8479          87 WVNTRTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFEST-----PSPHSLPSVKLKAHTYELQENNVK  158 (650)
Q Consensus        87 ~vG~~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~-----~s~~~~~T~~I~~~~~~l~e~g~~  158 (650)
                      +||++++|+|++|+.+|  +||.||   ||+||+|||||||+||++.+...     ++.++.+|+.|..+...|.++|+.
T Consensus         1 ~vg~~~lP~q~~r~~~K--kG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~   78 (366)
T KOG2655|consen    1 YVGFANLPNQVHRKSVK--KGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVK   78 (366)
T ss_pred             CCccccChHHHHHHHHh--cCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeE
Confidence            58999999999999999  999999   99999999999999999977654     556777899999999999999987


Q ss_pred             ec---------------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc
Q psy8479         159 LK---------------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD  223 (650)
Q Consensus       159 L~---------------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~  223 (650)
                      |+               ..||.+|++||++||++||.+|+++.|.  .+.|+|||||||||+|+||+|+++|+++||.|+
T Consensus        79 l~LtvidtPGfGD~vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~--~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l~  156 (366)
T KOG2655|consen   79 LNLTVIDTPGFGDAVDNSNCWRPIVNYIDSQFDQYLDEESRLNRS--KIKDNRVHCCLYFISPTGHGLKPLDIEFMKKLS  156 (366)
T ss_pred             EeeEEeccCCCcccccccccchhhhHHHHHHHHHHHhhhccCCcc--cccCCceEEEEEEeCCCCCCCcHhhHHHHHHHh
Confidence            75               6799999999999999999999999995  799999999999999999999999999999999


Q ss_pred             cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCCCch--hHHHHHHHhhhccCCCCCccccccccCccccc
Q psy8479         224 SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDE--TMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRS  301 (650)
Q Consensus       224 ~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~d~~--~~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~s  301 (650)
                      .+||+||||+|||+||..|+..+|++|++.|..++|++|.||.++.  +..+.+..+...  +|         ||| |||
T Consensus       157 ~~vNiIPVI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf~fp~~~~d~~~~~~~~~l~~~--~P---------FAI-igs  224 (366)
T KOG2655|consen  157 KKVNLIPVIAKADTLTKDELNQFKKRIRQDIEEHNIKVFDFPTDESDEELKEEEQDLKSS--IP---------FAI-IGS  224 (366)
T ss_pred             ccccccceeeccccCCHHHHHHHHHHHHHHHHHcCcceecCCCCcchhhhHHHHHHHhhc--CC---------eEE-Eec
Confidence            9999999999999999999999999999999999999999997643  444445555544  99         999 888


Q ss_pred             CCCCCCCCcccccccccccccCCCCc-cccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         302 TSPSSPPHFHSLNILAMQKVPGSNPT-IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  380 (650)
Q Consensus       302 t~~~s~~~~~~~nil~~~~~~~~~~t-i~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEee  380 (650)
                                      ...+...|+. |+++.|+|       |.                                    
T Consensus       225 ----------------~~~~e~~G~~~vrgR~YpW-------G~------------------------------------  245 (366)
T KOG2655|consen  225 ----------------NTEIEEKGKKRVRGRKYPW-------GT------------------------------------  245 (366)
T ss_pred             ----------------CceeecCCceEeeceecCC-------ce------------------------------------
Confidence                            3335667777 99999999       55                                    


Q ss_pred             hhhhhhhhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhhhcc
Q psy8479         381 EEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV  447 (650)
Q Consensus       381 eeeeeeeeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~~d~  447 (650)
                                        -+.+...++||..|+.+++++|+++++..+...|||.||.+++......
T Consensus       246 ------------------veien~~h~DF~~Lr~~Li~thl~dLk~~T~~~~YEnYR~~~L~~~~~~  294 (366)
T KOG2655|consen  246 ------------------VEIENPEHCDFKKLRNLLIRTHLEDLKDTTNNLLYENYRTEKLEGLLYK  294 (366)
T ss_pred             ------------------eeccCCCcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhcccc
Confidence                              3344556999999999999999999999999999999999999886654

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=100.00  E-value=5.6e-54  Score=450.96  Aligned_cols=270  Identities=37%  Similarity=0.677  Sum_probs=236.1

Q ss_pred             CccCCCCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCCC------CCCCCcEEEEEEEEEeeCCc
Q psy8479          86 CWVNTRTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTPS------PHSLPSVKLKAHTYELQENN  156 (650)
Q Consensus        86 ~~vG~~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s------~~~~~T~~I~~~~~~l~e~g  156 (650)
                      ++||++++|.|++++..+  +|+.||   ||.||+||||||||||++.+.....      ....+|+.|..+...|.++|
T Consensus         2 ~~vgi~~l~~~r~~~~~k--~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~   79 (373)
T COG5019           2 GYVGISNLPNQRHRKLSK--KGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDG   79 (373)
T ss_pred             CcCCcCcchHHHHHHHHh--cCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCC
Confidence            589999999999999999  999999   9999999999999999996554421      12347889999999999999


Q ss_pred             eeec---------------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHH
Q psy8479         157 VKLK---------------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKK  221 (650)
Q Consensus       157 ~~L~---------------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~  221 (650)
                      +.+.               ..||.+|++||++||+.||.+|+++.|.. .+.|+|||||||||.|+||+|+++||++||+
T Consensus        80 ~~~~l~vIDtpGfGD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~-~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~  158 (373)
T COG5019          80 FHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNP-KFKDTRVHACLYFIRPTGHGLKPLDIEAMKR  158 (373)
T ss_pred             eEEEEEEeccCCccccccccccHHHHHHHHHHHHHHHHHHhhcccccc-ccccCceEEEEEEecCCCCCCCHHHHHHHHH
Confidence            8765               67999999999999999999999999995 7999999999999999999999999999999


Q ss_pred             hccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEe-CCCCch--hHHHHHHHhhhccCCCCCccccccccCcc
Q psy8479         222 LDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYE-FPTDDE--TMSDVNAAMTIFSSIPCDRSLIHTIFPPC  298 (650)
Q Consensus       222 L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~-f~~d~~--~~~~~~~~~~~~~~~P~~~~~~~t~~~~c  298 (650)
                      |+++||+||||+|||+||.+|+..+|++|+++|..++|++|. +..++.  +..+.++.+..  ++|         ||| 
T Consensus       159 ls~~vNlIPVI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf~pyd~e~~~~e~~e~~~~l~~--~~P---------FAI-  226 (373)
T COG5019         159 LSKRVNLIPVIAKADTLTDDELAEFKERIREDLEQYNIPVFDPYDPEDDEDESLEENQDLRS--LIP---------FAI-  226 (373)
T ss_pred             HhcccCeeeeeeccccCCHHHHHHHHHHHHHHHHHhCCceeCCCCccccchhhHHHHHHHhh--cCC---------eEE-
Confidence            999999999999999999999999999999999999999997 222222  33445555554  499         999 


Q ss_pred             cccCCCCCCCCcccccccccccccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         299 LRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  378 (650)
Q Consensus       299 ~~st~~~s~~~~~~~nil~~~~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeE  378 (650)
                      |||                ...+..+|.+++++.|+|       |.                                  
T Consensus       227 I~S----------------~~~~~~~~~~vrgR~YpW-------G~----------------------------------  249 (373)
T COG5019         227 IGS----------------NTEIENGGEQVRGRKYPW-------GV----------------------------------  249 (373)
T ss_pred             Eec----------------cceeccCCceeeeeccCC-------cc----------------------------------
Confidence            899                445666778999999999       54                                  


Q ss_pred             hhhhhhhhhhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhhhcc
Q psy8479         379 EEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESNV  447 (650)
Q Consensus       379 eeeeeeeeeeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~~d~  447 (650)
                                          -+.+...++||..|+..++.+|++++++.+...+|+.||..++......
T Consensus       250 --------------------v~Idd~~hsDF~~Lr~~Li~thL~~L~~~T~~~~YE~YR~e~L~~~~~~  298 (373)
T COG5019         250 --------------------VEIDDEEHSDFKKLRNLLIRTHLQELKETTENLLYENYRTEKLSGLKNS  298 (373)
T ss_pred             --------------------eecCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence                                3344556999999999999999999999999999999999999887664

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=100.00  E-value=6.5e-49  Score=410.05  Aligned_cols=250  Identities=42%  Similarity=0.756  Sum_probs=191.2

Q ss_pred             CCceee---cCCCCCChhhHhhhhhCcCCCCCC------CCCCCCcEEEEEEEEEeeCCceeec---------------c
Q psy8479         106 PGKAYK---PCETGLGKSTLMDSLFNTSFESTP------SPHSLPSVKLKAHTYELQENNVKLK---------------E  161 (650)
Q Consensus       106 ~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~------s~~~~~T~~I~~~~~~l~e~g~~L~---------------~  161 (650)
                      +|+.||   ||+||+|||||||+||++.+....      ..+..++..|....+.+.++++.+.               .
T Consensus         1 kg~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~   80 (281)
T PF00735_consen    1 KGFNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNS   80 (281)
T ss_dssp             HEEEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHC
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccch
Confidence            489999   999999999999999998776542      1234567788888888988887665               5


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHH
Q psy8479         162 DSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKS  241 (650)
Q Consensus       162 ~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~  241 (650)
                      .||.+|++||++||+.||.+|.++.|.  ...|+|||||||||+|++|+|+++||++||.|+.+|||||||+|||+||++
T Consensus        81 ~~~~~I~~yI~~qf~~~l~eE~~~~R~--~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~Ls~~vNvIPvIaKaD~lt~~  158 (281)
T PF00735_consen   81 DCWEPIVDYIESQFDSYLEEESKINRP--RIEDTRVHACLYFIPPTGHGLKPLDIEFMKRLSKRVNVIPVIAKADTLTPE  158 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTSSS-T--TS----EEEEEEEE-TTSSSS-HHHHHHHHHHTTTSEEEEEESTGGGS-HH
T ss_pred             hhhHHHHHHHHHHHHHHHHHhhccccc--CcCCCCcceEEEEEcCCCccchHHHHHHHHHhcccccEEeEEecccccCHH
Confidence            799999999999999999999999994  799999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHCCCcEEeCCCCchh--HHHHHHHhhhccCCCCCccccccccCcccccCCCCCCCCcccccccccc
Q psy8479         242 ELQKFKTNIMTELTSNGVHIYEFPTDDET--MSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQ  319 (650)
Q Consensus       242 El~~~K~~I~~~L~~~~I~if~f~~d~~~--~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~st~~~s~~~~~~~nil~~~  319 (650)
                      |++.+|+.|+++|+.++|++|.|+.++.+  ....+..++..  +|         ||| |||                ..
T Consensus       159 el~~~k~~i~~~l~~~~I~~f~f~~~~~~~~e~~~~~~~~~~--~P---------Fav-i~s----------------~~  210 (281)
T PF00735_consen  159 ELQAFKQRIREDLEENNIKIFDFPEDDDDDEEIEENQKIRSM--LP---------FAV-IGS----------------NT  210 (281)
T ss_dssp             HHHHHHHHHHHHHHHTT--S----------HCHHHHHHHHHC---S---------EEE--------------------SS
T ss_pred             HHHHHHHHHHHHHHHcCceeeccccccccccccccccccccc--ee---------eEE-Eec----------------ce
Confidence            99999999999999999999999864332  23344555544  89         999 898                33


Q ss_pred             cccC-CCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhHHHHHh
Q psy8479         320 KVPG-SNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  398 (650)
Q Consensus       320 ~~~~-~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeeeeeeeeeeeeeeeeeeee  398 (650)
                      .... +|+.++++.|+|       |.                                                      
T Consensus       211 ~~~~~~g~~~~gR~YpW-------G~------------------------------------------------------  229 (281)
T PF00735_consen  211 EIENSNGKRVRGRKYPW-------GT------------------------------------------------------  229 (281)
T ss_dssp             EEEE-SSSEEEEEEETT-------EE------------------------------------------------------
T ss_pred             eeeccCCcEEeeeecCC-------cc------------------------------------------------------
Confidence            3444 799999999999       54                                                      


Q ss_pred             hhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhhhc
Q psy8479         399 KELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEESN  446 (650)
Q Consensus       399 dE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~~d  446 (650)
                      -+.+...|+||..|++.++++|++++++.++..|||.||++++.....
T Consensus       230 vev~n~~hsDF~~Lr~~Ll~~~l~dL~~~T~~~~YE~yR~~~L~~~~~  277 (281)
T PF00735_consen  230 VEVENPEHSDFLKLRNLLLGTHLQDLKDSTENVHYENYRTEKLSSRKN  277 (281)
T ss_dssp             EETT-TTTSSHHHHHHHHHCCCHHHHHHHHHHCHHHHHHHHHHHHH--
T ss_pred             ccccccccccHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHhchh
Confidence            445566799999999999999999999999999999999999877543

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.

>cd01850 CDC_Septin CDC/Septin

Probab=100.00  E-value=1.9e-39  Score=338.34  Aligned_cols=248  Identities=47%  Similarity=0.815  Sum_probs=211.6

Q ss_pred             CCceee---cCCCCCChhhHhhhhhCcCCCCCCC------CCCCCcEEEEEEEEEeeCCceeec---------------c
Q psy8479         106 PGKAYK---PCETGLGKSTLMDSLFNTSFESTPS------PHSLPSVKLKAHTYELQENNVKLK---------------E  161 (650)
Q Consensus       106 ~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s------~~~~~T~~I~~~~~~l~e~g~~L~---------------~  161 (650)
                      +|+.|+   ||+||+|||||||+||+..+.....      .+..+|+.+......+.++|+.+.               .
T Consensus         1 ~g~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~   80 (276)
T cd01850           1 KGFQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNS   80 (276)
T ss_pred             CCcEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccch
Confidence            489999   9999999999999999998765422      234667778777777777774432               5


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHH
Q psy8479         162 DSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKS  241 (650)
Q Consensus       162 ~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~  241 (650)
                      .+|++|++||++||+.||.++.++.|.. .+.|+|||||||||.|++|++++.|+++|++|+..+|+|||++|+|+++.+
T Consensus        81 ~~~~~i~~yi~~q~~~~l~~e~~~~r~~-~~~d~rvh~~ly~i~~~~~~l~~~D~~~lk~l~~~v~vi~VinK~D~l~~~  159 (276)
T cd01850          81 DCWKPIVDYIDDQFDQYLREESRIKRNP-RIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLSKRVNIIPVIAKADTLTPE  159 (276)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHhhhcccc-cCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHhccCCEEEEEECCCcCCHH
Confidence            7999999999999999999999999964 789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHCCCcEEeCCCCchh--HHHHHHHhhhccCCCCCccccccccCcccccCCCCCCCCcccccccccc
Q psy8479         242 ELQKFKTNIMTELTSNGVHIYEFPTDDET--MSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQ  319 (650)
Q Consensus       242 El~~~K~~I~~~L~~~~I~if~f~~d~~~--~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~st~~~s~~~~~~~nil~~~  319 (650)
                      |+..+|+.|++.|..++|++|.|+.++++  ....+..+.  .++|         ||| +||                ..
T Consensus       160 e~~~~k~~i~~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~--~~~P---------fav-i~s----------------~~  211 (276)
T cd01850         160 ELKEFKQRIMEDIEEHNIKIYKFPEDEEDDETIEENKKLR--SLIP---------FAV-VGS----------------NE  211 (276)
T ss_pred             HHHHHHHHHHHHHHHcCCceECCCCCcccHHHHHHHHhhc--cCCC---------cEE-Eec----------------Cc
Confidence            99999999999999999999999864432  223344444  4488         999 888                34


Q ss_pred             cccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhHHHHHhh
Q psy8479         320 KVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK  399 (650)
Q Consensus       320 ~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeeeeeeeeeeeeeeeeeeeed  399 (650)
                      .+..+|+.++++.|+|       |.                                                      -
T Consensus       212 ~~~~~g~~~~~R~y~W-------G~------------------------------------------------------~  230 (276)
T cd01850         212 EVEVNGKKVRGRKYPW-------GV------------------------------------------------------V  230 (276)
T ss_pred             eeecCCcEEEEecCCc-------cE------------------------------------------------------E
Confidence            4555699999999999       65                                                      4


Q ss_pred             hhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhh
Q psy8479         400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE  443 (650)
Q Consensus       400 E~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~  443 (650)
                      +.+...|+||..|+..++++|++++++.++..|||.||..++..
T Consensus       231 ~v~n~~h~df~~Lr~~l~~~~~~~l~~~t~~~~Ye~yr~~~l~~  274 (276)
T cd01850         231 EVENEEHCDFVKLRNLLIRTHLQDLKETTHNVHYENYRTEKLSS  274 (276)
T ss_pred             eecCcccccHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHhc
Confidence            45566799999999999999999999999999999999998864

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.

>KOG1547|consensus

Probab=100.00  E-value=9.9e-38  Score=310.41  Aligned_cols=116  Identities=25%  Similarity=0.342  Sum_probs=103.7

Q ss_pred             cCccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHH
Q psy8479         531 DATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLV  610 (650)
Q Consensus       531 ~~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~  610 (650)
                      +++++|+||+||||||||+|||++|| .||++||+.||..+......--..+.++|||||||||| |+||||+|+|+||+
T Consensus        99 E~gVklkltviDTPGfGDqInN~ncW-ePI~kyIneQye~yL~eElni~R~kripDTRVHcclyF-i~ptGhsLrplDie  176 (336)
T KOG1547|consen   99 EKGVKLKLTVIDTPGFGDQINNDNCW-EPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYF-IPPTGHSLRPLDIE  176 (336)
T ss_pred             ecceEEEEEEecCCCcccccCccchh-HHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEE-eCCCCCccCcccHH
Confidence            47899999999999999999999999 79999999999543222222223358999999999999 99999999999999


Q ss_pred             HHHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         611 CMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       611 ~mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      +||+|++.|||||||||||+||.+|...||++|++++.
T Consensus       177 flkrLt~vvNvvPVIakaDtlTleEr~~FkqrI~~el~  214 (336)
T KOG1547|consen  177 FLKRLTEVVNVVPVIAKADTLTLEERSAFKQRIRKELE  214 (336)
T ss_pred             HHHHHhhhheeeeeEeecccccHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999875

>KOG2655|consensus

Probab=100.00  E-value=1.9e-36  Score=320.97  Aligned_cols=115  Identities=29%  Similarity=0.407  Sum_probs=108.5

Q ss_pred             cCccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHH
Q psy8479         531 DATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLV  610 (650)
Q Consensus       531 ~~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~  610 (650)
                      ++++.|.|||||||||||++||+.|| .+|++||++||+ +|+..+.+.+++.++|+|||||||| |+|+||||+|+||+
T Consensus        74 e~g~~l~LtvidtPGfGD~vdns~~w-~pi~~yi~~q~~-~yl~~E~~~~R~~~~D~RVH~cLYF-I~P~ghgL~p~Di~  150 (366)
T KOG2655|consen   74 ENGVKLNLTVIDTPGFGDAVDNSNCW-RPIVNYIDSQFD-QYLDEESRLNRSKIKDNRVHCCLYF-ISPTGHGLKPLDIE  150 (366)
T ss_pred             CCCeEEeeEEeccCCCcccccccccc-hhhhHHHHHHHH-HHHhhhccCCcccccCCceEEEEEE-eCCCCCCCcHhhHH
Confidence            45899999999999999999999999 699999999994 5555666888899999999999999 99999999999999


Q ss_pred             HHHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         611 CMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       611 ~mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      +||+|+.+||+||||||||+||++|++.||++||++|.
T Consensus       151 ~Mk~l~~~vNiIPVI~KaD~lT~~El~~~K~~I~~~i~  188 (366)
T KOG2655|consen  151 FMKKLSKKVNLIPVIAKADTLTKDELNQFKKRIRQDIE  188 (366)
T ss_pred             HHHHHhccccccceeeccccCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999986

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=100.00  E-value=4.7e-36  Score=315.80  Aligned_cols=115  Identities=24%  Similarity=0.314  Sum_probs=103.9

Q ss_pred             cCccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCC-ccCCCCceeeEeeecCCCcccCCcchH
Q psy8479         531 DATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPV-RIPTTRLRCASKNSDLPLAECLKSLDL  609 (650)
Q Consensus       531 ~~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~-~~~d~rvh~~lyf~i~ptgh~l~~~Di  609 (650)
                      +++..+.|||||||||||++||+.|| .+|++||++||+.+. ..+.+..+. ++.|+|||||||| |+||||||+++||
T Consensus        77 e~~~~~~l~vIDtpGfGD~idNs~~w-e~I~~yI~~q~d~yl-~~E~~~~R~~~~~D~RVH~cLYF-I~Ptgh~l~~~DI  153 (373)
T COG5019          77 EDGFHLNLTVIDTPGFGDFIDNSKCW-EPIVDYIDDQFDQYL-DEEQKIKRNPKFKDTRVHACLYF-IRPTGHGLKPLDI  153 (373)
T ss_pred             cCCeEEEEEEeccCCccccccccccH-HHHHHHHHHHHHHHH-HHhhccccccccccCceEEEEEE-ecCCCCCCCHHHH
Confidence            34899999999999999999999999 799999999996432 233333333 8999999999999 9999999999999


Q ss_pred             HHHHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         610 VCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       610 ~~mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      ++||+|+.+|||||||||||+||.+||+.||++||++|.
T Consensus       154 e~Mk~ls~~vNlIPVI~KaD~lT~~El~~~K~~I~~~i~  192 (373)
T COG5019         154 EAMKRLSKRVNLIPVIAKADTLTDDELAEFKERIREDLE  192 (373)
T ss_pred             HHHHHHhcccCeeeeeeccccCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999985

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.97  E-value=7.9e-33  Score=289.16  Aligned_cols=117  Identities=28%  Similarity=0.361  Sum_probs=97.3

Q ss_pred             ccCccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchH
Q psy8479         530 CDATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDL  609 (650)
Q Consensus       530 ~~~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di  609 (650)
                      .+++.++.||||||||||+++|++.|| .+|.+||++||+.+ +..+.+.++..+.|+|||||||| |+||||+|+++||
T Consensus        57 ~e~~~~l~LtiiDTpGfGd~i~n~~~~-~~I~~yI~~qf~~~-l~eE~~~~R~~~~D~RVH~cLYf-I~pt~~~L~~~Di  133 (281)
T PF00735_consen   57 EENGVKLNLTIIDTPGFGDNIDNSDCW-EPIVDYIESQFDSY-LEEESKINRPRIEDTRVHACLYF-IPPTGHGLKPLDI  133 (281)
T ss_dssp             EETCEEEEEEEEEEC-CSSSSTHCHHH-HHHHHHHHHHHHHH-HHHHTSSS-TTS----EEEEEEE-E-TTSSSS-HHHH
T ss_pred             ccCCcceEEEEEeCCCccccccchhhh-HHHHHHHHHHHHHH-HHHhhcccccCcCCCCcceEEEE-EcCCCccchHHHH
Confidence            345899999999999999999999999 79999999999642 22233455578999999999999 9999999999999


Q ss_pred             HHHHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhccC
Q psy8479         610 VCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLPS  649 (650)
Q Consensus       610 ~~mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~~  649 (650)
                      ++||+|+.+|||||||||||+||++|++.||++|+++|+.
T Consensus       134 ~~mk~Ls~~vNvIPvIaKaD~lt~~el~~~k~~i~~~l~~  173 (281)
T PF00735_consen  134 EFMKRLSKRVNVIPVIAKADTLTPEELQAFKQRIREDLEE  173 (281)
T ss_dssp             HHHHHHTTTSEEEEEESTGGGS-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcccccEEeEEecccccCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999863

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.

>KOG3859|consensus

Probab=99.93  E-value=2.3e-28  Score=247.77  Aligned_cols=124  Identities=35%  Similarity=0.351  Sum_probs=106.3

Q ss_pred             ccceeeeccCccccccccccCCCCCcccccccccccccccccccccCCC-CCCCCCCCCCCccCCCCceeeEeeecCCCc
Q psy8479         523 AEMTLSECDATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGA-GMPPARDWSPVRIPTTRLRCASKNSDLPLA  601 (650)
Q Consensus       523 ~e~~~~~~~~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~-~~~~~~~~~~~~~~d~rvh~~lyf~i~ptg  601 (650)
                      +-++.. .+.+++|+||||||-||||+||.+.+. ++|++||++||..+ -++-..++....+.|+|||+|||| |.|||
T Consensus        83 ~~Tyel-qEsnvrlKLtiv~tvGfGDQinK~~Sy-k~iVdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYF-I~PTG  159 (406)
T KOG3859|consen   83 ANTYEL-QESNVRLKLTIVDTVGFGDQINKEDSY-KPIVDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYF-ISPTG  159 (406)
T ss_pred             cchhhh-hhcCeeEEEEEEeecccccccCccccc-chHHHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEE-ecCCC
Confidence            444433 356899999999999999999999999 79999999999542 222222333445889999999999 99999


Q ss_pred             ccCCcchHHHHHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhccC
Q psy8479         602 ECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLPS  649 (650)
Q Consensus       602 h~l~~~Di~~mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~~  649 (650)
                      |+|+.+|+-+||+|..+||||||||||||++..||+.||..||..|.+
T Consensus       160 H~LKslDLvtmk~LdskVNIIPvIAKaDtisK~eL~~FK~kimsEL~s  207 (406)
T KOG3859|consen  160 HSLKSLDLVTMKKLDSKVNIIPVIAKADTISKEELKRFKIKIMSELVS  207 (406)
T ss_pred             cchhHHHHHHHHHHhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999998754

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.84  E-value=4e-21  Score=189.51  Aligned_cols=147  Identities=23%  Similarity=0.307  Sum_probs=118.3

Q ss_pred             CCccCccCCCCCCcccccccccCCCCceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEE-------EeeC
Q psy8479          82 PFSRCWVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTY-------ELQE  154 (650)
Q Consensus        82 ~~~~~~vG~~~lp~Q~~rk~~~~k~g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~-------~l~e  154 (650)
                      .|..+.+.+..+|..-     .  ++++| |||||||||||||+|++++.++++|++||+|+.|+.+.+       ++.+
T Consensus         8 ~f~~sa~~~~~~P~~~-----~--~EIaF-~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~~~lVDlPG   79 (200)
T COG0218           8 KFITSAPDIKQYPEDD-----L--PEIAF-AGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDELRLVDLPG   79 (200)
T ss_pred             EEEEecCCHhhCCCCC-----C--cEEEE-EccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCcEEEEeCCC
Confidence            3445566666666662     2  69999 999999999999999999999999999999999986432       4445


Q ss_pred             Cceeec----chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCee
Q psy8479         155 NNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNII  229 (650)
Q Consensus       155 ~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvI  229 (650)
                      +|+.-.    .+.|+.++       ..||+.+.++++.+ .+.|.|            |.++..|++|++||.. .++++
T Consensus        80 YGyAkv~k~~~e~w~~~i-------~~YL~~R~~L~~vv-lliD~r------------~~~~~~D~em~~~l~~~~i~~~  139 (200)
T COG0218          80 YGYAKVPKEVKEKWKKLI-------EEYLEKRANLKGVV-LLIDAR------------HPPKDLDREMIEFLLELGIPVI  139 (200)
T ss_pred             cccccCCHHHHHHHHHHH-------HHHHhhchhheEEE-EEEECC------------CCCcHHHHHHHHHHHHcCCCeE
Confidence            554322    55677666       78998887777665 566666            9999999999999985 67999


Q ss_pred             eeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         230 PIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       230 PVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                      .|+||+|+++..|..+....+++.|..
T Consensus       140 vv~tK~DKi~~~~~~k~l~~v~~~l~~  166 (200)
T COG0218         140 VVLTKADKLKKSERNKQLNKVAEELKK  166 (200)
T ss_pred             EEEEccccCChhHHHHHHHHHHHHhcC
Confidence            999999999999999988999887755

>cd01850 CDC_Septin CDC/Septin

Probab=99.83  E-value=1.4e-21  Score=204.26  Aligned_cols=114  Identities=28%  Similarity=0.353  Sum_probs=101.4

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCC-CccCCCCceeeEeeecCCCcccCCcchHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSP-VRIPTTRLRCASKNSDLPLAECLKSLDLV  610 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~-~~~~d~rvh~~lyf~i~ptgh~l~~~Di~  610 (650)
                      ++.++.|+||||||||++++++.|| .+|++||++||..+. ..+.+..+ ..+.|+|||||||| +.|++|++++.|++
T Consensus        59 ~g~~~~l~iiDTpGfgd~~~~~~~~-~~i~~yi~~q~~~~l-~~e~~~~r~~~~~d~rvh~~ly~-i~~~~~~l~~~D~~  135 (276)
T cd01850          59 NGVKLKLTVIDTPGFGDNINNSDCW-KPIVDYIDDQFDQYL-REESRIKRNPRIPDTRVHACLYF-IEPTGHGLKPLDIE  135 (276)
T ss_pred             CCEEEEEEEEecCCccccccchhhH-HHHHHHHHHHHHHHH-HHHhhhcccccCCCCceEEEEEE-EeCCCCCCCHHHHH
Confidence            4788999999999999999999999 799999999985422 22223333 68999999999999 88999999999999


Q ss_pred             HHHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         611 CMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       611 ~mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      +|+.|+..+||||||+|+|+|+.+|+..+|+.|++.|.
T Consensus       136 ~lk~l~~~v~vi~VinK~D~l~~~e~~~~k~~i~~~l~  173 (276)
T cd01850         136 FMKRLSKRVNIIPVIAKADTLTPEELKEFKQRIMEDIE  173 (276)
T ss_pred             HHHHHhccCCEEEEEECCCcCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998875

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.15  E-value=6e-10  Score=108.34  Aligned_cols=134  Identities=23%  Similarity=0.376  Sum_probs=90.8

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-----------hhHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-----------DSFKSIVDYID  172 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-----------~~w~~Ii~yI~  172 (650)
                      -+.+ +|.+|+|||||||.|++.......+..++.|..+..+.  + ++++.+.   .           ..|..++    
T Consensus        20 ~i~i-vG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~--~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~----   91 (179)
T TIGR03598        20 EIAF-AGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFE--V-NDGFRLVDLPGYGYAKVSKEEKEKWQKLI----   91 (179)
T ss_pred             EEEE-EcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEE--e-CCcEEEEeCCCCccccCChhHHHHHHHHH----
Confidence            3444 99999999999999999875555566666776654322  2 2233322   1           1222222    


Q ss_pred             HHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHH
Q psy8479         173 NQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIM  251 (650)
Q Consensus       173 ~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~  251 (650)
                         ..|+..     +       .+.|+++|++..+ +++...++++++.+.. ..+++.|++|.|.+...++......++
T Consensus        92 ---~~~l~~-----~-------~~~~~ii~vvd~~-~~~~~~~~~~~~~~~~~~~pviiv~nK~D~~~~~~~~~~~~~i~  155 (179)
T TIGR03598        92 ---EEYLEK-----R-------ENLKGVVLLMDIR-HPLKELDLEMLEWLRERGIPVLIVLTKADKLKKSELNKQLKKIK  155 (179)
T ss_pred             ---HHHHHh-----C-------hhhcEEEEEecCC-CCCCHHHHHHHHHHHHcCCCEEEEEECcccCCHHHHHHHHHHHH
Confidence               233322     1       1357888888764 6799999998888874 679999999999999888888888888


Q ss_pred             HHHHHCC--CcEEeC
Q psy8479         252 TELTSNG--VHIYEF  264 (650)
Q Consensus       252 ~~L~~~~--I~if~f  264 (650)
                      +.|...+  .++|.+
T Consensus       156 ~~l~~~~~~~~v~~~  170 (179)
T TIGR03598       156 KALKKDADDPSVQLF  170 (179)
T ss_pred             HHHhhccCCCceEEE
Confidence            8887754  245544

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.15  E-value=2.3e-10  Score=113.20  Aligned_cols=145  Identities=14%  Similarity=0.176  Sum_probs=90.2

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHH---HHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSI---VDYIDNQFEAYLQEEL  183 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~I---i~yI~~qf~~yL~eE~  183 (650)
                      +.+ ||++|+|||||+|+|++.+........++.|.......+.+.+..+.+. ...|...   ...+...         
T Consensus         3 i~l-vG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~---------   72 (196)
T cd01852           3 LVL-VGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKE---------   72 (196)
T ss_pred             EEE-ECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHH---------
Confidence            456 9999999999999999987665433333444444333334433333332 1111110   1111111         


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC------CCeeeeeecccCCCHHHHHHH----HHHHHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK------VNIIPIIAKADTISKSELQKF----KTNIMTE  253 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~------vnvIPVItKAD~Lt~~El~~~----K~~I~~~  253 (650)
                       +.+.+ ......+|++||+++. ++ ++..|..++++|.+.      -++|+|+|++|.+...++..+    +..++..
T Consensus        73 -i~~~~-~~~~~g~~~illVi~~-~~-~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l  148 (196)
T cd01852          73 -IVRCL-SLSAPGPHAFLLVVPL-GR-FTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRL  148 (196)
T ss_pred             -HHHHH-HhcCCCCEEEEEEEEC-CC-cCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHH
Confidence             11111 1223568999999975 34 999999999999763      489999999999986655554    3556667


Q ss_pred             HHHCCCcEEeCCC
Q psy8479         254 LTSNGVHIYEFPT  266 (650)
Q Consensus       254 L~~~~I~if~f~~  266 (650)
                      ++..+..++.|..
T Consensus       149 ~~~c~~r~~~f~~  161 (196)
T cd01852         149 LEKCGGRYVAFNN  161 (196)
T ss_pred             HHHhCCeEEEEeC
Confidence            7777777777753

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).

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=98.98  E-value=3e-09  Score=110.10  Aligned_cols=118  Identities=19%  Similarity=0.251  Sum_probs=73.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHH------HHHHHHHHHHHHHHHHHh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKS------IVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~------Ii~yI~~qf~~yL~eE~~  184 (650)
                      +|++|+|||||||+|++...... +.-.+.|..+........+..+.+. .-.+..      .-.-+..+...|+     
T Consensus        37 vG~tGvGKSSliNaLlg~~~~~v-~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l-----  110 (249)
T cd01853          37 LGKTGVGKSSTINSIFGERKAAT-SAFQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYL-----  110 (249)
T ss_pred             ECCCCCcHHHHHHHHhCCCCccc-CCCCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHH-----
Confidence            99999999999999999875443 2223334444332222222222222 111110      1111111112222     


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC------CCeeeeeecccCCCHHHH
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK------VNIIPIIAKADTISKSEL  243 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~------vnvIPVItKAD~Lt~~El  243 (650)
                              ....+|++||++.-+..++...|..+++.|...      .|+|+|+||+|.+.+++.
T Consensus       111 --------~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~~~  167 (249)
T cd01853         111 --------KKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPPDGL  167 (249)
T ss_pred             --------hccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCCCCC
Confidence                    234589999999888889999999999999853      399999999999977653

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.94  E-value=1.9e-08  Score=98.15  Aligned_cols=137  Identities=20%  Similarity=0.307  Sum_probs=88.4

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEE----E-eeCCceeec------chhHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTY----E-LQENNVKLK------EDSFKSIVDYIDNQFE  176 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~----~-l~e~g~~L~------~~~w~~Ii~yI~~qf~  176 (650)
                      +.+ +|.+|+|||||||+|++.......+..++.|..+....+    . ++-.|+...      ...|..++       .
T Consensus        27 v~i-vG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~~~~~~~~-------~   98 (196)
T PRK00454         27 IAF-AGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEVNDKLRLVDLPGYGYAKVSKEEKEKWQKLI-------E   98 (196)
T ss_pred             EEE-EcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEecCCeEEEeCCCCCCCcCCCchHHHHHHHHH-------H
Confidence            445 999999999999999997655555556666665543321    1 122232221      12232222       2


Q ss_pred             HHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         177 AYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       177 ~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      .|+...            ..++++++++.. ..+....+.++++++.. ..++++|++|+|.++..+.+.....+...+.
T Consensus        99 ~~~~~~------------~~~~~~~~v~d~-~~~~~~~~~~i~~~l~~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~  165 (196)
T PRK00454         99 EYLRTR------------ENLKGVVLLIDS-RHPLKELDLQMIEWLKEYGIPVLIVLTKADKLKKGERKKQLKKVRKALK  165 (196)
T ss_pred             HHHHhC------------ccceEEEEEEec-CCCCCHHHHHHHHHHHHcCCcEEEEEECcccCCHHHHHHHHHHHHHHHH
Confidence            233211            134566665543 35677777778888874 5689999999999999888877777888887


Q ss_pred             HCCCcEEeCC
Q psy8479         256 SNGVHIYEFP  265 (650)
Q Consensus       256 ~~~I~if~f~  265 (650)
                      ..++.++...
T Consensus       166 ~~~~~~~~~S  175 (196)
T PRK00454        166 FGDDEVILFS  175 (196)
T ss_pred             hcCCceEEEE
Confidence            7677777654

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.92  E-value=2.7e-08  Score=92.74  Aligned_cols=140  Identities=23%  Similarity=0.345  Sum_probs=86.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c----hhHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E----DSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~----~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      .+ +|.+|+|||||+|+|++.......+..++.|..+..  +.+.. .+.+.   .    ..+......+......|+..
T Consensus         3 ~l-~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~--~~~~~-~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~   78 (170)
T cd01876           3 AF-AGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINF--FNVND-KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLEN   78 (170)
T ss_pred             EE-EcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEE--EEccC-eEEEecCCCccccccCHHHHHHHHHHHHHHHHh
Confidence            35 899999999999999975555555555555554432  22111 11111   0    01111222222222344433


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH--HCC
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT--SNG  258 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~--~~~  258 (650)
                      .            ..++++++.+.. .+.....+..++++|.. ..|+++|++|+|.++..+....+..+...++  ...
T Consensus        79 ~------------~~~~~~~~v~d~-~~~~~~~~~~~~~~l~~~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~  145 (170)
T cd01876          79 R------------ENLKGVVLLIDS-RHGPTEIDLEMLDWLEELGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEID  145 (170)
T ss_pred             C------------hhhhEEEEEEEc-CcCCCHhHHHHHHHHHHcCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCC
Confidence            1            234566666543 34567788889999985 5799999999999999888888887777775  345


Q ss_pred             CcEEeCC
Q psy8479         259 VHIYEFP  265 (650)
Q Consensus       259 I~if~f~  265 (650)
                      ..+|.+.
T Consensus       146 ~~~~~~S  152 (170)
T cd01876         146 PPIILFS  152 (170)
T ss_pred             CceEEEe
Confidence            5677664

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.

>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=98.87  E-value=3.6e-09  Score=95.56  Aligned_cols=108  Identities=18%  Similarity=0.237  Sum_probs=66.7

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-------chhHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-------EDSFKSIVDYIDNQFEAYLQ  180 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-------~~~w~~Ii~yI~~qf~~yL~  180 (650)
                      +.+ +|++|+|||||||+|++.+. ...+..++.|.......+.+....+.+.       ...+..-.    ..+..|++
T Consensus         2 V~i-iG~~~~GKSTlin~l~~~~~-~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~~~~~~~----~~~~~~~~   75 (116)
T PF01926_consen    2 VAI-IGRPNVGKSTLINALTGKKL-AKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDGESQDNDG----KEIRKFLE   75 (116)
T ss_dssp             EEE-EESTTSSHHHHHHHHHTSTS-SEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSSSHHHHHH----HHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHhcccc-ccccccccceeeeeeeeeeeceeeEEEEeCCCCcccchhhHHH----HHHHHHHH
Confidence            345 89999999999999998653 2334444444444333333433333332       11111111    11122332


Q ss_pred             HHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeec
Q psy8479         181 EELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAK  234 (650)
Q Consensus       181 eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItK  234 (650)
                      .           . .++|+++|++..+ +.++..+..++++|....|++.|++|
T Consensus        76 ~-----------~-~~~d~ii~vv~~~-~~~~~~~~~~~~~l~~~~~~i~v~NK  116 (116)
T PF01926_consen   76 Q-----------I-SKSDLIIYVVDAS-NPITEDDKNILRELKNKKPIILVLNK  116 (116)
T ss_dssp             H-----------H-CTESEEEEEEETT-SHSHHHHHHHHHHHHTTSEEEEEEES
T ss_pred             H-----------H-HHCCEEEEEEECC-CCCCHHHHHHHHHHhcCCCEEEEEcC
Confidence            2           1 3568999999954 46677889999999877899999998

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 ....

>KOG2486|consensus

Probab=98.78  E-value=9.8e-09  Score=106.08  Aligned_cols=114  Identities=16%  Similarity=0.261  Sum_probs=87.1

Q ss_pred             CCceeecCCCCCChhhHhhhhhCcCCCCCCCC-CCCCcEEEEEEEE-------EeeCCcee---ec-chhHHHHHHHHHH
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNTSFESTPSP-HSLPSVKLKAHTY-------ELQENNVK---LK-EDSFKSIVDYIDN  173 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~-~~~~T~~I~~~~~-------~l~e~g~~---L~-~~~w~~Ii~yI~~  173 (650)
                      ++++| .|+||||||||||.|+..+..+..++ .+++|+.|+.+.+       ++.++|+.   .. ...|..+.     
T Consensus       137 pe~~~-~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t-----  210 (320)
T KOG2486|consen  137 PELAF-YGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVGKSWYEVDLPGYGRAGYGFELPADWDKFT-----  210 (320)
T ss_pred             ceeee-ecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeeccceEEEEecCCcccccCCccCcchHhHhH-----
Confidence            68899 99999999999999999988777555 8899998876542       33342221   11 56788888     


Q ss_pred             HHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCH
Q psy8479         174 QFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISK  240 (650)
Q Consensus       174 qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~  240 (650)
                        ..||.++.++.             |.|++.....++++.|...+.||++ .|+...|+||+|+...
T Consensus       211 --~~Y~leR~nLv-------------~~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t~vfTK~DK~k~  263 (320)
T KOG2486|consen  211 --KSYLLERENLV-------------RVFLLVDASVPIQPTDNPEIAWLGENNVPMTSVFTKCDKQKK  263 (320)
T ss_pred             --HHHHHhhhhhh-------------eeeeeeeccCCCCCCChHHHHHHhhcCCCeEEeeehhhhhhh
Confidence              68888866443             3444445557999999999999995 7899999999998644

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.78  E-value=6.1e-08  Score=102.95  Aligned_cols=147  Identities=16%  Similarity=0.198  Sum_probs=84.6

Q ss_pred             CCCccCccCCCCCCc--cc--cccc--ccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEE
Q psy8479          81 GPFSRCWVNTRTPPP--NF--LEKS--WNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYE  151 (650)
Q Consensus        81 ~~~~~~~vG~~~lp~--Q~--~rk~--~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~  151 (650)
                      .+..+.++|+..+|.  |-  ....  .+.+.--.++   +|++|+|||||||+|++...... +...+.+.........
T Consensus         4 ~~~~~~w~g~~~~~~~tq~~l~~~l~~l~~~~~~~~rIllvGktGVGKSSliNsIlG~~v~~v-s~f~s~t~~~~~~~~~   82 (313)
T TIGR00991         4 PQTPREWVGIQQFPPATQTKLLELLGKLKEEDVSSLTILVMGKGGVGKSSTVNSIIGERIATV-SAFQSEGLRPMMVSRT   82 (313)
T ss_pred             cccCcceeccccCCHHHHHHHHHHHHhcccccccceEEEEECCCCCCHHHHHHHHhCCCcccc-cCCCCcceeEEEEEEE
Confidence            344578999999997  31  1111  1101111222   99999999999999999875432 2212222221111112


Q ss_pred             eeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC---
Q psy8479         152 LQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK---  225 (650)
Q Consensus       152 l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~---  225 (650)
                      .  .|..+.   .-.+..- .++.++....+..      .   +....+|++||++.....++...|.++++.|...   
T Consensus        83 ~--~G~~l~VIDTPGL~d~-~~~~e~~~~~ik~------~---l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~  150 (313)
T TIGR00991        83 R--AGFTLNIIDTPGLIEG-GYINDQAVNIIKR------F---LLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGK  150 (313)
T ss_pred             E--CCeEEEEEECCCCCch-HHHHHHHHHHHHH------H---hhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhh
Confidence            2  344433   2222111 2333333222211      1   2345799999998766668889999999988853   


Q ss_pred             ---CCeeeeeecccCCCH
Q psy8479         226 ---VNIIPIIAKADTISK  240 (650)
Q Consensus       226 ---vnvIPVItKAD~Lt~  240 (650)
                         -++|.|+|++|.+.+
T Consensus       151 ~iw~~~IVVfTh~d~~~p  168 (313)
T TIGR00991       151 DIWRKSLVVLTHAQFSPP  168 (313)
T ss_pred             hhhccEEEEEECCccCCC
Confidence               389999999997743

>COG1159 Era GTPase [General function prediction only]

Probab=98.77  E-value=6.3e-08  Score=101.36  Aligned_cols=137  Identities=17%  Similarity=0.275  Sum_probs=83.1

Q ss_pred             CCc-eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEE-EE-------EEEEEeeCCceeecchhHHHHHHHHHHHHH
Q psy8479         106 PGK-AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVK-LK-------AHTYELQENNVKLKEDSFKSIVDYIDNQFE  176 (650)
Q Consensus       106 ~g~-~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~-I~-------~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~  176 (650)
                      -|| ++ |||.|+|||||+|+|.|+++.- +|..+..|.. |.       ...++++..|+.-..           ..+.
T Consensus         6 sGfVaI-iGrPNvGKSTLlN~l~G~KisI-vS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk-----------~~l~   72 (298)
T COG1159           6 SGFVAI-IGRPNVGKSTLLNALVGQKISI-VSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPK-----------HALG   72 (298)
T ss_pred             EEEEEE-EcCCCCcHHHHHHHHhcCceEe-ecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcc-----------hHHH
Confidence            454 33 9999999999999999998653 2222221211 11       011234444433221           1223


Q ss_pred             HHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHH-HHHHHHHHHHHH
Q psy8479         177 AYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSE-LQKFKTNIMTEL  254 (650)
Q Consensus       177 ~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~E-l~~~K~~I~~~L  254 (650)
                      .||.....-     .+.  -|+++||++..+ +++.+.|-.++..|.. ..|+|.+|+|.|...+.. +..+.......+
T Consensus        73 ~~m~~~a~~-----sl~--dvDlilfvvd~~-~~~~~~d~~il~~lk~~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~  144 (298)
T COG1159          73 ELMNKAARS-----ALK--DVDLILFVVDAD-EGWGPGDEFILEQLKKTKTPVILVVNKIDKVKPKTVLLKLIAFLKKLL  144 (298)
T ss_pred             HHHHHHHHH-----Hhc--cCcEEEEEEecc-ccCCccHHHHHHHHhhcCCCeEEEEEccccCCcHHHHHHHHHHHHhhC
Confidence            444333211     122  356888888754 7899999999999987 579999999999999988 555555444333


Q ss_pred             HHCCCcEEeCC
Q psy8479         255 TSNGVHIYEFP  265 (650)
Q Consensus       255 ~~~~I~if~f~  265 (650)
                      ...  .++...
T Consensus       145 ~f~--~ivpiS  153 (298)
T COG1159         145 PFK--EIVPIS  153 (298)
T ss_pred             Ccc--eEEEee
Confidence            222  455554

>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=98.75  E-value=3.3e-08  Score=99.62  Aligned_cols=139  Identities=18%  Similarity=0.218  Sum_probs=83.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec--------chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK--------EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~--------~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +|++|+||||++|+|++.+..........-|.....+...+.+..+.+.        ...-..++..|..    ++    
T Consensus         6 lG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl~d~~~~~~~~~~~i~~----~l----   77 (212)
T PF04548_consen    6 LGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGRQVTVIDTPGLFDSDGSDEEIIREIKR----CL----   77 (212)
T ss_dssp             ECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTEEEEEEE--SSEETTEEHHHHHHHHHH----HH----
T ss_pred             ECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecceEEEEEeCCCCCCCcccHHHHHHHHHH----HH----
Confidence            8999999999999999998765432212222222222223333223222        1122223322211    11    


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc----CC--CeeeeeecccCCCHHHHHHHHH-----HHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS----KV--NIIPIIAKADTISKSELQKFKT-----NIMT  252 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~----~v--nvIPVItKAD~Lt~~El~~~K~-----~I~~  252 (650)
                             .....-+||+||+++..  +++..|..++++|..    .+  ++|.|+|.+|.+....+..+.+     .+++
T Consensus        78 -------~~~~~g~ha~llVi~~~--r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~  148 (212)
T PF04548_consen   78 -------SLCSPGPHAFLLVIPLG--RFTEEDREVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESNEALQE  148 (212)
T ss_dssp             -------HHTTT-ESEEEEEEETT--B-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHH
T ss_pred             -------HhccCCCeEEEEEEecC--cchHHHHHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCchhHhH
Confidence                   12234589999998865  899999998888874    22  8999999999998876554443     3566


Q ss_pred             HHHHCCCcEEeCCCC
Q psy8479         253 ELTSNGVHIYEFPTD  267 (650)
Q Consensus       253 ~L~~~~I~if~f~~d  267 (650)
                      .++..+-.++.|...
T Consensus       149 li~~c~~R~~~f~n~  163 (212)
T PF04548_consen  149 LIEKCGGRYHVFNNK  163 (212)
T ss_dssp             HHHHTTTCEEECCTT
T ss_pred             HhhhcCCEEEEEecc
Confidence            677777788888754

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 ....

>PRK00089 era GTPase Era; Reviewed

Probab=98.71  E-value=2.6e-07  Score=97.00  Aligned_cols=67  Identities=18%  Similarity=0.286  Sum_probs=48.2

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCC-CHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTI-SKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~L-t~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      .+|+++|++..+. ++...+..+++.|.. .++++.|++|+|.+ ...++....+.+.+..  ....+|.+.
T Consensus        84 ~~D~il~vvd~~~-~~~~~~~~i~~~l~~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~--~~~~i~~iS  152 (292)
T PRK00089         84 DVDLVLFVVDADE-KIGPGDEFILEKLKKVKTPVILVLNKIDLVKDKEELLPLLEELSELM--DFAEIVPIS  152 (292)
T ss_pred             cCCEEEEEEeCCC-CCChhHHHHHHHHhhcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhC--CCCeEEEec
Confidence            3678999998764 678888888888875 67999999999999 5666666555554322  124566554

>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=98.70  E-value=3e-09  Score=102.67  Aligned_cols=130  Identities=19%  Similarity=0.266  Sum_probs=84.8

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---------chhHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---------EDSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---------~~~w~~Ii~yI~~qf~~y  178 (650)
                      ++| ||+.|+|||||+|+|+|.+  ...+..|+.|+......+.+....+.+.         ..+...-+.      ..|
T Consensus         3 ial-vG~PNvGKStLfN~Ltg~~--~~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~------~~~   73 (156)
T PF02421_consen    3 IAL-VGNPNVGKSTLFNALTGAK--QKVGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVA------RDY   73 (156)
T ss_dssp             EEE-EESTTSSHHHHHHHHHTTS--EEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHH------HHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHCCC--ceecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHH------HHH
Confidence            567 9999999999999999987  4456778889888766666555444443         233222221      233


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSN  257 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~  257 (650)
                      |.             ..++++.++.+.++.  + +-++.++.+|.+ ..|+|.|++|+|.....-+..-...+.+.|   
T Consensus        74 l~-------------~~~~D~ii~VvDa~~--l-~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~id~~~Ls~~L---  134 (156)
T PF02421_consen   74 LL-------------SEKPDLIIVVVDATN--L-ERNLYLTLQLLELGIPVVVVLNKMDEAERKGIEIDAEKLSERL---  134 (156)
T ss_dssp             HH-------------HTSSSEEEEEEEGGG--H-HHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-HHHHHHHH---
T ss_pred             Hh-------------hcCCCEEEEECCCCC--H-HHHHHHHHHHHHcCCCEEEEEeCHHHHHHcCCEECHHHHHHHh---
Confidence            33             234667888888753  4 456777777764 679999999999876544333333444444   


Q ss_pred             CCcEEeCC
Q psy8479         258 GVHIYEFP  265 (650)
Q Consensus       258 ~I~if~f~  265 (650)
                      +++++.+.
T Consensus       135 g~pvi~~s  142 (156)
T PF02421_consen  135 GVPVIPVS  142 (156)
T ss_dssp             TS-EEEEB
T ss_pred             CCCEEEEE
Confidence            66777664

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 ....

>cd01894 EngA1 EngA1 subfamily

Probab=98.69  E-value=2.3e-07  Score=86.22  Aligned_cols=115  Identities=21%  Similarity=0.158  Sum_probs=65.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHH-HHHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKS-IVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~-Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      +|.+|+|||||||.|++..... .+..++.|.........+.+..+.+.    ...+.+ +...+..++..++       
T Consensus         3 ~G~~~~GKssl~~~l~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~-------   74 (157)
T cd01894           3 VGRPNVGKSTLFNRLTGRRDAI-VEDTPGVTRDRIYGEAEWGGREFILIDTGGIEPDDEGISKEIREQAELAI-------   74 (157)
T ss_pred             cCCCCCCHHHHHHHHhCCcEEe-ecCCCCceeCceeEEEEECCeEEEEEECCCCCCchhHHHHHHHHHHHHHH-------
Confidence            8999999999999999875322 12223333322222222222222222    112222 2221111111111       


Q ss_pred             hcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHH
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSEL  243 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El  243 (650)
                              .++|+++|.+.+ .++....+..+.+++.. ..+++.|++|+|.....+.
T Consensus        75 --------~~~d~ii~v~d~-~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~  123 (157)
T cd01894          75 --------EEADVILFVVDG-REGLTPADEEIAKYLRKSKKPVILVVNKVDNIKEEDE  123 (157)
T ss_pred             --------HhCCEEEEEEec-cccCCccHHHHHHHHHhcCCCEEEEEECcccCChHHH
Confidence                    125678888876 35677778888888864 5799999999999876554

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.

>cd04163 Era Era subfamily

Probab=98.63  E-value=5.1e-07  Score=83.82  Aligned_cols=56  Identities=16%  Similarity=0.308  Sum_probs=42.1

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCC-CHHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTI-SKSELQKFKTNIMT  252 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~L-t~~El~~~K~~I~~  252 (650)
                      .+|+++|++..+ +.....+..+++.+.. ..+++.|+||+|.. ...++......+..
T Consensus        82 ~~d~i~~v~d~~-~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~  139 (168)
T cd04163          82 DVDLVLFVVDAS-EPIGEGDEFILELLKKSKTPVILVLNKIDLVKDKEDLLPLLEKLKE  139 (168)
T ss_pred             hCCEEEEEEECC-CccCchHHHHHHHHHHhCCCEEEEEEchhccccHHHHHHHHHHHHh
Confidence            357899999876 3467778888888875 48999999999998 56666665555543

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.63  E-value=4.2e-07  Score=87.24  Aligned_cols=61  Identities=16%  Similarity=0.212  Sum_probs=48.3

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~  258 (650)
                      .|+++|++..+ ++....+.+++..+.. ..+++.|++|+|.+.+.++......+++.++..+
T Consensus        86 ~d~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~  147 (189)
T cd00881          86 SDGAILVVDAN-EGVQPQTREHLRIAREGGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIG  147 (189)
T ss_pred             cCEEEEEEECC-CCCcHHHHHHHHHHHHCCCCeEEEEECCCCcchhcHHHHHHHHHHHHcccc
Confidence            56888888764 5667777788877764 6799999999999998787777788887777644

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.

>TIGR00436 era GTP-binding protein Era

Probab=98.60  E-value=6.3e-07  Score=93.47  Aligned_cols=117  Identities=15%  Similarity=0.172  Sum_probs=62.9

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec-----chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK-----EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~-----~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ +|++|+|||||+|+|++.++.. ++..++.|.... ..+...++ .+.+.     ......+-.++......++   
T Consensus         4 ~l-iG~pnvGKSTLln~L~~~~~~~-vs~~~~TTr~~i-~~i~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l---   77 (270)
T TIGR00436         4 AI-LGRPNVGKSTLLNQLHGQKISI-TSPKAQTTRNRI-SGIHTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAI---   77 (270)
T ss_pred             EE-ECCCCCCHHHHHHHHhCCcEee-cCCCCCcccCcE-EEEEEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHH---
Confidence            45 9999999999999999987532 333333332211 11111111 11111     1111122222212211111   


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQK  245 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~  245 (650)
                                  ...++++|++.++. .... +..++..|.. ..|++.|++|+|...+.++..
T Consensus        78 ------------~~aDvvl~VvD~~~-~~~~-~~~i~~~l~~~~~p~ilV~NK~Dl~~~~~~~~  127 (270)
T TIGR00436        78 ------------GGVDLILFVVDSDQ-WNGD-GEFVLTKLQNLKRPVVLTRNKLDNKFKDKLLP  127 (270)
T ss_pred             ------------hhCCEEEEEEECCC-CCch-HHHHHHHHHhcCCCEEEEEECeeCCCHHHHHH
Confidence                        13578999998764 2222 3445566653 569999999999987665543

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=98.57  E-value=1.1e-07  Score=88.34  Aligned_cols=118  Identities=21%  Similarity=0.271  Sum_probs=67.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKIKRSLN  190 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~  190 (650)
                      +|.+|+|||||||+|++..... .+..++.|..+....+.+.+..+.+. ..++.....++.        .+ ...+.. 
T Consensus         7 ~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~--------~~-~~~~~~-   75 (157)
T cd04164           7 VGKPNVGKSSLLNALAGRDRAI-VSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIE--------KI-GIERAR-   75 (157)
T ss_pred             ECCCCCCHHHHHHHHHCCceEe-ccCCCCCccceEEEEEEeCCEEEEEEECCCcCCCcchHH--------HH-HHHHHH-
Confidence            9999999999999999976422 23334444444333333332222221 111111111100        00 011110 


Q ss_pred             ccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHH
Q psy8479         191 TYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSEL  243 (650)
Q Consensus       191 ~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El  243 (650)
                       ..-.++|+++|++.++ ......+..+++. ....+++.|++|+|..+..+.
T Consensus        76 -~~~~~~~~~v~v~d~~-~~~~~~~~~~~~~-~~~~~vi~v~nK~D~~~~~~~  125 (157)
T cd04164          76 -EAIEEADLVLFVIDAS-RGLDEEDLEILEL-PADKPIIVVLNKSDLLPDSEL  125 (157)
T ss_pred             -HHHhhCCEEEEEEECC-CCCCHHHHHHHHh-hcCCCEEEEEEchhcCCcccc
Confidence             1123689999999886 4666777777766 456799999999999876544

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.57  E-value=5.7e-07  Score=89.32  Aligned_cols=66  Identities=18%  Similarity=0.247  Sum_probs=45.0

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHH-------------HHHHHHHHHHHHHHCCC---
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSE-------------LQKFKTNIMTELTSNGV---  259 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~E-------------l~~~K~~I~~~L~~~~I---  259 (650)
                      .++++++..   .++...|..+++.|.. ..+++.|++|+|++.+++             ++.+++.+.+.+...++   
T Consensus        81 ~d~~l~v~~---~~~~~~d~~~~~~l~~~~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p  157 (197)
T cd04104          81 YDFFIIISS---TRFSSNDVKLAKAIQCMGKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEP  157 (197)
T ss_pred             cCEEEEEeC---CCCCHHHHHHHHHHHHhCCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            356666543   5789999999999885 469999999999987544             33445555555554443   


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|-..
T Consensus       158 ~v~~vS  163 (197)
T cd04104         158 PVFLVS  163 (197)
T ss_pred             CEEEEe
Confidence            455444

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

>KOG1189|consensus

Probab=98.56  E-value=8.6e-09  Score=116.69  Aligned_cols=24  Identities=25%  Similarity=0.265  Sum_probs=21.5

Q ss_pred             CCccccCCccccCcccCCCCCcch
Q psy8479         325 NPTIDKNLYSFFDCKYFNGLEEEE  348 (650)
Q Consensus       325 ~~ti~~~~~~~~~~~g~~~leeee  348 (650)
                      =|||++||.+||.+|||.|+.-+.
T Consensus       852 mKTI~dDP~~Ffe~GgW~fL~~~~  875 (960)
T KOG1189|consen  852 MKTITDDPIAFFEDGGWSFLNVES  875 (960)
T ss_pred             hhhhccCHHHHHhcCCeeeecCCC
Confidence            389999999999999999997665

>cd04171 SelB SelB subfamily

Probab=98.55  E-value=2.3e-06  Score=80.20  Aligned_cols=136  Identities=15%  Similarity=0.224  Sum_probs=73.6

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCC-CCCCCCcEEEEEEEEEee-CCceeec-chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTP-SPHSLPSVKLKAHTYELQ-ENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~-s~~~~~T~~I~~~~~~l~-e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      .+ +|++|+|||||||.|.+....... ...++.|+.+....+.+. +..+.+. ..+.   ..|..    .+.      
T Consensus         4 ~i-~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~---~~~~~----~~~------   69 (164)
T cd04171           4 GT-AGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGH---EKFIK----NML------   69 (164)
T ss_pred             EE-EecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCCh---HHHHH----HHH------
Confidence            45 999999999999999975422211 112334455444444443 2222222 1111   11110    111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CC-CeeeeeecccCCCHHHHHHHHHHHHHHHHH---CCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KV-NIIPIIAKADTISKSELQKFKTNIMTELTS---NGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt~~El~~~K~~I~~~L~~---~~I~  260 (650)
                       +.   +  ...++++|++..+ .++.....+.+..+.. .. ++|.|++|+|......+....+.+.+.++.   .+..
T Consensus        70 -~~---~--~~ad~ii~V~d~~-~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (164)
T cd04171          70 -AG---A--GGIDLVLLVVAAD-EGIMPQTREHLEILELLGIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAP  142 (164)
T ss_pred             -hh---h--hcCCEEEEEEECC-CCccHhHHHHHHHHHHhCCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCc
Confidence             00   1  1257889998864 3333333333333321 33 899999999998776555556666666665   3556


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       143 ~~~~S  147 (164)
T cd04171         143 IFPVS  147 (164)
T ss_pred             EEEEe
Confidence            66554

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

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.52  E-value=1.1e-06  Score=96.83  Aligned_cols=139  Identities=12%  Similarity=0.128  Sum_probs=74.4

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec---c--hhHHHHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK---E--DSFKSIVDYIDNQFEAYLQ  180 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~---~--~~w~~Ii~yI~~qf~~yL~  180 (650)
                      -+.| ||++|+|||||||+|.+.+.  ..+..|..|+......+.+.+. .+.+.   .  ..... -..+..   .||.
T Consensus       161 dVal-VG~PNaGKSTLln~Lt~~k~--~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~-~~~Lg~---~~l~  233 (390)
T PRK12298        161 DVGL-LGLPNAGKSTFIRAVSAAKP--KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASE-GAGLGI---RFLK  233 (390)
T ss_pred             cEEE-EcCCCCCHHHHHHHHhCCcc--cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccc-hhhHHH---HHHH
Confidence            4455 99999999999999999764  3444444444332222222221 13332   0  00000 000111   2221


Q ss_pred             HHHhhhhcccccCCceeeEEEEEEcCC---CCCCCcchHHHHHHhcc------CCCeeeeeecccCCCHHHHHHHHHHHH
Q psy8479         181 EELKIKRSLNTYHDNRIHVCLYFICPT---GHGLKSLDLVCMKKLDS------KVNIIPIIAKADTISKSELQKFKTNIM  251 (650)
Q Consensus       181 eE~~i~R~~~~~~D~RVH~cLYfI~ps---~h~Lk~lDI~~mk~L~~------~vnvIPVItKAD~Lt~~El~~~K~~I~  251 (650)
                      .   +         .|.++++|++..+   ...+......++++|..      ..++|.|++|+|.+...++....+.+.
T Consensus       234 ~---i---------~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~~~l~~l~  301 (390)
T PRK12298        234 H---L---------ERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAEERAKAIV  301 (390)
T ss_pred             H---H---------HhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHHHHHHHHH
Confidence            1   1         1456899999765   22333333556666664      358999999999988777655444443


Q ss_pred             HHHHHCCCcEEeCC
Q psy8479         252 TELTSNGVHIYEFP  265 (650)
Q Consensus       252 ~~L~~~~I~if~f~  265 (650)
                      +.+. ..+.++.+.
T Consensus       302 ~~~~-~~~~Vi~IS  314 (390)
T PRK12298        302 EALG-WEGPVYLIS  314 (390)
T ss_pred             HHhC-CCCCEEEEE
Confidence            3321 123566554

>cd01895 EngA2 EngA2 subfamily

Probab=98.46  E-value=2.1e-06  Score=80.58  Aligned_cols=59  Identities=25%  Similarity=0.365  Sum_probs=43.4

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCH--HHHHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISK--SELQKFKTNIMTELT  255 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~--~El~~~K~~I~~~L~  255 (650)
                      ..|+|+|++..+ .+....+..+++.+. ...+++.|++|+|.+..  .+.....+.+++.+.
T Consensus        84 ~~d~vi~v~d~~-~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~  145 (174)
T cd01895          84 RADVVLLVIDAT-EGITEQDLRIAGLILEEGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLP  145 (174)
T ss_pred             hcCeEEEEEeCC-CCcchhHHHHHHHHHhcCCCEEEEEeccccCCccHHHHHHHHHHHHhhcc
Confidence            457999999865 455666777777765 46799999999999877  556666666666554

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.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=98.43  E-value=9.5e-07  Score=82.47  Aligned_cols=130  Identities=14%  Similarity=0.156  Sum_probs=68.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-hhHHH--HHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-DSFKS--IVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-~~w~~--Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++...  ..+..++.|.......+.+.+..+.+.   + .....  .-.++..   .|+      
T Consensus         2 ~G~~~~GKssl~~~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~---~~~------   70 (158)
T cd01879           2 VGNPNVGKTTLFNALTGARQ--KVGNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYSLSPYSEDEKVAR---DFL------   70 (158)
T ss_pred             CCCCCCCHHHHHHHHhcCcc--cccCCCCcccccceEEEeeCCeEEEEEECCCccccCCCChhHHHHH---HHh------
Confidence            79999999999999998752  223334444443333344433222222   1 01110  0001100   111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEF  264 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f  264 (650)
                            .. ...|+++|++..+.  . ..+...+.++. ..+++|.|++|+|...........+.+.   ...+.+++..
T Consensus        71 ------~~-~~~d~vi~v~d~~~--~-~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~---~~~~~~~~~i  137 (158)
T cd01879          71 ------LG-EKPDLIVNVVDATN--L-ERNLYLTLQLLELGLPVVVALNMIDEAEKRGIKIDLDKLS---ELLGVPVVPT  137 (158)
T ss_pred             ------cC-CCCcEEEEEeeCCc--c-hhHHHHHHHHHHcCCCEEEEEehhhhcccccchhhHHHHH---HhhCCCeEEE
Confidence                  11 45689999998753  2 23344555554 4679999999999876544333222222   2235566654


Q ss_pred             C
Q psy8479         265 P  265 (650)
Q Consensus       265 ~  265 (650)
                      .
T Consensus       138 S  138 (158)
T cd01879         138 S  138 (158)
T ss_pred             E
Confidence            3

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.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=98.43  E-value=1.8e-06  Score=81.87  Aligned_cols=141  Identities=13%  Similarity=0.201  Sum_probs=68.7

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhhh
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      +.+ +|.+|+|||||||+|++....  .+..+..|..+....+...+..+.+. ..+...  .....  ..++... .+.
T Consensus         3 i~~-~G~~~~GKssli~~l~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~--~~~~~--~~~~~~~-~~~   74 (168)
T cd01897           3 LVI-AGYPNVGKSSLVNKLTRAKPE--VAPYPFTTKSLFVGHFDYKYLRWQVIDTPGLLD--RPLEE--RNTIEMQ-AIT   74 (168)
T ss_pred             EEE-EcCCCCCHHHHHHHHhcCCCc--cCCCCCcccceeEEEEccCceEEEEEECCCcCC--ccccC--CchHHHH-HHH
Confidence            345 999999999999999997653  22233334333322222211112221 111100  00000  0011100 000


Q ss_pred             hcccccCCceeeEEEEEEcCCCCCC-C-cchHHHHHHhcc---CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGHGL-K-SLDLVCMKKLDS---KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h~L-k-~lDI~~mk~L~~---~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                      ..     ....++++|++.++.+.- . .....+++.|..   ..|+|+|++|+|.....+...    +.+.....+..+
T Consensus        75 ~~-----~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~~~~~~----~~~~~~~~~~~~  145 (168)
T cd01897          75 AL-----AHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTFEDLSE----IEEEEELEGEEV  145 (168)
T ss_pred             HH-----HhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCchhhHHH----HHHhhhhccCce
Confidence            00     011368899998865432 1 112345555543   579999999999988766554    222223344556


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       146 ~~~S  149 (168)
T cd01897         146 LKIS  149 (168)
T ss_pred             EEEE
Confidence            6543

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.

>cd01898 Obg Obg subfamily

Probab=98.42  E-value=1.3e-06  Score=82.93  Aligned_cols=132  Identities=15%  Similarity=0.198  Sum_probs=66.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec---c-----hhHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK---E-----DSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~---~-----~~w~~Ii~yI~~qf~~y  178 (650)
                      +.+ +|++|+|||||||+|.+...  .++..++.|+......+.+... .+.+.   +     ..+..+.       ..|
T Consensus         3 v~i-vG~~~~GKStl~~~l~~~~~--~v~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~-------~~~   72 (170)
T cd01898           3 VGL-VGLPNAGKSTLLSAISNAKP--KIADYPFTTLVPNLGVVRVDDGRSFVVADIPGLIEGASEGKGLG-------HRF   72 (170)
T ss_pred             eEE-ECCCCCCHHHHHHHHhcCCc--cccCCCccccCCcceEEEcCCCCeEEEEecCcccCcccccCCch-------HHH
Confidence            456 99999999999999998654  2222233333221112222222 22222   1     1111121       112


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCC--CCCcchHHHHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHH
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGH--GLKSLDLVCMKKLD------SKVNIIPIIAKADTISKSELQKFKTNI  250 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h--~Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I  250 (650)
                      +..          +  .+.++|+|++..+..  .+..+ -.+++.|.      ...+++.|++|+|.....+....   +
T Consensus        73 ~~~----------~--~~~d~vi~v~D~~~~~~~~~~~-~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~---~  136 (170)
T cd01898          73 LRH----------I--ERTRLLLHVIDLSGDDDPVEDY-KTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFEL---L  136 (170)
T ss_pred             HHH----------H--HhCCEEEEEEecCCCCCHHHHH-HHHHHHHHHhCccccccccEEEEEchhcCCchhhHHH---H
Confidence            211          0  135689999987543  11221 12333332      25689999999998776654332   2


Q ss_pred             HHHHHH-CCCcEEeCC
Q psy8479         251 MTELTS-NGVHIYEFP  265 (650)
Q Consensus       251 ~~~L~~-~~I~if~f~  265 (650)
                      ...+.. .++.++...
T Consensus       137 ~~~~~~~~~~~~~~~S  152 (170)
T cd01898         137 KELLKELWGKPVFPIS  152 (170)
T ss_pred             HHHHhhCCCCCEEEEe
Confidence            333333 255666543

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=98.42  E-value=9.9e-07  Score=82.89  Aligned_cols=130  Identities=14%  Similarity=0.172  Sum_probs=67.1

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ +|.+|+|||||||.|++........++.+  ..+....+.+.+..+.+.     . ..+..+.       ..|    
T Consensus         4 ~~-vG~~~vGKTsli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-------~~~----   69 (168)
T cd04119           4 IS-MGNSGVGKSCIIKRYCEGRFVSKYLPTIG--IDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVR-------NEF----   69 (168)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCCCCCCCCccc--eeEEEEEEEECCeEEEEEEEECCccHHHHHHH-------HHH----
Confidence            45 99999999999999999876543222221  122222334443334433     1 1111111       111    


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCC----CCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHG----LKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTE  253 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~----Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~  253 (650)
                               +  ...++++|++.++.+.    +...-.++.+.+.     ...+++.|++|+|.....+..  .......
T Consensus        70 ---------~--~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~  136 (168)
T cd04119          70 ---------Y--KDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVS--EDEGRLW  136 (168)
T ss_pred             ---------h--ccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccC--HHHHHHH
Confidence                     1  1246899999876421    1122223333333     346899999999987321111  1112223


Q ss_pred             HHHCCCcEEeCC
Q psy8479         254 LTSNGVHIYEFP  265 (650)
Q Consensus       254 L~~~~I~if~f~  265 (650)
                      ....++.+|...
T Consensus       137 ~~~~~~~~~~~S  148 (168)
T cd04119         137 AESKGFKYFETS  148 (168)
T ss_pred             HHHcCCeEEEEE
Confidence            345567777665

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.42  E-value=2.9e-06  Score=94.01  Aligned_cols=131  Identities=18%  Similarity=0.218  Sum_probs=78.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhH---HHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSF---KSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w---~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|++|+|||||+|+|++..... .+..++.|.......+...+..+.|. ..+.   ..+.    ...+.|.....  .+
T Consensus       179 vG~~n~GKStlin~ll~~~~~~-~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~----~~~e~~~~~~~--~~  251 (435)
T PRK00093        179 IGRPNVGKSSLINALLGEERVI-VSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVT----EGVEKYSVIRT--LK  251 (435)
T ss_pred             ECCCCCCHHHHHHHHhCCCcee-ecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchh----hHHHHHHHHHH--HH
Confidence            9999999999999999875322 23344444433222222332223332 1110   0111    11112211100  01


Q ss_pred             cccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      .   +  .+.|+|++++..+ .++...|..+++.+.. ..++|.|++|+|.+...++..+++.+...+.
T Consensus       252 ~---~--~~ad~~ilViD~~-~~~~~~~~~i~~~~~~~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~  314 (435)
T PRK00093        252 A---I--ERADVVLLVIDAT-EGITEQDLRIAGLALEAGRALVIVVNKWDLVDEKTMEEFKKELRRRLP  314 (435)
T ss_pred             H---H--HHCCEEEEEEeCC-CCCCHHHHHHHHHHHHcCCcEEEEEECccCCCHHHHHHHHHHHHHhcc
Confidence            1   1  2357999999876 5788889988888764 6799999999999977777777777766554

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.41  E-value=2.9e-06  Score=93.69  Aligned_cols=138  Identities=19%  Similarity=0.195  Sum_probs=80.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhH---HHHHHHHHHHHHHH--HHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSF---KSIVDYIDNQFEAY--LQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w---~~Ii~yI~~qf~~y--L~eE~~i  185 (650)
                      +|++|+|||||||+|++..... .+..++.|.......+...+..+.|. ..+.   ..+..    ..+.|  +.....+
T Consensus       178 vG~~~~GKSsLin~l~~~~~~~-~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~----~~e~~~~~~~~~~~  252 (429)
T TIGR03594       178 IGRPNVGKSTLVNALLGEERVI-VSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTE----GVEKYSVLRTLKAI  252 (429)
T ss_pred             ECCCCCCHHHHHHHHHCCCeee-cCCCCCceECcEeEEEEECCcEEEEEECCCccccccchh----hHHHHHHHHHHHHH
Confidence            9999999999999999875332 22233333322212222222223332 1111   11110    00111  1111111


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCC-CHHHHHHHHHHHHHHHHHC-CCcEE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTI-SKSELQKFKTNIMTELTSN-GVHIY  262 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~L-t~~El~~~K~~I~~~L~~~-~I~if  262 (650)
                               .+.|+|+|++..+ ++++..|..+++.+.. ..++|.|++|.|.+ ....+..+++.+...+... .+.++
T Consensus       253 ---------~~ad~~ilV~D~~-~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~vi  322 (429)
T TIGR03594       253 ---------ERADVVLLVLDAT-EGITEQDLRIAGLILEAGKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFAPIV  322 (429)
T ss_pred             ---------HhCCEEEEEEECC-CCccHHHHHHHHHHHHcCCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCCceE
Confidence                     1358999999876 6889999988888764 67999999999998 5666667777776665442 34555


Q ss_pred             eC
Q psy8479         263 EF  264 (650)
Q Consensus       263 ~f  264 (650)
                      ..
T Consensus       323 ~~  324 (429)
T TIGR03594       323 FI  324 (429)
T ss_pred             EE
Confidence            44

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.40  E-value=7.3e-07  Score=98.32  Aligned_cols=127  Identities=22%  Similarity=0.308  Sum_probs=85.5

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      .|+..- ||+.|+|||||+|+|.+.+ .+-++.-+|.|..+-...+.|.+..+.|. .-..+.--+.|         +..
T Consensus       216 ~G~kvvIiG~PNvGKSSLLNaL~~~d-~AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRet~d~V---------E~i  285 (454)
T COG0486         216 EGLKVVIIGRPNVGKSSLLNALLGRD-RAIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRETDDVV---------ERI  285 (454)
T ss_pred             cCceEEEECCCCCcHHHHHHHHhcCC-ceEecCCCCCccceEEEEEEECCEEEEEEecCCcccCccHH---------HHH
Confidence            577666 9999999999999999986 44467778888888777777776555554 11111111111         111


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQK  245 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~  245 (650)
                      .+.|..+.+.  .-+++||++..+. .+...|...+..+....+++.|++|+|..++.....
T Consensus       286 GIeRs~~~i~--~ADlvL~v~D~~~-~~~~~d~~~~~~~~~~~~~i~v~NK~DL~~~~~~~~  344 (454)
T COG0486         286 GIERAKKAIE--EADLVLFVLDASQ-PLDKEDLALIELLPKKKPIIVVLNKADLVSKIELES  344 (454)
T ss_pred             HHHHHHHHHH--hCCEEEEEEeCCC-CCchhhHHHHHhcccCCCEEEEEechhcccccccch
Confidence            2222211111  2358999999874 478889888887777889999999999998876443

>cd00880 Era_like Era (E

Probab=98.35  E-value=6.8e-06  Score=74.93  Aligned_cols=68  Identities=9%  Similarity=0.091  Sum_probs=42.0

Q ss_pred             eeEEEEEEcCCCCCCCcchHH-HHHHhccCCCeeeeeecccCCCHHHHHHHHHH-HHHHHHHCCCcEEeCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLV-CMKKLDSKVNIIPIIAKADTISKSELQKFKTN-IMTELTSNGVHIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~-~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~-I~~~L~~~~I~if~f~  265 (650)
                      .|+++|++.++. .....+.. ++.......+++.|++|+|.+...+.....+. ........++.+|...
T Consensus        76 ~d~il~v~~~~~-~~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  145 (163)
T cd00880          76 ADLILFVVDADL-RADEEEEKLLELLRERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVS  145 (163)
T ss_pred             CCEEEEEEeCCC-CCCHHHHHHHHHHHhcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEe
Confidence            578899998763 34444444 44444567899999999999988776655431 1112222455565543

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.34  E-value=2.2e-06  Score=94.69  Aligned_cols=115  Identities=21%  Similarity=0.152  Sum_probs=69.0

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhH----HHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSF----KSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w----~~Ii~yI~~qf~~yL~eE~  183 (650)
                      .+ ||++|||||||+|.|++... +..+..++-|.......+.+.+..+.|. ...+    ..+...+..+...++.   
T Consensus         3 ~i-vG~~nvGKStL~n~l~~~~~-~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~---   77 (429)
T TIGR03594         3 AI-VGRPNVGKSTLFNRLTGKRD-AIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIE---   77 (429)
T ss_pred             EE-ECCCCCCHHHHHHHHhCCCc-ceecCCCCcccCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHh---
Confidence            45 99999999999999999763 2233334444332222222222222222 1111    1122222222222221   


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                                  ..|+++|++... .++...|..+.++|.. ..++|.|++|+|.....
T Consensus        78 ------------~ad~vl~vvD~~-~~~~~~d~~i~~~l~~~~~piilVvNK~D~~~~~  123 (429)
T TIGR03594        78 ------------EADVILFVVDGR-EGLTPEDEEIAKWLRKSGKPVILVANKIDGKKED  123 (429)
T ss_pred             ------------hCCEEEEEEeCC-CCCCHHHHHHHHHHHHhCCCEEEEEECccCCccc
Confidence                        247888998865 5789999999999974 67999999999987543

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=98.33  E-value=2.2e-06  Score=81.42  Aligned_cols=20  Identities=35%  Similarity=0.381  Sum_probs=18.6

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|+|||||||.|.+.+.
T Consensus         2 iG~~~~GKStll~~l~~~~~   21 (176)
T cd01881           2 VGLPNVGKSTLLNALTNAKP   21 (176)
T ss_pred             CCCCCCcHHHHHHHHhcCCc
Confidence            79999999999999999865

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.32  E-value=2.2e-06  Score=94.34  Aligned_cols=115  Identities=18%  Similarity=0.196  Sum_probs=71.8

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEE-------EEEEEEEe-eCCceeecchhHHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVK-------LKAHTYEL-QENNVKLKEDSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~-------I~~~~~~l-~e~g~~L~~~~w~~Ii~yI~~qf~~y  178 (650)
                      -++. |||.|||||||+|.|+++... -++..||-|..       +....|.+ +..|+....  -.++..-|..|-..-
T Consensus         5 ~VAI-VGRPNVGKSTLFNRL~g~r~A-IV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~--~~~l~~~i~~Qa~~A   80 (444)
T COG1160           5 VVAI-VGRPNVGKSTLFNRLTGRRIA-IVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGD--EDELQELIREQALIA   80 (444)
T ss_pred             EEEE-ECCCCCcHHHHHHHHhCCeee-EeecCCCCccCCccceeEEcCceEEEEECCCCCcCC--chHHHHHHHHHHHHH
Confidence            4566 999999999999999998643 33444444432       22223332 233333221  123333333442222


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC-CCeeeeeecccCCCHH
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK-VNIIPIIAKADTISKS  241 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~-vnvIPVItKAD~Lt~~  241 (650)
                      +.+               -+|.||++. ...|+++.|.++.++|... .++|.|++|+|....+
T Consensus        81 i~e---------------ADvilfvVD-~~~Git~~D~~ia~~Lr~~~kpviLvvNK~D~~~~e  128 (444)
T COG1160          81 IEE---------------ADVILFVVD-GREGITPADEEIAKILRRSKKPVILVVNKIDNLKAE  128 (444)
T ss_pred             HHh---------------CCEEEEEEe-CCCCCCHHHHHHHHHHHhcCCCEEEEEEcccCchhh
Confidence            211               256677665 4578999999999999865 7999999999998443

>cd01889 SelB_euk SelB subfamily

Probab=98.31  E-value=8.8e-06  Score=80.00  Aligned_cols=150  Identities=14%  Similarity=0.201  Sum_probs=82.1

Q ss_pred             cCCCCCChhhHhhhhhCcCC---CCC--CCCCCCCcEEEEEEEEEee------------CCceeec---chhHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSF---EST--PSPHSLPSVKLKAHTYELQ------------ENNVKLK---EDSFKSIVDYI  171 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~---~~~--~s~~~~~T~~I~~~~~~l~------------e~g~~L~---~~~w~~Ii~yI  171 (650)
                      +|.+|+|||||||.|++...   ...  ....++.|..+....+.+.            ..++.+.   ......+.   
T Consensus         6 ~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~---   82 (192)
T cd01889           6 LGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLI---   82 (192)
T ss_pred             EecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHH---
Confidence            99999999999999997421   111  1122344555544444443            1122322   11111111   


Q ss_pred             HHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHH
Q psy8479         172 DNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNI  250 (650)
Q Consensus       172 ~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I  250 (650)
                          ..|+..    .+        ..+++++++..+ .+++..+.+++..+. ...+++.|++|.|.++..+.....+.+
T Consensus        83 ----~~~~~~----~~--------~~d~vi~VvD~~-~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~  145 (192)
T cd01889          83 ----RTIIGG----AQ--------IIDLMLLVVDAT-KGIQTQTAECLVIGEILCKKLIVVLNKIDLIPEEERERKIEKM  145 (192)
T ss_pred             ----HHHHHH----Hh--------hCCEEEEEEECC-CCccHHHHHHHHHHHHcCCCEEEEEECcccCCHHHHHHHHHHH
Confidence                122211    01        145788888764 456555554444433 256999999999999877766555555


Q ss_pred             HHHHH-------HCCCcEEeCCC-CchhHHHHHHHhhhc
Q psy8479         251 MTELT-------SNGVHIYEFPT-DDETMSDVNAAMTIF  281 (650)
Q Consensus       251 ~~~L~-------~~~I~if~f~~-d~~~~~~~~~~~~~~  281 (650)
                      ++.+.       ..++.++.... ..+...++...+...
T Consensus       146 ~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~  184 (192)
T cd01889         146 KKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNL  184 (192)
T ss_pred             HHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhc
Confidence            55433       23566776653 233455555556555

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

>cd00154 Rab Rab family

Probab=98.31  E-value=3e-06  Score=78.05  Aligned_cols=127  Identities=23%  Similarity=0.360  Sum_probs=67.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||+|.|++.+.........+  ..+....+.+....+.+.      ...|..+.       ..++      
T Consensus         6 ~G~~~~GKStl~~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~-------~~~~------   70 (159)
T cd00154           6 IGDSGVGKTSLLLRFVDGKFDENYKSTIG--VDFKSKTIEIDGKTVKLQIWDTAGQERFRSIT-------PSYY------   70 (159)
T ss_pred             ECCCCCCHHHHHHHHHhCcCCCccCCcee--eeeEEEEEEECCEEEEEEEEecCChHHHHHHH-------HHHh------
Confidence            99999999999999998876554222211  122222233332223332      11122111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                             .  .+++++|++.++... +..+.. ++..+.    ...+++.|++|+|..++.+.  ....+++.+..++..
T Consensus        71 -------~--~~d~ii~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~  138 (159)
T cd00154          71 -------R--GAHGAILVYDITNRESFENLDK-WLKELKEYAPENIPIILVGNKIDLEDQRQV--STEEAQQFAKENGLL  138 (159)
T ss_pred             -------c--CCCEEEEEEECCCHHHHHHHHH-HHHHHHHhCCCCCcEEEEEEcccccccccc--cHHHHHHHHHHcCCe
Confidence                   1  257889999876422 222222 333332    24799999999999733321  223344444456667


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       139 ~~~~s  143 (159)
T cd00154         139 FFETS  143 (159)
T ss_pred             EEEEe
Confidence            77664

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=98.29  E-value=4.3e-06  Score=94.16  Aligned_cols=140  Identities=13%  Similarity=0.114  Sum_probs=78.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHH---HHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFK---SIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~---~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|++|+|||||||.|++.... .++..++.|.......+.+.+..+.|. .....   ..... .+.| ..+.....   
T Consensus       217 iG~~nvGKSSLin~l~~~~~~-~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~~~~~~~~~-~e~~-~~~~~~~~---  290 (472)
T PRK03003        217 VGKPNVGKSSLLNKLAGEERS-VVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLRRRVKQASG-HEYY-ASLRTHAA---  290 (472)
T ss_pred             ECCCCCCHHHHHHHHhCCCcc-cccCCCCccCCcceEEEEECCEEEEEEECCCccccccccch-HHHH-HHHHHHHH---
Confidence            999999999999999997642 233334444322222233333223332 11100   00000 0011 00111000   


Q ss_pred             cccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC-CCcEEeC
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSN-GVHIYEF  264 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~-~I~if~f  264 (650)
                          +  .+.|+|++++..+ .++...|+.++..+. ...++|.|++|+|.........+++.+.+.+... ..+++..
T Consensus       291 ----i--~~ad~vilV~Da~-~~~s~~~~~~~~~~~~~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~  362 (472)
T PRK03003        291 ----I--EAAEVAVVLIDAS-EPISEQDQRVLSMVIEAGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNI  362 (472)
T ss_pred             ----H--hcCCEEEEEEeCC-CCCCHHHHHHHHHHHHcCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEE
Confidence                1  1468999999876 567888888888776 4679999999999987655555555665555432 2344433

>PRK04213 GTP-binding protein; Provisional

Probab=98.28  E-value=8e-06  Score=80.45  Aligned_cols=120  Identities=16%  Similarity=0.222  Sum_probs=60.9

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhH---HHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSF---KSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w---~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +.+ +|.+|+|||||||.|++....  .+..++.|....  .+.+.  ++.+. ...+   ..+-....++|...+....
T Consensus        12 i~i-~G~~~~GKSsLin~l~~~~~~--~~~~~~~t~~~~--~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   84 (201)
T PRK04213         12 IVF-VGRSNVGKSTLVRELTGKKVR--VGKRPGVTRKPN--HYDWG--DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYI   84 (201)
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCCc--cCCCCceeeCce--EEeec--ceEEEeCCccccccccCHHHHHHHHHHHHHHH
Confidence            445 999999999999999987632  223333333221  12111  22221 0110   0000001122222111110


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCC----------CCCcchHHHHHHhc-cCCCeeeeeecccCCCHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGH----------GLKSLDLVCMKKLD-SKVNIIPIIAKADTISKS  241 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h----------~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~  241 (650)
                        .+.     =..+++|++++.++..          +..+.|.++.+.+. ..++++.|++|+|.....
T Consensus        85 --~~~-----~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~~  146 (201)
T PRK04213         85 --EDN-----ADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMDKIKNR  146 (201)
T ss_pred             --Hhh-----hhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEECccccCcH
Confidence              000     1235678888877532          12334566677765 468999999999986544

>PRK15494 era GTPase Era; Provisional

Probab=98.28  E-value=1.1e-05  Score=87.36  Aligned_cols=111  Identities=17%  Similarity=0.184  Sum_probs=62.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-c----hhHHHHHHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-E----DSFKSIVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~----~~w~~Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      ||++|+|||||||.|.+.++.. .+..+..|.......+.+.+..+.+. .    .....+...+......         
T Consensus        58 vG~~nvGKSTLin~l~~~k~~i-vs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~---------  127 (339)
T PRK15494         58 IGRPNSGKSTLLNRIIGEKLSI-VTPKVQTTRSIITGIITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWS---------  127 (339)
T ss_pred             EcCCCCCHHHHHHHHhCCceee-ccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCCcccHHHHHHHHHHH---------
Confidence            9999999999999999987642 33333334332222222222222221 1    1111121111111000         


Q ss_pred             hcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCC
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTIS  239 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt  239 (650)
                          .+  ...++++|++.. ..++...+..+++.+.. ..++|.|++|+|...
T Consensus       128 ----~l--~~aDvil~VvD~-~~s~~~~~~~il~~l~~~~~p~IlViNKiDl~~  174 (339)
T PRK15494        128 ----SL--HSADLVLLIIDS-LKSFDDITHNILDKLRSLNIVPIFLLNKIDIES  174 (339)
T ss_pred             ----Hh--hhCCEEEEEEEC-CCCCCHHHHHHHHHHHhcCCCEEEEEEhhcCcc
Confidence                01  125788888874 35777887777877764 457888999999754

>cd01860 Rab5_related Rab5-related subfamily

Probab=98.27  E-value=6.3e-06  Score=77.60  Aligned_cols=134  Identities=15%  Similarity=0.203  Sum_probs=65.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNT  191 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~  191 (650)
                      +|.+|+|||||||+|++.++......+.+.+  +....+.+...++.+.  -|..-=   ...|....       +.  .
T Consensus         7 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~--~~~~~v~~~~~~~~~~--i~D~~G---~~~~~~~~-------~~--~   70 (163)
T cd01860           7 LGDSSVGKSSLVLRFVKNEFSENQESTIGAA--FLTQTVNLDDTTVKFE--IWDTAG---QERYRSLA-------PM--Y   70 (163)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCcccee--EEEEEEEECCEEEEEE--EEeCCc---hHHHHHHH-------HH--H
Confidence            9999999999999999988665322222221  1112333333333333  010000   00111100       00  0


Q ss_pred             cCCceeeEEEEEEcCCCCC-CCcch--HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         192 YHDNRIHVCLYFICPTGHG-LKSLD--LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       192 ~~D~RVH~cLYfI~ps~h~-Lk~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      +.  ..|++++++.++... +....  +..++... ..+++++|++|+|..+..+  .....+.+.....++.++...
T Consensus        71 ~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~S  144 (163)
T cd01860          71 YR--GAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQ--VSTEEAQEYADENGLLFFETS  144 (163)
T ss_pred             hc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCc--CCHHHHHHHHHHcCCEEEEEE
Confidence            11  247899999875321 21111  12222222 3568999999999774321  111122333445566676654

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

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.27  E-value=5.7e-06  Score=91.95  Aligned_cols=109  Identities=17%  Similarity=0.093  Sum_probs=62.1

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee-CCceeec--------chhHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ-ENNVKLK--------EDSFKSIVDYIDNQFEA  177 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~-e~g~~L~--------~~~w~~Ii~yI~~qf~~  177 (650)
                      .+.| ||.+|+|||||||+|.+.+.  +.+..+..|+..+...+.+. +..+.+.        ...|..+.       ..
T Consensus       160 dVgl-VG~pNaGKSTLLn~Lt~ak~--kIa~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg-------~~  229 (424)
T PRK12297        160 DVGL-VGFPNVGKSTLLSVVSNAKP--KIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLG-------HQ  229 (424)
T ss_pred             cEEE-EcCCCCCHHHHHHHHHcCCC--ccccCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHH-------HH
Confidence            4556 99999999999999998752  22333444554433333333 2233332        11233332       12


Q ss_pred             HHHHHHhhhhcccccCCceeeEEEEEEcCCCC---CCCcchHHHHHHhcc------CCCeeeeeecccC
Q psy8479         178 YLQEELKIKRSLNTYHDNRIHVCLYFICPTGH---GLKSLDLVCMKKLDS------KVNIIPIIAKADT  237 (650)
Q Consensus       178 yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h---~Lk~lDI~~mk~L~~------~vnvIPVItKAD~  237 (650)
                      ||..   +         .|.++++|+|..+..   .+......++++|..      ..++|.|++|+|.
T Consensus       230 fLrh---i---------er~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL  286 (424)
T PRK12297        230 FLRH---I---------ERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDL  286 (424)
T ss_pred             HHHH---H---------hhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCC
Confidence            3322   1         145789999987643   222222344555542      4599999999995

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.27  E-value=1.4e-06  Score=82.52  Aligned_cols=109  Identities=21%  Similarity=0.264  Sum_probs=56.8

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC--CCCCCCCCcEEEEEEEEEeeCCceeec---c-hhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES--TPSPHSLPSVKLKAHTYELQENNVKLK---E-DSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~--~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .| +|.+|+|||||||.|++.....  .......+|+.+....+.+.+..+.+.   + ..+..+.       ..|+   
T Consensus         3 ~~-vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------~~~~---   71 (167)
T cd04160           3 LI-LGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQESLRSLW-------DKYY---   71 (167)
T ss_pred             EE-EecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEECCEEEEEEECCCChhhHHHH-------HHHh---
Confidence            45 9999999999999998753211  112223344444443444432112221   1 1111111       1111   


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                                  .+.|+++|++..+... +......+.+.++    ..++++.|++|+|....
T Consensus        72 ------------~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~  122 (167)
T cd04160          72 ------------AECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA  122 (167)
T ss_pred             ------------CCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC
Confidence                        1356899998865422 2222222222222    36799999999997654

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.24  E-value=5.3e-06  Score=91.99  Aligned_cols=114  Identities=19%  Similarity=0.142  Sum_probs=68.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHH----HHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKS----IVDYIDNQFEAYLQEE  182 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~----Ii~yI~~qf~~yL~eE  182 (650)
                      +.+ ||++|||||||+|.|++.... ..+..++-|.......+.+.+..+.+. ...+..    +...+..+...++.  
T Consensus         4 I~i-vG~~~vGKStL~n~l~~~~~~-~v~~~~~~t~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~--   79 (435)
T PRK00093          4 VAI-VGRPNVGKSTLFNRLTGKRDA-IVADTPGVTRDRIYGEAEWLGREFILIDTGGIEPDDDGFEKQIREQAELAIE--   79 (435)
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCce-eeCCCCCCcccceEEEEEECCcEEEEEECCCCCCcchhHHHHHHHHHHHHHH--
Confidence            456 999999999999999987642 223334444333322333332222222 111111    22223333222221  


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTIS  239 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt  239 (650)
                                   ..++++|++.++ .++...|..++++|.. ..++|.|++|+|...
T Consensus        80 -------------~ad~il~vvd~~-~~~~~~~~~~~~~l~~~~~piilv~NK~D~~~  123 (435)
T PRK00093         80 -------------EADVILFVVDGR-AGLTPADEEIAKILRKSNKPVILVVNKVDGPD  123 (435)
T ss_pred             -------------hCCEEEEEEECC-CCCCHHHHHHHHHHHHcCCcEEEEEECccCcc
Confidence                         247899999865 5788889888888875 679999999999543

>cd04159 Arl10_like Arl10-like subfamily

Probab=98.23  E-value=3.9e-06  Score=77.44  Aligned_cols=25  Identities=20%  Similarity=0.244  Sum_probs=21.4

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +.+ +|.+|+|||||+|.|++.++..
T Consensus         2 i~i-~G~~~~GKssl~~~l~~~~~~~   26 (159)
T cd04159           2 ITL-VGLQNSGKTTLVNVIAGGQFSE   26 (159)
T ss_pred             EEE-EcCCCCCHHHHHHHHccCCCCc
Confidence            456 9999999999999999986644

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.

>cd04123 Rab21 Rab21 subfamily

Probab=98.23  E-value=5.6e-06  Score=77.27  Aligned_cols=128  Identities=13%  Similarity=0.190  Sum_probs=64.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+........  +..+....+.+.+..+.+.     + ..|..+.       ..|       
T Consensus         6 ~G~~~~GKStli~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~-------~~~-------   69 (162)
T cd04123           6 LGEGRVGKTSLVLRYVENKFNEKHESTT--QASFFQKTVNIGGKRIDLAIWDTAGQERYHALG-------PIY-------   69 (162)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCcCCcc--ceeEEEEEEEECCEEEEEEEEECCchHHHHHhh-------HHH-------
Confidence            9999999999999999876543211111  1122222233333333332     1 1122111       111       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchH---HHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDL---VCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI---~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                            +.  .+|+++|++..+.. .+..+..   ++.+.+...++++.|++|+|........  .+.+.+.....+..+
T Consensus        70 ------~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~  139 (162)
T cd04123          70 ------YR--DADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVS--KSEAEEYAKSVGAKH  139 (162)
T ss_pred             ------hc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCC--HHHHHHHHHHcCCEE
Confidence                  11  24788888876432 2222211   1122222357999999999987432211  122333344456666


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       140 ~~~s  143 (162)
T cd04123         140 FETS  143 (162)
T ss_pred             EEEe
Confidence            6554

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.22  E-value=6.7e-06  Score=97.11  Aligned_cols=132  Identities=14%  Similarity=0.186  Sum_probs=75.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhH----HHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSF----KSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w----~~Ii~yI~~qf~~yL~eE  182 (650)
                      +.+ +|++|+|||||||+|++.+... ++..++.|.......+.+.+..+.|. ...+    ....   ...+...+...
T Consensus       453 I~i-vG~~nvGKSSLin~l~~~~~~~-v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~~~~~~~~---~~e~~~~~r~~  527 (712)
T PRK09518        453 VAL-VGRPNVGKSSLLNQLTHEERAV-VNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIKRRQHKLT---GAEYYSSLRTQ  527 (712)
T ss_pred             EEE-ECCCCCCHHHHHHHHhCccccc-cCCCCCCCcCcceeEEEECCCEEEEEECCCcccCcccch---hHHHHHHHHHH
Confidence            444 9999999999999999986421 23334434333222333333333332 1110    0000   00011111111


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTEL  254 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L  254 (650)
                      ..+         .+.|+|++++..+ .++...|+.++..+. ..+++|.|++|.|.+.......+++.+...+
T Consensus       528 ~~i---------~~advvilViDat-~~~s~~~~~i~~~~~~~~~piIiV~NK~DL~~~~~~~~~~~~~~~~l  590 (712)
T PRK09518        528 AAI---------ERSELALFLFDAS-QPISEQDLKVMSMAVDAGRALVLVFNKWDLMDEFRRQRLERLWKTEF  590 (712)
T ss_pred             HHh---------hcCCEEEEEEECC-CCCCHHHHHHHHHHHHcCCCEEEEEEchhcCChhHHHHHHHHHHHhc
Confidence            111         2357899998865 578888888887775 4679999999999987665555555554433

>cd01861 Rab6 Rab6 subfamily

Probab=98.21  E-value=5.3e-06  Score=77.97  Aligned_cols=127  Identities=15%  Similarity=0.277  Sum_probs=65.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|++|+|||||||+|++.+.....  .+..+..+....+.+.+..+.+.      ...+..++       ..|       
T Consensus         6 iG~~~~GKSsli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~-------~~~-------   69 (161)
T cd01861           6 LGDQSVGKTSIITRFMYDTFDNQY--QATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLI-------PSY-------   69 (161)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCccC--CCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHH-------HHH-------
Confidence            999999999999999998765432  22222233222333332222332      11111111       011       


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                            +  ...|+++|++..+. ..+..++ .++..+.    ..++++.|++|+|.....+...  ..+.......++.
T Consensus        70 ------~--~~~~~ii~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~--~~~~~~~~~~~~~  138 (161)
T cd01861          70 ------I--RDSSVAVVVYDITNRQSFDNTD-KWIDDVRDERGNDVIIVLVGNKTDLSDKRQVST--EEGEKKAKELNAM  138 (161)
T ss_pred             ------h--ccCCEEEEEEECcCHHHHHHHH-HHHHHHHHhCCCCCEEEEEEEChhccccCccCH--HHHHHHHHHhCCE
Confidence                  1  12468888887643 2344443 2233332    2378999999999964332211  1222223344666


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       139 ~~~~S  143 (161)
T cd01861         139 FIETS  143 (161)
T ss_pred             EEEEe
Confidence            66554

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

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.20  E-value=1.3e-05  Score=92.15  Aligned_cols=114  Identities=18%  Similarity=0.233  Sum_probs=64.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHH------HHHHHHHHHHHHHHHHHh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKS------IVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~------Ii~yI~~qf~~yL~eE~~  184 (650)
                      ||++|+|||||||+|++.+...... ....|..+......+.+..+.+. .-.|..      ....|......||     
T Consensus       124 VGKTGVGKSSLINSILGekvf~vss-~~~~TTr~~ei~~~idG~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~L-----  197 (763)
T TIGR00993       124 LGKSGVGKSATINSIFGEVKFSTDA-FGMGTTSVQEIEGLVQGVKIRVIDTPGLKSSASDQSKNEKILSSVKKFI-----  197 (763)
T ss_pred             ECCCCCCHHHHHHHHhccccccccC-CCCCceEEEEEEEEECCceEEEEECCCCCccccchHHHHHHHHHHHHHH-----
Confidence            9999999999999999987655432 22234333222222222223332 111211      1111111111111     


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCC------CeeeeeecccCCC
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKV------NIIPIIAKADTIS  239 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~v------nvIPVItKAD~Lt  239 (650)
                              ....+|++||++.-........|..+++.|...+      ++|+|+|.+|.+-
T Consensus       198 --------sk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       198 --------KKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             --------hcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence                    1224799999986543334345777888876422      9999999999984

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.20  E-value=9.2e-06  Score=91.49  Aligned_cols=114  Identities=16%  Similarity=0.146  Sum_probs=69.5

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhH----HHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSF----KSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w----~~Ii~yI~~qf~~yL~eE  182 (650)
                      +.+ ||++|||||||+|.|++.... ..+..++-|.......+.+.+..+.|. ..++    ..+...+..+...|+.  
T Consensus        41 V~I-vG~~nvGKSSL~nrl~~~~~~-~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~--  116 (472)
T PRK03003         41 VAV-VGRPNVGKSTLVNRILGRREA-VVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMR--  116 (472)
T ss_pred             EEE-EcCCCCCHHHHHHHHhCcCcc-cccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHH--
Confidence            456 999999999999999987542 234455555544333333322223222 1122    1222223333222221  


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTIS  239 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt  239 (650)
                                   ..|++|+++..+ .++...|..++++|.. ..++|.|++|+|...
T Consensus       117 -------------~aD~il~VvD~~-~~~s~~~~~i~~~l~~~~~piilV~NK~Dl~~  160 (472)
T PRK03003        117 -------------TADAVLFVVDAT-VGATATDEAVARVLRRSGKPVILAANKVDDER  160 (472)
T ss_pred             -------------hCCEEEEEEECC-CCCCHHHHHHHHHHHHcCCCEEEEEECccCCc
Confidence                         146888888865 4577778888888874 679999999999753

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.20  E-value=2.5e-06  Score=93.97  Aligned_cols=132  Identities=18%  Similarity=0.221  Sum_probs=85.2

Q ss_pred             ceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec--------chhHHHHHHHHHHHHHHH
Q psy8479         108 KAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK--------EDSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       108 ~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~--------~~~w~~Ii~yI~~qf~~y  178 (650)
                      +.+. +|+.|+|||||||+|.+..-.- ++..+|-|..-....++..+..+.|.        ..-...+..         
T Consensus       179 ikiaiiGrPNvGKSsLiN~ilgeeR~I-v~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~---------  248 (444)
T COG1160         179 IKIAIIGRPNVGKSSLINAILGEERVI-VSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEK---------  248 (444)
T ss_pred             eEEEEEeCCCCCchHHHHHhccCceEE-ecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEE---------
Confidence            4455 9999999999999999975321 34444444432222333333333332        111111110         


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC-CCeeeeeecccCCCH--HHHHHHHHHHHHHHH
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK-VNIIPIIAKADTISK--SELQKFKTNIMTELT  255 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~-vnvIPVItKAD~Lt~--~El~~~K~~I~~~L~  255 (650)
                          ..+.|.+  .-..|.++|+++|..+ .++.+.|..+...+.+. -.++.|++|.|.+..  ..+..+++.|+..|.
T Consensus       249 ----~Sv~rt~--~aI~~a~vvllviDa~-~~~~~qD~~ia~~i~~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~  321 (444)
T COG1160         249 ----YSVARTL--KAIERADVVLLVIDAT-EGISEQDLRIAGLIEEAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLP  321 (444)
T ss_pred             ----EeehhhH--hHHhhcCEEEEEEECC-CCchHHHHHHHHHHHHcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhc
Confidence                1122221  2234567899999875 78999999999999864 499999999999987  678888888888775


Q ss_pred             H
Q psy8479         256 S  256 (650)
Q Consensus       256 ~  256 (650)
                      .
T Consensus       322 ~  322 (444)
T COG1160         322 F  322 (444)
T ss_pred             c
Confidence            5

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=98.18  E-value=4.1e-06  Score=78.73  Aligned_cols=112  Identities=13%  Similarity=0.227  Sum_probs=58.8

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHh
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~  184 (650)
                      .+ +|.+|+|||||||.|++..... .    ..|..++...+.+....+.+.    ...+..+       +..|+     
T Consensus         3 ~i-iG~~~~GKssli~~~~~~~~~~-~----~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~~~~-----   64 (158)
T cd00878           3 LI-LGLDGAGKTTILYKLKLGEVVT-T----IPTIGFNVETVEYKNVSFTVWDVGGQDKIRPL-------WKHYY-----   64 (158)
T ss_pred             EE-EcCCCCCHHHHHHHHhcCCCCC-C----CCCcCcceEEEEECCEEEEEEECCCChhhHHH-------HHHHh-----
Confidence            45 8999999999999999987322 1    122222222233222112221    1111111       11111     


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHH
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKT  248 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~  248 (650)
                              .  ..||++|++.++.. .+....-.+.+.+.    ...+++.|.+|+|...........+
T Consensus        65 --------~--~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~  123 (158)
T cd00878          65 --------E--NTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIE  123 (158)
T ss_pred             --------c--cCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHH
Confidence                    1  24899999988643 23333222222222    3569999999999887553333333

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=98.16  E-value=6.5e-06  Score=77.45  Aligned_cols=129  Identities=14%  Similarity=0.318  Sum_probs=65.3

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee--CCceeec------chhHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ--ENNVKLK------EDSFKSIVDYIDNQFEAYLQ  180 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~--e~g~~L~------~~~w~~Ii~yI~~qf~~yL~  180 (650)
                      .+ +|.+|+|||||||.|++..+.....++.  ...+....+.+.  ..++.+.      ...|..+.       ..|  
T Consensus         4 ~~-vG~~~~GKTsl~~~~~~~~~~~~~~~t~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-------~~~--   71 (162)
T cd04106           4 IV-VGNGNVGKSSMIQRFVKGIFTKDYKKTI--GVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAIT-------KAY--   71 (162)
T ss_pred             EE-ECCCCCCHHHHHHHHhcCCCCCCCCCcE--EEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhH-------HHH--
Confidence            45 9999999999999999876543211111  122222334444  3334443      11222221       111  


Q ss_pred             HHHhhhhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHh---ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         181 EELKIKRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKL---DSKVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       181 eE~~i~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L---~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                                 +..  .|++++++..+. ..+..+. .++..+   ...+|+|.|++|+|.....+...  ..+......
T Consensus        72 -----------~~~--~~~~v~v~d~~~~~s~~~l~-~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~v~~--~~~~~~~~~  135 (162)
T cd04106          72 -----------YRG--AQACILVFSTTDRESFEAIE-SWKEKVEAECGDIPMVLVQTKIDLLDQAVITN--EEAEALAKR  135 (162)
T ss_pred             -----------hcC--CCEEEEEEECCCHHHHHHHH-HHHHHHHHhCCCCCEEEEEEChhcccccCCCH--HHHHHHHHH
Confidence                       112  356666665432 2222221 122222   24679999999999876443221  222333344


Q ss_pred             CCCcEEeCC
Q psy8479         257 NGVHIYEFP  265 (650)
Q Consensus       257 ~~I~if~f~  265 (650)
                      .++++|...
T Consensus       136 ~~~~~~~~S  144 (162)
T cd04106         136 LQLPLFRTS  144 (162)
T ss_pred             cCCeEEEEE
Confidence            567777665

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.15  E-value=1.1e-05  Score=95.24  Aligned_cols=115  Identities=17%  Similarity=0.154  Sum_probs=70.1

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHH----HHHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFK----SIVDYIDNQFEAYLQE  181 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~----~Ii~yI~~qf~~yL~e  181 (650)
                      -+.+ +|++|||||||+|.|++... +..+..++-|.........+.+..+.|. ..+|.    .+...+..|...|+. 
T Consensus       277 ~V~I-vG~~nvGKSSL~n~l~~~~~-~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~-  353 (712)
T PRK09518        277 VVAI-VGRPNVGKSTLVNRILGRRE-AVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVS-  353 (712)
T ss_pred             EEEE-ECCCCCCHHHHHHHHhCCCc-eeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHH-
Confidence            3566 99999999999999998753 2233445555433222222222222222 11111    122222333222221 


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                                    ..|++||++..+ .++.+.|..+++.|. ...++|.|++|+|...
T Consensus       354 --------------~aD~iL~VvDa~-~~~~~~d~~i~~~Lr~~~~pvIlV~NK~D~~~  397 (712)
T PRK09518        354 --------------LADAVVFVVDGQ-VGLTSTDERIVRMLRRAGKPVVLAVNKIDDQA  397 (712)
T ss_pred             --------------hCCEEEEEEECC-CCCCHHHHHHHHHHHhcCCCEEEEEECccccc
Confidence                          247888888864 678899988888886 4679999999999754

>cd04118 Rab24 Rab24 subfamily

Probab=98.14  E-value=6.8e-06  Score=80.34  Aligned_cols=130  Identities=14%  Similarity=0.129  Sum_probs=66.1

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC-CCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES-TPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~-~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      .+ +|.+|+|||||||.|++..+.. ...++.+.+  +....+.+.+..+.|.     . ..+..+.             
T Consensus         4 ~v-vG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~-------------   67 (193)
T cd04118           4 VM-LGKESVGKTSLVERYVHHRFLVGPYQNTIGAA--FVAKRMVVGERVVTLGIWDTAGSERYEAMS-------------   67 (193)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCcCCcCcccceeeE--EEEEEEEECCEEEEEEEEECCCchhhhhhh-------------
Confidence            45 9999999999999999876543 111122211  1112233433333332     1 1111111             


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcch--HHHHHHhc---cCCCeeeeeecccCCCHHHH-HH-HHHHHHHHH
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLD--LVCMKKLD---SKVNIIPIIAKADTISKSEL-QK-FKTNIMTEL  254 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lD--I~~mk~L~---~~vnvIPVItKAD~Lt~~El-~~-~K~~I~~~L  254 (650)
                           +.    .-...|+++|++..+.  ...++  ..+++.+.   ..+++|.|++|+|.....+. .. ....+.+..
T Consensus        68 -----~~----~~~~~d~iilv~d~~~--~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~  136 (193)
T cd04118          68 -----RI----YYRGAKAAIVCYDLTD--SSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFA  136 (193)
T ss_pred             -----Hh----hcCCCCEEEEEEECCC--HHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccccccccCccCHHHHHHHH
Confidence                 11    1123578888887543  22221  22344433   35799999999997643311 11 112233333


Q ss_pred             HHCCCcEEeCC
Q psy8479         255 TSNGVHIYEFP  265 (650)
Q Consensus       255 ~~~~I~if~f~  265 (650)
                      ...++.+|...
T Consensus       137 ~~~~~~~~~~S  147 (193)
T cd04118         137 DEIKAQHFETS  147 (193)
T ss_pred             HHcCCeEEEEe
Confidence            45567777664

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=98.14  E-value=1.3e-05  Score=74.73  Aligned_cols=24  Identities=29%  Similarity=0.369  Sum_probs=20.6

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|+|||||||.|.+..+..
T Consensus         5 ~i-iG~~~vGKTsl~~~~~~~~~~~   28 (162)
T cd04138           5 VV-VGAGGVGKSALTIQLIQNHFVD   28 (162)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCCcC
Confidence            45 9999999999999999876544

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=98.14  E-value=1.2e-05  Score=87.44  Aligned_cols=116  Identities=17%  Similarity=0.277  Sum_probs=65.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeC-Cceeec-chhH-HHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQE-NNVKLK-EDSF-KSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e-~g~~L~-~~~w-~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      ||.+|+|||||+|+|++.+..  ++..++.|.......+.+.+ ..+.|. .-++ ..+...+.+.|...+..   + + 
T Consensus       195 vG~~NvGKSSLln~L~~~~~~--v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l~~~lie~f~~tle~---~-~-  267 (351)
T TIGR03156       195 VGYTNAGKSTLFNALTGADVY--AADQLFATLDPTTRRLDLPDGGEVLLTDTVGFIRDLPHELVAAFRATLEE---V-R-  267 (351)
T ss_pred             ECCCCCCHHHHHHHHhCCcee--eccCCccccCCEEEEEEeCCCceEEEEecCcccccCCHHHHHHHHHHHHH---H-H-
Confidence            999999999999999998643  22334444444444455532 222332 1111 22222233345444432   1 1 


Q ss_pred             ccccCCceeeEEEEEEcCCCCCCCcchH----HHHHHhcc-CCCeeeeeecccCCCHHH
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGLKSLDL----VCMKKLDS-KVNIIPIIAKADTISKSE  242 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~Lk~lDI----~~mk~L~~-~vnvIPVItKAD~Lt~~E  242 (650)
                             ..++++|++..+. .....++    .+++.+.. ..|+|.|++|+|.....+
T Consensus       268 -------~ADlil~VvD~s~-~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~  318 (351)
T TIGR03156       268 -------EADLLLHVVDASD-PDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR  318 (351)
T ss_pred             -------hCCEEEEEEECCC-CchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh
Confidence                   1357888887653 3333333    45666652 569999999999986544

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).

>cd01862 Rab7 Rab7 subfamily

Probab=98.13  E-value=1.3e-05  Score=75.98  Aligned_cols=131  Identities=16%  Similarity=0.214  Sum_probs=64.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|.+|+|||||||.|++.........+.+.  .+....+.+.+..+.+.   ..+-.   .|. .....|+         
T Consensus         6 iG~~~~GKSsl~~~l~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~~~~~~D~~g~~---~~~-~~~~~~~---------   70 (172)
T cd01862           6 LGDSGVGKTSLMNQYVNKKFSNQYKATIGA--DFLTKEVTVDDKLVTLQIWDTAGQE---RFQ-SLGVAFY---------   70 (172)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCcCcCCccce--EEEEEEEEECCEEEEEEEEeCCChH---HHH-hHHHHHh---------
Confidence            999999999999999997653322222221  22222334443334332   11100   000 0001111         


Q ss_pred             ccccCCceeeEEEEEEcCCCC-CCCcc---hHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC-C
Q psy8479         189 LNTYHDNRIHVCLYFICPTGH-GLKSL---DLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNG-V  259 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h-~Lk~l---DI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~-I  259 (650)
                            .++++++|++..+.. .+...   .-.+++.+.    ..+|++.|++|+|...+...  ....+...++..+ +
T Consensus        71 ------~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  142 (172)
T cd01862          71 ------RGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQV--STKKAQQWCQSNGNI  142 (172)
T ss_pred             ------cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccccccc--CHHHHHHHHHHcCCc
Confidence                  125789999876421 11111   112333333    26799999999999842211  1112222333444 5


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       143 ~~~~~S  148 (172)
T cd01862         143 PYFETS  148 (172)
T ss_pred             eEEEEE
Confidence            677654

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-

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.12  E-value=1.9e-05  Score=85.09  Aligned_cols=130  Identities=14%  Similarity=0.169  Sum_probs=67.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeC-Cceeec--------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQE-NNVKLK--------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e-~g~~L~--------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      ||.+|+|||||||+|.+.+..  .+..+..|+..+...+.+.+ ..+.+.        ...+..+.    .+   |++. 
T Consensus       163 vG~pnaGKSTLl~~lt~~~~~--va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~~gLg----~~---flrh-  232 (329)
T TIGR02729       163 VGLPNAGKSTLISAVSAAKPK--IADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLG----HR---FLKH-  232 (329)
T ss_pred             EcCCCCCHHHHHHHHhcCCcc--ccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccCCcccccHH----HH---HHHH-
Confidence            999999999999999986421  22222223222211222222 122222        11111222    12   2221 


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCC-Cc--chHHHHHHhcc------CCCeeeeeecccCCCHHHHHHHHHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGL-KS--LDLVCMKKLDS------KVNIIPIIAKADTISKSELQKFKTNIMTE  253 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~L-k~--lDI~~mk~L~~------~vnvIPVItKAD~Lt~~El~~~K~~I~~~  253 (650)
                        +         .|.++++|++..+.... .+  .-..++++|..      ..++|.|++|+|.+...+...+.+.+.+ 
T Consensus       233 --i---------erad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~~l~~-  300 (329)
T TIGR02729       233 --I---------ERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELKK-  300 (329)
T ss_pred             --H---------HhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHHHHHH-
Confidence              1         14568999998764311 11  11223444432      4589999999999887665444444432 


Q ss_pred             HHHCCCcEEeCC
Q psy8479         254 LTSNGVHIYEFP  265 (650)
Q Consensus       254 L~~~~I~if~f~  265 (650)
                        ..++.++...
T Consensus       301 --~~~~~vi~iS  310 (329)
T TIGR02729       301 --ALGKPVFPIS  310 (329)
T ss_pred             --HcCCcEEEEE
Confidence              2356666554

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.

>cd00157 Rho Rho (Ras homology) family

Probab=98.12  E-value=9.3e-06  Score=76.93  Aligned_cols=111  Identities=16%  Similarity=0.255  Sum_probs=58.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHH--HHHHHHHHHHHHHHHHHHhhhhcc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFK--SIVDYIDNQFEAYLQEELKIKRSL  189 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~--~Ii~yI~~qf~~yL~eE~~i~R~~  189 (650)
                      +|.+|+|||||||.|++.++.....+...   ......+.+....+.+.  -|.  ....|     .       ..... 
T Consensus         6 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~l~--~~D~~g~~~~-----~-------~~~~~-   67 (171)
T cd00157           6 VGDGAVGKTCLLISYTTGKFPTEYVPTVF---DNYSATVTVDGKQVNLG--LWDTAGQEEY-----D-------RLRPL-   67 (171)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCcee---eeeEEEEEECCEEEEEE--EEeCCCcccc-----c-------ccchh-
Confidence            99999999999999999876332111111   11111122222222222  010  00000     0       00000 


Q ss_pred             cccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc---cCCCeeeeeecccCCCHHHH
Q psy8479         190 NTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSEL  243 (650)
Q Consensus       190 ~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El  243 (650)
                       .+  .+.|+++|++.++. ..+......++..+.   ...|++.|++|+|.......
T Consensus        68 -~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~  122 (171)
T cd00157          68 -SY--PNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENT  122 (171)
T ss_pred             -hc--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhh
Confidence             11  24578999998764 334444444555554   24799999999998765543

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.12  E-value=1.4e-05  Score=74.01  Aligned_cols=100  Identities=12%  Similarity=0.080  Sum_probs=52.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +.+ +|.+|+|||||+|.|.+.....      .+|..+......++-.|.++.   +       ...|..++.    .. 
T Consensus         3 v~l-iG~~~vGKSsL~~~l~~~~~~~------~~t~~~~~~~~~iDt~G~~~~---~-------~~~~~~~~~----~~-   60 (142)
T TIGR02528         3 IMF-IGSVGCGKTTLTQALQGEEILY------KKTQAVEYNDGAIDTPGEYVE---N-------RRLYSALIV----TA-   60 (142)
T ss_pred             EEE-ECCCCCCHHHHHHHHcCCcccc------ccceeEEEcCeeecCchhhhh---h-------HHHHHHHHH----Hh-
Confidence            345 9999999999999999875421      123323211111222221110   0       011111111    11 


Q ss_pred             cccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCC
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTIS  239 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt  239 (650)
                             ...|++++++..+. +....+..++..+.  .++|.|++|+|...
T Consensus        61 -------~~ad~vilv~d~~~-~~s~~~~~~~~~~~--~p~ilv~NK~Dl~~  102 (142)
T TIGR02528        61 -------ADADVIALVQSATD-PESRFPPGFASIFV--KPVIGLVTKIDLAE  102 (142)
T ss_pred             -------hcCCEEEEEecCCC-CCcCCChhHHHhcc--CCeEEEEEeeccCC
Confidence                   23568888887643 22223344444443  38999999999764

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.11  E-value=2e-05  Score=88.22  Aligned_cols=121  Identities=19%  Similarity=0.282  Sum_probs=69.2

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      .|+.+- ||.+|+|||||+|.|++.... .++..++.|..+....+.+.+..+.+. ........++++..         
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~a-ivs~~pgtTrd~~~~~i~~~g~~v~l~DTaG~~~~~~~ie~~---------  271 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRA-IVSDIKGTTRDVVEGDFELNGILIKLLDTAGIREHADFVERL---------  271 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcEEEEEEEEEEECCEEEEEeeCCCcccchhHHHHH---------
Confidence            676666 999999999999999986532 234456666666555555543333332 11111111111110         


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISK  240 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~  240 (650)
                      .+.+....+  ...|+++|++..+. +....++ ++..+. ..+++|.|++|+|....
T Consensus       272 gi~~~~~~~--~~aD~il~V~D~s~-~~s~~~~-~l~~~~~~~~piIlV~NK~Dl~~~  325 (442)
T TIGR00450       272 GIEKSFKAI--KQADLVIYVLDASQ-PLTKDDF-LIIDLNKSKKPFILVLNKIDLKIN  325 (442)
T ss_pred             HHHHHHHHH--hhCCEEEEEEECCC-CCChhHH-HHHHHhhCCCCEEEEEECccCCCc
Confidence            011110011  13578999998753 3444444 556665 46799999999998643

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.

>cd04124 RabL2 RabL2 subfamily

Probab=98.09  E-value=1.9e-05  Score=75.21  Aligned_cols=104  Identities=18%  Similarity=0.347  Sum_probs=56.2

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ ||.+|+||||||+.|++..+......+.+  ..+....+.+.+..+.+.      ...|..+.       ..|+   
T Consensus         4 ~v-vG~~~vGKTsli~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~---   70 (161)
T cd04124           4 IL-LGDSAVGKSKLVERFLMDGYEPQQLSTYA--LTLYKHNAKFEGKTILVDFWDTAGQERFQTMH-------ASYY---   70 (161)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCCCCCcCCcee--eEEEEEEEEECCEEEEEEEEeCCCchhhhhhh-------HHHh---
Confidence            45 99999999999999998765433222111  122222333443334433      12222222       1111   


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc---cCCCeeeeeecccCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD---SKVNIIPIIAKADTI  238 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~---~~vnvIPVItKAD~L  238 (650)
                                .  ..|++++++.++... +..+ ..++..+.   ...|+|.|++|+|..
T Consensus        71 ----------~--~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~p~ivv~nK~Dl~  117 (161)
T cd04124          71 ----------H--KAHACILVFDVTRKITYKNL-SKWYEELREYRPEIPCIVVANKIDLD  117 (161)
T ss_pred             ----------C--CCCEEEEEEECCCHHHHHHH-HHHHHHHHHhCCCCcEEEEEECccCc
Confidence                      1  246888888865321 1111 12333443   357999999999974

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

>cd01866 Rab2 Rab2 subfamily

Probab=98.08  E-value=1.5e-05  Score=76.18  Aligned_cols=130  Identities=22%  Similarity=0.242  Sum_probs=66.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      ||.+|+|||||+|.|.+..+......+.+  ..+....+.+.+..+.+.   ..+..        .|..       +.+.
T Consensus        10 vG~~~vGKSsLl~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~i~Dt~G~~--------~~~~-------~~~~   72 (168)
T cd01866          10 IGDTGVGKSCLLLQFTDKRFQPVHDLTIG--VEFGARMITIDGKQIKLQIWDTAGQE--------SFRS-------ITRS   72 (168)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCccc--eeEEEEEEEECCEEEEEEEEECCCcH--------HHHH-------HHHH
Confidence            99999999999999998765443222222  222222333433333333   11111        1100       0010


Q ss_pred             ccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEe
Q psy8479         189 LNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYE  263 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~  263 (650)
                        .+  ..++++++++..+.. .+..+ ..++..+.    ...++|.|.+|+|........  ...++..+...++.++.
T Consensus        73 --~~--~~~d~il~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~e  145 (168)
T cd01866          73 --YY--RGAAGALLVYDITRRETFNHL-TSWLEDARQHSNSNMTIMLIGNKCDLESRREVS--YEEGEAFAKEHGLIFME  145 (168)
T ss_pred             --Hh--ccCCEEEEEEECCCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECcccccccCCC--HHHHHHHHHHcCCEEEE
Confidence              01  135788898887531 11111 12232222    356899999999987433211  12233344556777765


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       146 ~S  147 (168)
T cd01866         146 TS  147 (168)
T ss_pred             Ee
Confidence            54

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

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=98.06  E-value=2.1e-05  Score=74.29  Aligned_cols=109  Identities=13%  Similarity=0.150  Sum_probs=61.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee---CCceeec-chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ---ENNVKLK-EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~---e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +.+ +|.+|+|||||||+|++..+...  ..++.|..+....+...   ...+.+. .....   .|- .....+     
T Consensus         3 i~i-iG~~~~GKtsli~~l~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~---~~~-~~~~~~-----   70 (168)
T cd01887           3 VTV-MGHVDHGKTTLLDKIRKTNVAAG--EAGGITQHIGAFEVPAEVLKIPGITFIDTPGHE---AFT-NMRARG-----   70 (168)
T ss_pred             EEE-EecCCCCHHHHHHHHHhcccccc--cCCCeEEeeccEEEecccCCcceEEEEeCCCcH---HHH-HHHHHH-----
Confidence            345 99999999999999998765432  22233444433333332   1122222 11111   010 000000     


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                              +  ...|+++|++.++. +........++.+. ..++++.|++|+|...
T Consensus        71 --------~--~~~d~il~v~d~~~-~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~  116 (168)
T cd01887          71 --------A--SLTDIAILVVAADD-GVMPQTIEAIKLAKAANVPFIVALNKIDKPN  116 (168)
T ss_pred             --------H--hhcCEEEEEEECCC-CccHHHHHHHHHHHHcCCCEEEEEEceeccc
Confidence                    1  13578999998763 33444555566655 4679999999999864

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=98.06  E-value=1.5e-05  Score=74.80  Aligned_cols=125  Identities=22%  Similarity=0.298  Sum_probs=64.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|++|+|||||||.|++.++.....+.  .+..+....+.+.+..+.+.     + ..|..+.       ..|+      
T Consensus         6 ~G~~~~GKTtli~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~-------~~~~------   70 (164)
T smart00175        6 IGDSGVGKSSLLSRFTDGKFSEQYKST--IGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSIT-------SSYY------   70 (164)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCCc--eeeEEEEEEEEECCEEEEEEEEECCChHHHHHHH-------HHHh------
Confidence            999999999999999988753322111  12222222333333223332     1 1111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-------cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-------SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-------~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~  258 (650)
                               ...+++++++.++.  ...++ .+.+|+.       ...+++.|++|+|.....+.  ..+.+.+.....+
T Consensus        71 ---------~~~d~~ilv~d~~~--~~s~~-~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~--~~~~~~~~~~~~~  136 (164)
T smart00175       71 ---------RGAVGALLVYDITN--RESFE-NLKNWLKELREYADPNVVIMLVGNKSDLEDQRQV--SREEAEAFAEEHG  136 (164)
T ss_pred             ---------CCCCEEEEEEECCC--HHHHH-HHHHHHHHHHHhCCCCCeEEEEEEchhcccccCC--CHHHHHHHHHHcC
Confidence                     12468888887642  22222 1122222       35799999999997653221  1122333345567


Q ss_pred             CcEEeCC
Q psy8479         259 VHIYEFP  265 (650)
Q Consensus       259 I~if~f~  265 (650)
                      +.++...
T Consensus       137 ~~~~e~S  143 (164)
T smart00175      137 LPFFETS  143 (164)
T ss_pred             CeEEEEe
Confidence            7777664

Rab GTPases are implicated in vesicle trafficking.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.06  E-value=4.5e-05  Score=82.48  Aligned_cols=130  Identities=15%  Similarity=0.166  Sum_probs=67.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee-CCceeec-------chhH-HHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ-ENNVKLK-------EDSF-KSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~-e~g~~L~-------~~~w-~~Ii~yI~~qf~~yL~eE  182 (650)
                      ||.+|+|||||||+|.+.+..  .+..+..|+..+.-.+.+. ...+.+.       .... ..+-    .+   ||.. 
T Consensus       164 VG~PNaGKSTLln~ls~a~~~--va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg----~~---flrh-  233 (335)
T PRK12299        164 VGLPNAGKSTLISAVSAAKPK--IADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLG----HR---FLKH-  233 (335)
T ss_pred             EcCCCCCHHHHHHHHHcCCCc--cCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHH----HH---HHHH-
Confidence            999999999999999986522  2333333443332233332 1223322       1111 1121    12   2221 


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcch-HHHHHHhcc------CCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLD-LVCMKKLDS------KVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lD-I~~mk~L~~------~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                        +         .|.++++|++..+.... ..+ ..++..|..      ..++|.|++|+|.+...+...  ..+...+.
T Consensus       234 --i---------e~a~vlI~ViD~s~~~s-~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~--~~~~~~~~  299 (335)
T PRK12299        234 --I---------ERTRLLLHLVDIEAVDP-VEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEERE--KRAALELA  299 (335)
T ss_pred             --h---------hhcCEEEEEEcCCCCCC-HHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHH--HHHHHHHH
Confidence              1         13468999998764331 112 223444432      458999999999876554321  12222234


Q ss_pred             HCCCcEEeCC
Q psy8479         256 SNGVHIYEFP  265 (650)
Q Consensus       256 ~~~I~if~f~  265 (650)
                      ..++++|...
T Consensus       300 ~~~~~i~~iS  309 (335)
T PRK12299        300 ALGGPVFLIS  309 (335)
T ss_pred             hcCCCEEEEE
Confidence            4556777654

>cd01890 LepA LepA subfamily

Probab=98.02  E-value=4.9e-05  Score=72.89  Aligned_cols=42  Identities=26%  Similarity=0.336  Sum_probs=29.0

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      .+++++++..+ .+....++..+..+. ..+++|.|++|+|...
T Consensus        91 ad~~i~v~D~~-~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~  133 (179)
T cd01890          91 CEGALLLVDAT-QGVEAQTLANFYLALENNLEIIPVINKIDLPS  133 (179)
T ss_pred             cCeEEEEEECC-CCccHhhHHHHHHHHHcCCCEEEEEECCCCCc
Confidence            46888888765 345555555444443 5679999999999753

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.

>cd01878 HflX HflX subfamily

Probab=98.02  E-value=4.2e-05  Score=75.59  Aligned_cols=118  Identities=19%  Similarity=0.277  Sum_probs=58.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec-chhH-HHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK-EDSF-KSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~-~~~w-~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|.+|+|||||+|.|++......  ..+..|.......+.+.+. .+.+. ..+. ......+...|...+..    .+ 
T Consensus        47 iG~~g~GKStLl~~l~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~----~~-  119 (204)
T cd01878          47 VGYTNAGKSTLFNALTGADVYAE--DQLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLPHQLVEAFRSTLEE----VA-  119 (204)
T ss_pred             ECCCCCCHHHHHHHHhcchhccC--CccceeccceeEEEEecCCceEEEeCCCccccCCCHHHHHHHHHHHHH----Hh-
Confidence            99999999999999999764322  1122222222222223222 22222 0010 00000011112111110    01 


Q ss_pred             ccccCCceeeEEEEEEcCCCCCCCcchH----HHHHHhc-cCCCeeeeeecccCCCHHHHH
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGLKSLDL----VCMKKLD-SKVNIIPIIAKADTISKSELQ  244 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~Lk~lDI----~~mk~L~-~~vnvIPVItKAD~Lt~~El~  244 (650)
                             ..++++|++..+. .....++    .+++.+. ...++++|++|+|.+......
T Consensus       120 -------~~d~ii~v~D~~~-~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~  172 (204)
T cd01878         120 -------EADLLLHVVDASD-PDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE  172 (204)
T ss_pred             -------cCCeEEEEEECCC-CChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH
Confidence                   2457888887543 2222232    4455554 346999999999998876543

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.

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=98.01  E-value=3.7e-05  Score=72.32  Aligned_cols=127  Identities=16%  Similarity=0.194  Sum_probs=62.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||+|.+.+..+..........  .+ .....+.+..+.+.      ...|..+.       ..|+.     
T Consensus         8 ~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~--~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~~-----   72 (164)
T cd04145           8 VGGGGVGKSALTIQFIQSYFVTDYDPTIED--SY-TKQCEIDGQWAILDILDTAGQEEFSAMR-------EQYMR-----   72 (164)
T ss_pred             ECCCCCcHHHHHHHHHhCCCCcccCCCccc--eE-EEEEEECCEEEEEEEEECCCCcchhHHH-------HHHHh-----
Confidence            999999999999999986543321111111  11 11223333333332      12333332       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcc---hHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSL---DLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~l---DI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                              +  .|++++++..+.. .+..+   ...+.+... ...|+|.|++|+|.....+..  .....+.+...++.
T Consensus        73 --------~--~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~--~~~~~~~~~~~~~~  140 (164)
T cd04145          73 --------T--GEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVS--REEGQELARKLKIP  140 (164)
T ss_pred             --------h--CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceec--HHHHHHHHHHcCCc
Confidence                    1  3567777765431 12222   122222222 356999999999986543211  11233344455676


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       141 ~~~~S  145 (164)
T cd04145         141 YIETS  145 (164)
T ss_pred             EEEee
Confidence            76654

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

>cd01863 Rab18 Rab18 subfamily

Probab=97.99  E-value=3.1e-05  Score=72.89  Aligned_cols=131  Identities=15%  Similarity=0.198  Sum_probs=64.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec--chhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK--EDSFKSIVDYIDNQFEAYLQEELKIKRSL  189 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~--~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~  189 (650)
                      +|.+|+|||||||.|++...........+.+..+  ..+.+.+..+.+.  .-...  .     .|..+.       +. 
T Consensus         6 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~D~~g~--~-----~~~~~~-------~~-   68 (161)
T cd01863           6 IGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKV--KTLTVDGKKVKLAIWDTAGQ--E-----RFRTLT-------SS-   68 (161)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCcccCCcccceEEE--EEEEECCEEEEEEEEECCCc--h-----hhhhhh-------HH-
Confidence            9999999999999999876544322222222222  2233333333333  10000  0     011110       00 


Q ss_pred             cccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhc--cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeC
Q psy8479         190 NTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLD--SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEF  264 (650)
Q Consensus       190 ~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~--~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f  264 (650)
                       .+.  ..|++++++..+.. .+..+.  +..++...  ..++++.|++|+|.......   ...+.+.....+..+|.+
T Consensus        69 -~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~---~~~~~~~~~~~~~~~~~~  142 (161)
T cd01863          69 -YYR--GAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREVT---REEGLKFARKHNMLFIET  142 (161)
T ss_pred             -HhC--CCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccC---HHHHHHHHHHcCCEEEEE
Confidence             011  25789999886531 222222  11222222  35689999999998733321   122333334456777766


Q ss_pred             C
Q psy8479         265 P  265 (650)
Q Consensus       265 ~  265 (650)
                      .
T Consensus       143 S  143 (161)
T cd01863         143 S  143 (161)
T ss_pred             e
Confidence            5

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

>cd01868 Rab11_like Rab11-like

Probab=97.99  E-value=3.6e-05  Score=72.84  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|++|+|||||||.|++.++..
T Consensus         9 vG~~~~GKSsli~~l~~~~~~~   30 (165)
T cd01868           9 IGDSGVGKSNLLSRFTRNEFNL   30 (165)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCC
Confidence            9999999999999999887543

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

>cd04113 Rab4 Rab4 subfamily

Probab=97.98  E-value=2.5e-05  Score=73.65  Aligned_cols=128  Identities=20%  Similarity=0.297  Sum_probs=66.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c---hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E---DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~---~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|.+.+.........  +..+....+.+.+..+.+.   .   ..|..+.       ..|       
T Consensus         6 ~G~~~vGKTsli~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~-------~~~-------   69 (161)
T cd04113           6 IGSSGTGKSCLLHRFVENKFKEDSQHTI--GVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVT-------RSY-------   69 (161)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCce--eeeEEEEEEEECCEEEEEEEEECcchHHHHHhH-------HHH-------
Confidence            9999999999999999876544322222  1222222334433333333   1   1111111       011       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                            +.  ..++++|++.++.. .+..+.  +..++.+. ..+++++|++|+|.....+.  ....+...+...+..+
T Consensus        70 ------~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~  139 (161)
T cd04113          70 ------YR--GAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREV--TFLEASRFAQENGLLF  139 (161)
T ss_pred             ------hc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccC--CHHHHHHHHHHcCCEE
Confidence                  11  35788998887532 222222  12223333 46799999999998753221  1223344444556666


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      +...
T Consensus       140 ~~~S  143 (161)
T cd04113         140 LETS  143 (161)
T ss_pred             EEEE
Confidence            6554

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

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.98  E-value=4.3e-05  Score=78.01  Aligned_cols=69  Identities=12%  Similarity=0.158  Sum_probs=57.1

Q ss_pred             ceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeC
Q psy8479         195 NRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEF  264 (650)
Q Consensus       195 ~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f  264 (650)
                      ...|++++++... +++.+.|.+++.++.. ..++|+|+||+|+++..++...+..+++.|+..+++-+++
T Consensus       108 ~~~D~~llVvda~-~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~~~g~~~~p~  177 (224)
T cd04165         108 YAPDYAMLVVAAN-AGIIGMTKEHLGLALALNIPVFVVVTKIDLAPANILQETLKDLKRILKVPGVRKLPV  177 (224)
T ss_pred             cCCCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCEEEEEECccccCHHHHHHHHHHHHHHhcCCCccccce
Confidence            3578888888754 7899999999999984 6799999999999999899999999998888766654433

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=97.98  E-value=3.8e-05  Score=72.90  Aligned_cols=127  Identities=21%  Similarity=0.323  Sum_probs=64.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|.+.++....  .+..+..+....+.+.+..+.+.     + ..+..+.       ..|+      
T Consensus         8 ~G~~~vGKSsli~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-------~~~~------   72 (166)
T cd01869           8 IGDSGVGKSCLLLRFADDTYTESY--ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTIT-------SSYY------   72 (166)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCC--CCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHH-------HHHh------
Confidence            999999999999999987654321  12222223323333333333332     1 1111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +        ..+++++++..+.. .+..+. .+++.+.    ...+++.|.+|+|........  .+.........++.
T Consensus        73 -~--------~~~~ii~v~d~~~~~s~~~l~-~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  140 (166)
T cd01869          73 -R--------GAHGIIIVYDVTDQESFNNVK-QWLQEIDRYASENVNKLLVGNKCDLTDKRVVD--YSEAQEFADELGIP  140 (166)
T ss_pred             -C--------cCCEEEEEEECcCHHHHHhHH-HHHHHHHHhCCCCCcEEEEEEChhcccccCCC--HHHHHHHHHHcCCe
Confidence             1        24788888876531 222222 1222222    357999999999975443211  12223333445677


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       141 ~~~~S  145 (166)
T cd01869         141 FLETS  145 (166)
T ss_pred             EEEEE
Confidence            77654

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=97.95  E-value=0.00017  Score=81.77  Aligned_cols=130  Identities=15%  Similarity=0.168  Sum_probs=69.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-----hhHHHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-----DSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-----~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      ||.+|+|||||||.|.+.+.  +.+..+..|+..+...+.+.+..+.+.   .     .....+    -.+   ||..  
T Consensus       165 VG~PNAGKSTLln~Ls~akp--kIadypfTTl~P~lGvv~~~~~~f~laDtPGliegas~g~gL----g~~---fLrh--  233 (500)
T PRK12296        165 VGFPSAGKSSLISALSAAKP--KIADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGL----GLD---FLRH--  233 (500)
T ss_pred             EEcCCCCHHHHHHHHhcCCc--cccccCcccccceEEEEEECCeEEEEEECCCCccccchhhHH----HHH---HHHH--
Confidence            99999999999999998643  223334455444333333333223332   0     111111    112   2221  


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCC-----CCCCcchH---HHHHHhc-----------cCCCeeeeeecccCCCHHHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTG-----HGLKSLDL---VCMKKLD-----------SKVNIIPIIAKADTISKSELQ  244 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~-----h~Lk~lDI---~~mk~L~-----------~~vnvIPVItKAD~Lt~~El~  244 (650)
                       +         .|.++++|+|..+.     ..+..++.   ++.+.+.           ...++|.|++|+|.....++.
T Consensus       234 -i---------eradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~  303 (500)
T PRK12296        234 -I---------ERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELA  303 (500)
T ss_pred             -H---------HhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHH
Confidence             1         23468888888653     12222221   2222211           235999999999987554433


Q ss_pred             HHHHHHHHHHHHCCCcEEeCC
Q psy8479         245 KFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       245 ~~K~~I~~~L~~~~I~if~f~  265 (650)
                         ..++..+...++++|...
T Consensus       304 ---e~l~~~l~~~g~~Vf~IS  321 (500)
T PRK12296        304 ---EFVRPELEARGWPVFEVS  321 (500)
T ss_pred             ---HHHHHHHHHcCCeEEEEE
Confidence               233445666677888765

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=97.95  E-value=4.9e-05  Score=85.22  Aligned_cols=121  Identities=14%  Similarity=0.170  Sum_probs=67.8

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHH-HHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQ-FEAYLQEE  182 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~q-f~~yL~eE  182 (650)
                      .|+.+. +|.+|+|||||+|.|++.+.. .++..++.|..+....+.+.+..+.+. .-....-...++.. +...+.. 
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a-~v~~~~gtT~d~~~~~i~~~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~-  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERA-IVTDIAGTTRDVIEEHINLDGIPLRLIDTAGIRETDDEVEKIGIERSREA-  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCc-ccCCCCCcccccEEEEEEECCeEEEEEeCCCCCCCccHHHHHHHHHHHHH-
Confidence            565555 999999999999999987532 234455556555444455543333332 11111111111110 1111110 


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKS  241 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~  241 (650)
                               +  ...++++|++..+ ++....+..++.. ....++|.|++|+|.....
T Consensus       292 ---------~--~~aD~il~VvD~s-~~~s~~~~~~l~~-~~~~piiiV~NK~DL~~~~  337 (449)
T PRK05291        292 ---------I--EEADLVLLVLDAS-EPLTEEDDEILEE-LKDKPVIVVLNKADLTGEI  337 (449)
T ss_pred             ---------H--HhCCEEEEEecCC-CCCChhHHHHHHh-cCCCCcEEEEEhhhccccc
Confidence                     1  1245788888765 3444446666655 4467999999999987643

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=97.93  E-value=8.6e-05  Score=67.65  Aligned_cols=19  Identities=32%  Similarity=0.553  Sum_probs=18.3

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||+|.|++..
T Consensus         7 ~G~~~~GKstl~~~l~~~~   25 (161)
T TIGR00231         7 VGDPNVGKSTLLNRLLGNK   25 (161)
T ss_pred             ECCCCCCHHHHHHHHhCCC
Confidence            9999999999999999987

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=97.93  E-value=4.4e-05  Score=72.02  Aligned_cols=67  Identities=10%  Similarity=0.113  Sum_probs=35.9

Q ss_pred             eeeEEEEEEcCCCCC-CCcchHHHHHHhc---cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         196 RIHVCLYFICPTGHG-LKSLDLVCMKKLD---SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       196 RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      +.++++|++..+... +..+ ..++..+.   ..+++|.|++|+|.....+......  .......+..+|...
T Consensus        75 ~~d~ii~v~d~~~~~s~~~~-~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~--~~~~~~~~~~~~~~S  145 (164)
T cd04101          75 SPSVFILVYDVSNKASFENC-SRWVNKVRTASKHMPGVLVGNKMDLADKAEVTDAQA--QAFAQANQLKFFKTS  145 (164)
T ss_pred             CCCEEEEEEECcCHHHHHHH-HHHHHHHHHhCCCCCEEEEEECcccccccCCCHHHH--HHHHHHcCCeEEEEe
Confidence            457899998865321 1111 22333333   3479999999999876543322111  111233455666554

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.

>cd00876 Ras Ras family

Probab=97.92  E-value=5.5e-05  Score=70.41  Aligned_cols=21  Identities=24%  Similarity=0.360  Sum_probs=18.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+|||||+|.|++.++.
T Consensus         5 ~G~~~~GKTsli~~l~~~~~~   25 (160)
T cd00876           5 LGAGGVGKSAITIQFVKGTFV   25 (160)
T ss_pred             ECCCCCCHHHHHHHHHhCCCC
Confidence            999999999999999987643

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=97.92  E-value=2.4e-05  Score=73.51  Aligned_cols=103  Identities=19%  Similarity=0.255  Sum_probs=55.6

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHh
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~  184 (650)
                      .+ +|.+|+|||||+|.|++..+... .+    |..+....+.+. ..+.+.    ...+.     ....+..|+     
T Consensus         3 ~i-~G~~~~GKTsl~~~~~~~~~~~~-~~----t~~~~~~~~~~~-~~~~l~i~D~~G~~~-----~~~~~~~~~-----   65 (160)
T cd04156           3 LL-LGLDSAGKSTLLYKLKHAELVTT-IP----TVGFNVEMLQLE-KHLSLTVWDVGGQEK-----MRTVWKCYL-----   65 (160)
T ss_pred             EE-EcCCCCCHHHHHHHHhcCCcccc-cC----ccCcceEEEEeC-CceEEEEEECCCCHh-----HHHHHHHHh-----
Confidence            45 89999999999999999876432 12    222221222221 223332    11110     011111111     


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCC
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTI  238 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~L  238 (650)
                              .  ..|+++|++..+.. .+...+..+.+.+.    ..++++.|++|+|..
T Consensus        66 --------~--~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  114 (160)
T cd04156          66 --------E--NTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLP  114 (160)
T ss_pred             --------c--cCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccc
Confidence                    1  23678888875432 24444444454443    357999999999975

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

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=97.92  E-value=7.1e-05  Score=73.71  Aligned_cols=42  Identities=19%  Similarity=0.171  Sum_probs=29.7

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      .++|++++..+. +..+....+++.+. ..++++.|++|+|...
T Consensus        89 ~d~~ilV~d~~~-~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~  131 (194)
T cd01891          89 VDGVLLLVDASE-GPMPQTRFVLKKALELGLKPIVVINKIDRPD  131 (194)
T ss_pred             cCEEEEEEECCC-CccHHHHHHHHHHHHcCCCEEEEEECCCCCC
Confidence            578899888764 34444445555553 5679999999999864

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=97.92  E-value=4.2e-05  Score=73.89  Aligned_cols=131  Identities=14%  Similarity=0.191  Sum_probs=66.1

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ ||.+|+|||||||.+++..+...-.++.+  ..+....+.+.+..+.+.      ...|..+.              
T Consensus         4 ~i-vG~~~vGKTsli~~~~~~~f~~~~~~t~~--~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~--------------   66 (170)
T cd04108           4 IV-VGDLSVGKTCLINRFCKDVFDKNYKATIG--VDFEMERFEILGVPFSLQLWDTAGQERFKCIA--------------   66 (170)
T ss_pred             EE-ECCCCCCHHHHHHHHhcCCCCCCCCCcee--eEEEEEEEEECCEEEEEEEEeCCChHHHHhhH--------------
Confidence            35 99999999999999999766443222221  122223344443333333      11222111              


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                          +.  .+.  ..+++++++..+.. .+..+ ..+++.+.     ...++|.|.+|+|.....+..............
T Consensus        67 ----~~--~~~--~ad~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~  137 (170)
T cd04108          67 ----ST--YYR--GAQAIIIVFDLTDVASLEHT-RQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAE  137 (170)
T ss_pred             ----HH--Hhc--CCCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHH
Confidence                11  111  24678888876432 23222 23333332     124589999999965443322222222333344


Q ss_pred             CCCcEEeCC
Q psy8479         257 NGVHIYEFP  265 (650)
Q Consensus       257 ~~I~if~f~  265 (650)
                      .+..+|...
T Consensus       138 ~~~~~~e~S  146 (170)
T cd04108         138 MQAEYWSVS  146 (170)
T ss_pred             cCCeEEEEE
Confidence            566666554

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

>CHL00071 tufA elongation factor Tu

Probab=97.91  E-value=9.9e-05  Score=81.77  Aligned_cols=61  Identities=13%  Similarity=0.201  Sum_probs=45.2

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHHH-HHHHHHHHHHHHHC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSEL-QKFKTNIMTELTSN  257 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~El-~~~K~~I~~~L~~~  257 (650)
                      ..++|++++.+. .++.+.+.+.+..+.. .++ +|.|++|.|..+..++ ..+++.+...|+..
T Consensus        98 ~~D~~ilVvda~-~g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~  161 (409)
T CHL00071         98 QMDGAILVVSAA-DGPMPQTKEHILLAKQVGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKY  161 (409)
T ss_pred             hCCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHh
Confidence            357899999865 5788888888888774 567 7789999999986664 33555666666543

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=97.90  E-value=4.9e-05  Score=72.85  Aligned_cols=134  Identities=14%  Similarity=0.249  Sum_probs=63.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNT  191 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~  191 (650)
                      ||.+|+|||||||.|++..+.....  +.....+....+.+.+..+.+.  -|..-=   .+.|...+.      +.  .
T Consensus         8 vG~~~vGKTsli~~~~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~--i~Dt~G---~~~~~~~~~------~~--~   72 (170)
T cd04115           8 IGDSNVGKTCLTYRFCAGRFPERTE--ATIGVDFRERTVEIDGERIKVQ--LWDTAG---QERFRKSMV------QH--Y   72 (170)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCccc--cceeEEEEEEEEEECCeEEEEE--EEeCCC---hHHHHHhhH------HH--h
Confidence            9999999999999999865433221  1111222223344444334433  110000   000100000      00  0


Q ss_pred             cCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         192 YHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       192 ~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      +  ..+||+++++.++.. .+..+. .++..+.     ..+|+|.|.+|+|.....++.  .....+.....++.+|...
T Consensus        73 ~--~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~e~S  147 (170)
T cd04115          73 Y--RNVHAVVFVYDVTNMASFHSLP-SWIEECEQHSLPNEVPRILVGNKCDLREQIQVP--TDLAQRFADAHSMPLFETS  147 (170)
T ss_pred             h--cCCCEEEEEEECCCHHHHHhHH-HHHHHHHHhcCCCCCCEEEEEECccchhhcCCC--HHHHHHHHHHcCCcEEEEe
Confidence            1  235788998887532 122221 1222221     357999999999976433221  1111222233456677654

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

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=97.90  E-value=0.0001  Score=85.29  Aligned_cols=134  Identities=18%  Similarity=0.261  Sum_probs=80.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCC-CCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTP-SPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKIKRSL  189 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~-s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~  189 (650)
                      +|.+|+|||||||+|++......+ ....+.|..+....+.+.+..+.+. .....   +|+..    ++..        
T Consensus         6 iG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGhe---~f~~~----~~~g--------   70 (581)
T TIGR00475         6 AGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGHE---KFISN----AIAG--------   70 (581)
T ss_pred             ECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCHH---HHHHH----HHhh--------
Confidence            999999999999999986522211 1234556666544444443222222 22221   12111    1110        


Q ss_pred             cccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHHHHHHHHHHHHHHHHC----CCcEEe
Q psy8479         190 NTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSELQKFKTNIMTELTSN----GVHIYE  263 (650)
Q Consensus       190 ~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~El~~~K~~I~~~L~~~----~I~if~  263 (650)
                        +  ..++++++++..+ .++++...+.+..+.. .++ +|.|+||+|....+.+...+..+++.+...    ++.++.
T Consensus        71 --~--~~aD~aILVVDa~-~G~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~  145 (581)
T TIGR00475        71 --G--GGIDAALLVVDAD-EGVMTQTGEHLAVLDLLGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFK  145 (581)
T ss_pred             --h--ccCCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEE
Confidence              1  1257888888865 4666666666666653 456 999999999998887766677777666554    456666


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       146 vS  147 (581)
T TIGR00475       146 TS  147 (581)
T ss_pred             Ee
Confidence            54

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.89  E-value=0.00014  Score=72.69  Aligned_cols=62  Identities=18%  Similarity=0.236  Sum_probs=45.7

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHHHH-HHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSELQ-KFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~El~-~~K~~I~~~L~~~~  258 (650)
                      .++++++++.+. .++.+.+.++++.+.. .++ +|.|++|.|.+...++. ..++.|++.|...+
T Consensus        88 ~~D~~ilVvda~-~g~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g  152 (195)
T cd01884          88 QMDGAILVVSAT-DGPMPQTREHLLLARQVGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYG  152 (195)
T ss_pred             hCCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhc
Confidence            367899988865 5788888888888874 455 78999999998655543 35667777776543

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.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=97.88  E-value=0.00024  Score=70.88  Aligned_cols=85  Identities=11%  Similarity=0.048  Sum_probs=53.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-C-CCeeeeeecccCCCHHHHHHHHHHHHHHHHHC---CCcEEeCCC-Cchh
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-K-VNIIPIIAKADTISKSELQKFKTNIMTELTSN---GVHIYEFPT-DDET  270 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~---~I~if~f~~-d~~~  270 (650)
                      ++++++++..+..+.......++..+.. . .++|.|++|.|.....++....+.+++.+...   ++.++.... ..+.
T Consensus       107 ~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~g  186 (203)
T cd01888         107 MDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAPIIPISAQLKYN  186 (203)
T ss_pred             CCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCcEEEEeCCCCCC
Confidence            5788999987643444444555555542 3 37899999999998777766667777666543   556666542 2333


Q ss_pred             HHHHHHHhhhc
Q psy8479         271 MSDVNAAMTIF  281 (650)
Q Consensus       271 ~~~~~~~~~~~  281 (650)
                      ..++...+...
T Consensus       187 i~~L~~~l~~~  197 (203)
T cd01888         187 IDVLLEYIVKK  197 (203)
T ss_pred             HHHHHHHHHHh
Confidence            44444444443

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

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=97.86  E-value=3.5e-05  Score=91.61  Aligned_cols=137  Identities=15%  Similarity=0.141  Sum_probs=78.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHH--HHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVD--YIDNQFEAYLQE  181 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~--yI~~qf~~yL~e  181 (650)
                      +.+ ||.+|+|||||+|.|.+.+.  ..+..++.|+......+...+..+.+.    .++......  .++++       
T Consensus         6 IaL-vG~pNvGKSTLfN~Ltg~~~--~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~-------   75 (772)
T PRK09554          6 IGL-IGNPNSGKTTLFNQLTGARQ--RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQ-------   75 (772)
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCC--ccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHH-------
Confidence            456 99999999999999998754  456668888766554444433333333    122221110  11111       


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                         +.|.  .+...+.+++++.++.+.  +. -.+.+..++. ...|++.|++|.|...........+.+.+   ..+++
T Consensus        76 ---i~~~--~l~~~~aD~vI~VvDat~--le-r~l~l~~ql~e~giPvIvVlNK~Dl~~~~~i~id~~~L~~---~LG~p  144 (772)
T PRK09554         76 ---IACH--YILSGDADLLINVVDASN--LE-RNLYLTLQLLELGIPCIVALNMLDIAEKQNIRIDIDALSA---RLGCP  144 (772)
T ss_pred             ---HHHH--HHhccCCCEEEEEecCCc--ch-hhHHHHHHHHHcCCCEEEEEEchhhhhccCcHHHHHHHHH---HhCCC
Confidence               2222  122345788999888753  21 2344444444 46799999999998754433332233332   34667


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       145 VvpiS  149 (772)
T PRK09554        145 VIPLV  149 (772)
T ss_pred             EEEEE
Confidence            76553

>cd04122 Rab14 Rab14 subfamily

Probab=97.86  E-value=7.5e-05  Score=71.09  Aligned_cols=132  Identities=20%  Similarity=0.222  Sum_probs=65.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHH--HHHHHHHHHHHHHHHHHHhhhhcc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFK--SIVDYIDNQFEAYLQEELKIKRSL  189 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~--~Ii~yI~~qf~~yL~eE~~i~R~~  189 (650)
                      +|.+|+|||||||.|.+..+......+.+.  .+....+.+.+..+.+.  -|.  ...     .|....       +. 
T Consensus         8 iG~~~vGKTsli~~~~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~~l~--i~Dt~G~~-----~~~~~~-------~~-   70 (166)
T cd04122           8 IGDMGVGKSCLLHQFTEKKFMADCPHTIGV--EFGTRIIEVNGQKIKLQ--IWDTAGQE-----RFRAVT-------RS-   70 (166)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCcccce--eEEEEEEEECCEEEEEE--EEECCCcH-----HHHHHH-------HH-
Confidence            999999999999999987654432222211  22222333433333333  110  000     111110       11 


Q ss_pred             cccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         190 NTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       190 ~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                       .+.  ..|+++++...+.+ .+..+.  +..++.+. ...+++.|.+|+|.....+..  ...+++....+++.+|...
T Consensus        71 -~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~e~S  145 (166)
T cd04122          71 -YYR--GAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVT--YEEAKQFADENGLLFLECS  145 (166)
T ss_pred             -Hhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcC--HHHHHHHHHHcCCEEEEEE
Confidence             111  24788888887542 122221  11122222 346899999999986543221  1223334445677777654

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

>PLN03118 Rab family protein; Provisional

Probab=97.85  E-value=0.00012  Score=73.22  Aligned_cols=127  Identities=20%  Similarity=0.301  Sum_probs=64.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|+|||||||.|++..+.. .....+  ..+....+.+.+..+.+.      ...|..+.       ..|+      
T Consensus        20 vG~~~vGKTsli~~l~~~~~~~-~~~t~~--~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~-------~~~~------   83 (211)
T PLN03118         20 IGDSGVGKSSLLVSFISSSVED-LAPTIG--VDFKIKQLTVGGKRLKLTIWDTAGQERFRTLT-------SSYY------   83 (211)
T ss_pred             ECcCCCCHHHHHHHHHhCCCCC-cCCCce--eEEEEEEEEECCEEEEEEEEECCCchhhHHHH-------HHHH------
Confidence            9999999999999999876422 122221  222222333433333333      12233222       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                       |        ..|++++++..+.. .+..+...+...+.     ..+++|.|.+|+|.....+..  +.........+++
T Consensus        84 -~--------~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~--~~~~~~~~~~~~~  152 (211)
T PLN03118         84 -R--------NAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVS--REEGMALAKEHGC  152 (211)
T ss_pred             -h--------cCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccC--HHHHHHHHHHcCC
Confidence             1        24788888875431 12222211222222     346899999999986433321  1222233345677


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       153 ~~~e~S  158 (211)
T PLN03118        153 LFLECS  158 (211)
T ss_pred             EEEEEe
Confidence            777664

>cd01865 Rab3 Rab3 subfamily

Probab=97.85  E-value=6.6e-05  Score=71.49  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|.+.++..
T Consensus         7 ~G~~~~GKSsli~~l~~~~~~~   28 (165)
T cd01865           7 IGNSSVGKTSFLFRYADDSFTS   28 (165)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCC
Confidence            9999999999999999877543

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=97.84  E-value=9.1e-05  Score=71.07  Aligned_cols=102  Identities=13%  Similarity=0.197  Sum_probs=55.2

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ +|.+|+||||||+.|.+........+    |..+.  ...+..+++.+.      ...+..+.       ..|+   
T Consensus         3 ~i-vG~~~vGKTsli~~~~~~~~~~~~~p----t~g~~--~~~i~~~~~~l~i~Dt~G~~~~~~~~-------~~~~---   65 (164)
T cd04162           3 LV-LGLDGAGKTSLLHSLSSERSLESVVP----TTGFN--SVAIPTQDAIMELLEIGGSQNLRKYW-------KRYL---   65 (164)
T ss_pred             EE-ECCCCCCHHHHHHHHhcCCCcccccc----cCCcc--eEEEeeCCeEEEEEECCCCcchhHHH-------HHHH---
Confidence            45 99999999999999998754332111    21111  122333344433      11111111       1221   


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc---cCCCeeeeeecccCCCH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD---SKVNIIPIIAKADTISK  240 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~  240 (650)
                          +        ..|+++|++..+.+. +... ...+..+.   ..++++.|.+|.|....
T Consensus        66 ----~--------~ad~ii~V~D~t~~~s~~~~-~~~l~~~~~~~~~~piilv~NK~Dl~~~  114 (164)
T cd04162          66 ----S--------GSQGLIFVVDSADSERLPLA-RQELHQLLQHPPDLPLVVLANKQDLPAA  114 (164)
T ss_pred             ----h--------hCCEEEEEEECCCHHHHHHH-HHHHHHHHhCCCCCcEEEEEeCcCCcCC
Confidence                1        247899999865432 2222 12233332   46799999999997543

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.

>cd01864 Rab19 Rab19 subfamily

Probab=97.84  E-value=8.4e-05  Score=70.55  Aligned_cols=108  Identities=19%  Similarity=0.252  Sum_probs=55.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|.+|+|||||||.|....+.......  .+..+....+.+.+..+.+.   ..+...        |.. +      .+.
T Consensus         9 vG~~~~GKTsli~~l~~~~~~~~~~~t--~~~~~~~~~~~~~~~~~~l~i~D~~G~~~--------~~~-~------~~~   71 (165)
T cd01864           9 IGDSNVGKTCVVQRFKSGTFSERQGNT--IGVDFTMKTLEIEGKRVKLQIWDTAGQER--------FRT-I------TQS   71 (165)
T ss_pred             ECCCCCCHHHHHHHHhhCCCcccCCCc--cceEEEEEEEEECCEEEEEEEEECCChHH--------HHH-H------HHH
Confidence            999999999999999876544322211  11223333344443334433   111110        100 0      000


Q ss_pred             ccccCCceeeEEEEEEcCCCC-CCCcc--hHHHHHHhc-cCCCeeeeeecccCCCH
Q psy8479         189 LNTYHDNRIHVCLYFICPTGH-GLKSL--DLVCMKKLD-SKVNIIPIIAKADTISK  240 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h-~Lk~l--DI~~mk~L~-~~vnvIPVItKAD~Lt~  240 (650)
                        .+.  ..++|++++..+.. .+..+  .+..++... ..+++|.|++|+|....
T Consensus        72 --~~~--~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~  123 (165)
T cd01864          72 --YYR--SANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQ  123 (165)
T ss_pred             --Hhc--cCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccc
Confidence              111  24788888876532 12221  122222322 35789999999998654

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=97.84  E-value=0.0001  Score=69.72  Aligned_cols=22  Identities=27%  Similarity=0.330  Sum_probs=19.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.++...+..
T Consensus         7 ~G~~~~GKTsli~~~~~~~~~~   28 (164)
T cd04175           7 LGSGGVGKSALTVQFVQGIFVE   28 (164)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCc
Confidence            9999999999999999765443

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=97.83  E-value=9.2e-05  Score=66.27  Aligned_cols=67  Identities=13%  Similarity=0.018  Sum_probs=38.0

Q ss_pred             eeEEEEEEcCCCCCCCcchHH------HHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLV------CMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~------~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      .++++|++..+. .....+..      ........++++.|++|+|........... ..........+.+|...
T Consensus        69 ~~~~i~v~d~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~-~~~~~~~~~~~~~~~~s  141 (157)
T cd00882          69 ADGIILVYDVTD-RESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEE-LAEQLAKELGVPYFETS  141 (157)
T ss_pred             CCEEEEEEECcC-HHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHH-HHHHHHhhcCCcEEEEe
Confidence            467888887653 22222222      223334578999999999998766554432 11122233456666554

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

>PRK11058 GTPase HflX; Provisional

Probab=97.83  E-value=5.7e-05  Score=84.22  Aligned_cols=117  Identities=15%  Similarity=0.248  Sum_probs=61.1

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec-chhH-HHHHHHHHHHHHHHHHHHHh
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK-EDSF-KSIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~-~~~w-~~Ii~yI~~qf~~yL~eE~~  184 (650)
                      +.+ ||.+|+|||||+|.|++.+...  +..++.|+..+...+.+.+. .+.+. .-.+ ..+-..+-+.|...+...  
T Consensus       200 Val-VG~~NaGKSSLlN~Lt~~~~~v--~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~--  274 (426)
T PRK11058        200 VSL-VGYTNAGKSTLFNRITEARVYA--ADQLFATLDPTLRRIDVADVGETVLADTVGFIRHLPHDLVAAFKATLQET--  274 (426)
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCceee--ccCCCCCcCCceEEEEeCCCCeEEEEecCcccccCCHHHHHHHHHHHHHh--
Confidence            455 9999999999999999977542  22333333333223333322 12221 1111 111111112233322211  


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCCCCCcchH----HHHHHhcc-CCCeeeeeecccCCCH
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGHGLKSLDL----VCMKKLDS-KVNIIPIIAKADTISK  240 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI----~~mk~L~~-~vnvIPVItKAD~Lt~  240 (650)
                        +        ..+++++++..+. .....++    .+++.+.. ..++|.|++|+|.+..
T Consensus       275 --~--------~ADlIL~VvDaS~-~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~  324 (426)
T PRK11058        275 --R--------QATLLLHVVDAAD-VRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDD  324 (426)
T ss_pred             --h--------cCCEEEEEEeCCC-ccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCc
Confidence              1        2356788887653 3323333    44566643 5799999999998753

>cd04114 Rab30 Rab30 subfamily

Probab=97.81  E-value=8.3e-05  Score=70.51  Aligned_cols=112  Identities=18%  Similarity=0.186  Sum_probs=56.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKIKRSLN  190 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~  190 (650)
                      +|.+|+||||||+.|.+..+........+  ..+....+.+.+..+.+. .+... ...| ......|+           
T Consensus        13 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~~~D~~g-~~~~-~~~~~~~~-----------   77 (169)
T cd04114          13 IGNAGVGKTCLVRRFTQGLFPPGQGATIG--VDFMIKTVEIKGEKIKLQIWDTAG-QERF-RSITQSYY-----------   77 (169)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCcee--eEEEEEEEEECCEEEEEEEEECCC-cHHH-HHHHHHHh-----------
Confidence            99999999999999997654432221111  112222333433333332 11111 0000 00001111           


Q ss_pred             ccCCceeeEEEEEEcCCCC-CCCc--chHHHHHHhc-cCCCeeeeeecccCCCHHH
Q psy8479         191 TYHDNRIHVCLYFICPTGH-GLKS--LDLVCMKKLD-SKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       191 ~~~D~RVH~cLYfI~ps~h-~Lk~--lDI~~mk~L~-~~vnvIPVItKAD~Lt~~E  242 (650)
                          ...|+++|++..+.. .+..  ..+..++.+. ..+++|.|.+|+|.....+
T Consensus        78 ----~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~  129 (169)
T cd04114          78 ----RSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERRE  129 (169)
T ss_pred             ----cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccc
Confidence                125688888876421 1111  1233345544 3689999999999865443

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=97.81  E-value=7.8e-05  Score=71.14  Aligned_cols=23  Identities=30%  Similarity=0.497  Sum_probs=20.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      +|.+|+|||||||.|.+.++...
T Consensus         9 vG~~~~GKSsl~~~~~~~~f~~~   31 (167)
T cd01867           9 IGDSGVGKSCLLLRFSEDSFNPS   31 (167)
T ss_pred             ECCCCCCHHHHHHHHhhCcCCcc
Confidence            99999999999999998776443

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=97.80  E-value=0.0002  Score=68.70  Aligned_cols=135  Identities=14%  Similarity=0.206  Sum_probs=67.0

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEE-EeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTY-ELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~-~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      -+.+ +|++|+|||||+|.|++.....      .+|..+..... .++-.|.+.....|           ..++...  +
T Consensus         3 ~i~~-iG~~~~GKstl~~~l~~~~~~~------~~~~~v~~~~~~~iDtpG~~~~~~~~-----------~~~~~~~--~   62 (158)
T PRK15467          3 RIAF-VGAVGAGKTTLFNALQGNYTLA------RKTQAVEFNDKGDIDTPGEYFSHPRW-----------YHALITT--L   62 (158)
T ss_pred             EEEE-ECCCCCCHHHHHHHHcCCCccC------ccceEEEECCCCcccCCccccCCHHH-----------HHHHHHH--H
Confidence            4667 9999999999999999864221      12233211100 12222221111111           1111110  0


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC--cEEe
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV--HIYE  263 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I--~if~  263 (650)
                               ...+++++++..+.. ...+...+++ +....+++.|++|+|.... +..    .+.+.+...++  .+|.
T Consensus        63 ---------~~ad~il~v~d~~~~-~s~~~~~~~~-~~~~~~ii~v~nK~Dl~~~-~~~----~~~~~~~~~~~~~p~~~  126 (158)
T PRK15467         63 ---------QDVDMLIYVHGANDP-ESRLPAGLLD-IGVSKRQIAVISKTDMPDA-DVA----ATRKLLLETGFEEPIFE  126 (158)
T ss_pred             ---------hcCCEEEEEEeCCCc-ccccCHHHHh-ccCCCCeEEEEEccccCcc-cHH----HHHHHHHHcCCCCCEEE
Confidence                     134688888877632 2233443333 3345689999999997542 222    23344445553  5665


Q ss_pred             CCC-CchhHHHHHHH
Q psy8479         264 FPT-DDETMSDVNAA  277 (650)
Q Consensus       264 f~~-d~~~~~~~~~~  277 (650)
                      ... +.+...++...
T Consensus       127 ~Sa~~g~gi~~l~~~  141 (158)
T PRK15467        127 LNSHDPQSVQQLVDY  141 (158)
T ss_pred             EECCCccCHHHHHHH
Confidence            542 33334444333

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=97.79  E-value=0.00011  Score=69.30  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=20.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|+|||||||+|++..+..
T Consensus         4 ~v-~G~~~~GKTsli~~~~~~~~~~   27 (164)
T smart00173        4 VV-LGSGGVGKSALTIQFVQGHFVD   27 (164)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCcCCc
Confidence            45 9999999999999999876543

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

>cd01892 Miro2 Miro2 subfamily

Probab=97.78  E-value=7.8e-05  Score=71.89  Aligned_cols=108  Identities=22%  Similarity=0.200  Sum_probs=55.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCC-CCCCCCCCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE-STPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLN  190 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~-~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~  190 (650)
                      +|.+|+|||||||.+++..+. ....++.+..  +....+.+.+..+.+.  -|..--.      +.|.     ..+.. 
T Consensus        10 vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~--~~~~~~~~~~~~~~l~--~~d~~g~------~~~~-----~~~~~-   73 (169)
T cd01892          10 LGAKGSGKSALLRAFLGRSFSLNAYSPTIKPR--YAVNTVEVYGQEKYLI--LREVGED------EVAI-----LLNDA-   73 (169)
T ss_pred             ECCCCCcHHHHHHHHhCCCCCcccCCCccCcc--eEEEEEEECCeEEEEE--EEecCCc------cccc-----ccchh-
Confidence            999999999999999987765 2211111111  1112233333222332  1110000      0000     00000 


Q ss_pred             ccCCceeeEEEEEEcCCCCCCCcch--HHHHHHhc--cCCCeeeeeecccCCC
Q psy8479         191 TYHDNRIHVCLYFICPTGHGLKSLD--LVCMKKLD--SKVNIIPIIAKADTIS  239 (650)
Q Consensus       191 ~~~D~RVH~cLYfI~ps~h~Lk~lD--I~~mk~L~--~~vnvIPVItKAD~Lt  239 (650)
                      .+  ...|+++|++..+.+  ..++  ..+++.+.  ..+|++.|++|+|...
T Consensus        74 ~~--~~~d~~llv~d~~~~--~s~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~  122 (169)
T cd01892          74 EL--AACDVACLVYDSSDP--KSFSYCAEVYKKYFMLGEIPCLFVAAKADLDE  122 (169)
T ss_pred             hh--hcCCEEEEEEeCCCH--HHHHHHHHHHHHhccCCCCeEEEEEEcccccc
Confidence            01  246789999986532  2222  24444443  2579999999999754

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.76  E-value=1.5e-05  Score=86.87  Aligned_cols=133  Identities=19%  Similarity=0.204  Sum_probs=78.7

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCC----CCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFE----STPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~----~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      .+.| ||.+|||||||||+|++....    .+.|..|+.|..+.  .+.+. .++.|. .-.+..     ..|+..||..
T Consensus       156 ~v~~-vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~--~~~~~-~~~~l~DtPG~~~-----~~~~~~~l~~  226 (360)
T TIGR03597       156 DVYV-VGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLI--EIPLD-DGHSLYDTPGIIN-----SHQMAHYLDK  226 (360)
T ss_pred             eEEE-ECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEE--EEEeC-CCCEEEECCCCCC-----hhHhhhhcCH
Confidence            4455 999999999999999997542    24566777777664  23332 233333 111100     0122233322


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHH
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTE  253 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~  253 (650)
                      +. ++.   ..+-.+++...|.+.+ ++.+.--++..|.++. ....+...++|.+++-.....+....+.+.
T Consensus       227 ~~-l~~---~~~~~~i~~~~~~l~~-~q~~~~ggl~~~d~~~~~~~~~~~~~~~~~~~h~t~~~~a~~~~~~~  294 (360)
T TIGR03597       227 KD-LKY---ITPKKEIKPKTYQLNP-NQTLFLGGLARFDYLKGEKTSFTFYVSNELNIHRTKLENADELYNKH  294 (360)
T ss_pred             HH-Hhh---cCCCCccCceEEEeCC-CCEEEEceEEEEEEecCCceEEEEEccCCceeEeechhhhHHHHHhh
Confidence            11 111   1334567888888875 4666666666666776 455778889999998776555555554433

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.

>PTZ00369 Ras-like protein; Provisional

Probab=97.76  E-value=0.00011  Score=72.05  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=19.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||++.+.+..+..
T Consensus        11 iG~~~~GKTsLi~~~~~~~~~~   32 (189)
T PTZ00369         11 VGGGGVGKSALTIQFIQNHFID   32 (189)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCc
Confidence            9999999999999999876544

>cd01893 Miro1 Miro1 subfamily

Probab=97.76  E-value=0.00014  Score=69.37  Aligned_cols=22  Identities=36%  Similarity=0.567  Sum_probs=19.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ||.+|+|||||+|.|.+..+..
T Consensus         6 vG~~~vGKTsl~~~l~~~~~~~   27 (166)
T cd01893           6 IGDEGVGKSSLIMSLVSEEFPE   27 (166)
T ss_pred             ECCCCCCHHHHHHHHHhCcCCc
Confidence            9999999999999999876643

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.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=97.75  E-value=7e-05  Score=72.12  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=20.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      +.+ +|.+|+|||||+|.|.+..+.
T Consensus         4 v~l-~G~~g~GKTtl~~~~~~~~~~   27 (180)
T cd04137           4 IAV-LGSRSVGKSSLTVQFVEGHFV   27 (180)
T ss_pred             EEE-ECCCCCCHHHHHHHHHhCCCc
Confidence            345 999999999999999987653

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

>cd04140 ARHI_like ARHI subfamily

Probab=97.75  E-value=8.8e-05  Score=70.62  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ ||.+|+|||||||.+++..+..
T Consensus         5 ~~-vG~~~vGKTsli~~~~~~~f~~   28 (165)
T cd04140           5 VV-FGAGGVGKSSLVLRFVKGTFRE   28 (165)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCCCC
Confidence            34 9999999999999999876543

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

>cd04154 Arl2 Arl2 subfamily

Probab=97.75  E-value=6.4e-05  Score=72.26  Aligned_cols=20  Identities=20%  Similarity=0.333  Sum_probs=18.3

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|+|||||+|.|++..+
T Consensus        20 vG~~~~GKTsL~~~l~~~~~   39 (173)
T cd04154          20 LGLDNAGKTTILKKLLGEDI   39 (173)
T ss_pred             ECCCCCCHHHHHHHHccCCC
Confidence            99999999999999998743

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.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=97.75  E-value=8.9e-05  Score=70.78  Aligned_cols=103  Identities=16%  Similarity=0.205  Sum_probs=54.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|.+..+......+...   .....+.+.+..+.+.     + ..+..+.                 
T Consensus         4 ~G~~~vGKTsli~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-----------------   63 (174)
T smart00174        4 VGDGAVGKTCLLISYTTNAFPEDYVPTVFE---NYSADVEVDGKPVELGLWDTAGQEDYDRLR-----------------   63 (174)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCcEEe---eeeEEEEECCEEEEEEEEECCCCcccchhc-----------------
Confidence            899999999999999987654322111111   1111233333223332     1 1111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt  239 (650)
                       ..  .+.  ..|+++++...+.. .+..+...++..+.   ..+++|.|.+|+|...
T Consensus        64 -~~--~~~--~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  116 (174)
T smart00174       64 -PL--SYP--DTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLRE  116 (174)
T ss_pred             -hh--hcC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhh
Confidence             00  111  35788888876431 23222222344443   3679999999999864

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=97.74  E-value=7.7e-05  Score=72.07  Aligned_cols=101  Identities=17%  Similarity=0.189  Sum_probs=54.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-hhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-DSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|.+|+|||||+|.|.+..+... .    +|+..+...+.+..-.+.+.   + ..+..+       +..|+        
T Consensus        21 ~G~~~~GKTsl~~~l~~~~~~~~-~----~t~~~~~~~~~~~~~~~~l~D~~G~~~~~~~-------~~~~~--------   80 (174)
T cd04153          21 VGLDNAGKTTILYQFLLGEVVHT-S----PTIGSNVEEIVYKNIRFLMWDIGGQESLRSS-------WNTYY--------   80 (174)
T ss_pred             ECCCCCCHHHHHHHHccCCCCCc-C----CccccceEEEEECCeEEEEEECCCCHHHHHH-------HHHHh--------
Confidence            99999999999999987665432 2    22222222333322112221   1 111111       11111        


Q ss_pred             cccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                             ...|+++|++..+.. .+......+.+.+.    ...|++.|++|+|...
T Consensus        81 -------~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~  130 (174)
T cd04153          81 -------TNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG  130 (174)
T ss_pred             -------hcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence                   135789999987542 23333333333333    2479999999999753

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.

>cd04136 Rap_like Rap-like subfamily

Probab=97.74  E-value=0.00013  Score=68.53  Aligned_cols=21  Identities=29%  Similarity=0.343  Sum_probs=18.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+|||||+|.|....+.
T Consensus         7 ~G~~~vGKTsl~~~~~~~~~~   27 (163)
T cd04136           7 LGSGGVGKSALTVQFVQGIFV   27 (163)
T ss_pred             ECCCCCCHHHHHHHHHhCCCC
Confidence            999999999999999987654

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.74  E-value=0.00029  Score=75.15  Aligned_cols=138  Identities=17%  Similarity=0.246  Sum_probs=77.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chh--HHHH--HHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDS--FKSI--VDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~--w~~I--i~yI~~qf~~yL~eE~~i~  186 (650)
                      +|-.|||||||++.|.+.+..-.+.  |-.|..|+.-.++.....+.+. .-+  =.|+  .|-|+.|=-.-|       
T Consensus       174 aG~PNVGKSSlv~~lT~AkpEvA~Y--PFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL-------  244 (346)
T COG1084         174 AGYPNVGKSSLVRKLTTAKPEVAPY--PFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILAL-------  244 (346)
T ss_pred             ecCCCCcHHHHHHHHhcCCCccCCC--CccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHH-------
Confidence            9999999999999999986433222  2333344333333222222221 000  0111  222222211111       


Q ss_pred             hcccccCCceeeEEEEEEcCCCCCCCcch--HHHHHHhccC--CCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEE
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGHGLKSLD--LVCMKKLDSK--VNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIY  262 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h~Lk~lD--I~~mk~L~~~--vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if  262 (650)
                      |.   + +   .|+|||+.|+.++.-.++  +.++..+...  .++++|++|+|....+.+......+...-....+++.
T Consensus       245 ~h---l-~---~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~nK~D~~~~e~~~~~~~~~~~~~~~~~~~~~  317 (346)
T COG1084         245 RH---L-A---GVILFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVINKIDIADEEKLEEIEASVLEEGGEEPLKIS  317 (346)
T ss_pred             HH---h-c---CeEEEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEEecccccchhHHHHHHHHHHhhcccccccee
Confidence            11   1 1   378999999988766665  4555666543  4899999999999888877766665444333334455


Q ss_pred             eCC
Q psy8479         263 EFP  265 (650)
Q Consensus       263 ~f~  265 (650)
                      .+.
T Consensus       318 ~~~  320 (346)
T COG1084         318 ATK  320 (346)
T ss_pred             eee
Confidence            444

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=97.74  E-value=0.00042  Score=80.69  Aligned_cols=134  Identities=13%  Similarity=0.223  Sum_probs=83.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCC-CCCCCCcEEEEEEEEEeeCC-ceeec-chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTP-SPHSLPSVKLKAHTYELQEN-NVKLK-EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~-s~~~~~T~~I~~~~~~l~e~-g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|..++|||||||+|.+.+....+ ....+.|+.+....+...++ .+.+. .-...   +|+..    ++..       
T Consensus         6 ~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe---~fi~~----m~~g-------   71 (614)
T PRK10512          6 AGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHE---KFLSN----MLAG-------   71 (614)
T ss_pred             ECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHH---HHHHH----HHHH-------
Confidence            999999999999999986532221 22345566554333333222 12222 22221   12211    1111       


Q ss_pred             ccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHHHHHHHHHHHHHHHHCC---CcEEe
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSELQKFKTNIMTELTSNG---VHIYE  263 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~El~~~K~~I~~~L~~~~---I~if~  263 (650)
                         +  ..++++++++.. .+++++.+.+.+..+.. .++ +|+|+||+|...++.+...+..+++.+...+   ..++.
T Consensus        72 ---~--~~~D~~lLVVda-~eg~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~  145 (614)
T PRK10512         72 ---V--GGIDHALLVVAC-DDGVMAQTREHLAILQLTGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFV  145 (614)
T ss_pred             ---h--hcCCEEEEEEEC-CCCCcHHHHHHHHHHHHcCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEE
Confidence               1  125778888764 47888988888888764 455 5799999999988888888888888877654   45665


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       146 VS  147 (614)
T PRK10512        146 TA  147 (614)
T ss_pred             Ee
Confidence            54

>cd04157 Arl6 Arl6 subfamily

Probab=97.73  E-value=0.0001  Score=69.10  Aligned_cols=21  Identities=19%  Similarity=0.184  Sum_probs=18.7

Q ss_pred             eeecCCCCCChhhHhhhhhCcC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~  130 (650)
                      .+ +|.+|+|||||||.|.+..
T Consensus         3 ~~-vG~~~~GKTsl~~~l~~~~   23 (162)
T cd04157           3 LV-VGLDNSGKTTIINQLKPEN   23 (162)
T ss_pred             EE-ECCCCCCHHHHHHHHcccC
Confidence            35 9999999999999999864

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=97.73  E-value=0.00013  Score=68.25  Aligned_cols=22  Identities=27%  Similarity=0.356  Sum_probs=19.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|+...+..
T Consensus         6 ~G~~~~GKTsl~~~l~~~~~~~   27 (164)
T cd04139           6 VGAGGVGKSALTLQFMYDEFVE   27 (164)
T ss_pred             ECCCCCCHHHHHHHHHhCCCcc
Confidence            9999999999999999866543

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=97.73  E-value=0.00014  Score=72.10  Aligned_cols=22  Identities=18%  Similarity=0.447  Sum_probs=19.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|.+..+..
T Consensus         6 vG~~~vGKTsli~~l~~~~~~~   27 (201)
T cd04107           6 IGDLGVGKTSIIKRYVHGIFSQ   27 (201)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCC
Confidence            9999999999999999876543

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.

>cd04116 Rab9 Rab9 subfamily

Probab=97.72  E-value=0.00017  Score=68.65  Aligned_cols=22  Identities=32%  Similarity=0.635  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|.+..+..
T Consensus        11 vG~~~~GKTsli~~~~~~~~~~   32 (170)
T cd04116          11 LGDGGVGKSSLMNRYVTNKFDT   32 (170)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCc
Confidence            9999999999999999876544

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

>cd04110 Rab35 Rab35 subfamily

Probab=97.71  E-value=0.00015  Score=71.89  Aligned_cols=128  Identities=20%  Similarity=0.282  Sum_probs=63.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....++.+  ..+....+.+.+..+.+.     + ..+..+.       ..|       
T Consensus        12 vG~~~vGKTsli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~-------~~~-------   75 (199)
T cd04110          12 IGDSGVGKSSLLLRFADNTFSGSYITTIG--VDFKIRTVEINGERVKLQIWDTAGQERFRTIT-------STY-------   75 (199)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCcCcccc--ceeEEEEEEECCEEEEEEEEeCCCchhHHHHH-------HHH-------
Confidence            99999999999999998765432211111  122222333333223332     1 1122111       111       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIY  262 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if  262 (650)
                            +.+  .++++|++.++.. .+..+.  +..++.....++++.|++|.|.......  ....+.+.....++.+|
T Consensus        76 ------~~~--a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~~~--~~~~~~~~~~~~~~~~~  145 (199)
T cd04110          76 ------YRG--THGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERKVV--ETEDAYKFAGQMGISLF  145 (199)
T ss_pred             ------hCC--CcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccccccccc--CHHHHHHHHHHcCCEEE
Confidence                  112  3577888776532 222221  1222223345789999999997643221  11223333445567777


Q ss_pred             eCC
Q psy8479         263 EFP  265 (650)
Q Consensus       263 ~f~  265 (650)
                      ...
T Consensus       146 e~S  148 (199)
T cd04110         146 ETS  148 (199)
T ss_pred             EEE
Confidence            654

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=97.71  E-value=8.6e-05  Score=86.01  Aligned_cols=131  Identities=15%  Similarity=0.199  Sum_probs=72.3

Q ss_pred             CCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         113 CETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       113 G~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      |.+|+|||||+|.|.+.+.  ..+..++.|+......+.+.+..+.+.    .+......  .++          ++.|.
T Consensus         1 G~pNvGKSSL~N~Ltg~~~--~v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~~~s--~~e----------~v~~~   66 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQ--TVGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFS--LEE----------EVARD   66 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCC--eecCCCCeEEEEEEEEEEECCeEEEEEECCCccccCccc--hHH----------HHHHH
Confidence            8999999999999998753  345566777766554454443333333    11221111  000          11111


Q ss_pred             ccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                        .+.....++|+++++.+.  +. .++.....+. ..++++.|+||+|...........+.+.   +..+++++...
T Consensus        67 --~l~~~~aDvvI~VvDat~--le-r~l~l~~ql~~~~~PiIIVlNK~Dl~~~~~i~~d~~~L~---~~lg~pvv~tS  136 (591)
T TIGR00437        67 --YLLNEKPDLVVNVVDASN--LE-RNLYLTLQLLELGIPMILALNLVDEAEKKGIRIDEEKLE---ERLGVPVVPTS  136 (591)
T ss_pred             --HHhhcCCCEEEEEecCCc--ch-hhHHHHHHHHhcCCCEEEEEehhHHHHhCCChhhHHHHH---HHcCCCEEEEE
Confidence              011234678888888753  32 2444444443 5679999999999864433322222222   23467777654

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.

>cd04111 Rab39 Rab39 subfamily

Probab=97.71  E-value=0.00019  Score=72.22  Aligned_cols=21  Identities=24%  Similarity=0.434  Sum_probs=19.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|||||||||.|++.++.
T Consensus         8 vG~~~vGKTsLi~~l~~~~~~   28 (211)
T cd04111           8 IGDSTVGKSSLLKRFTEGRFA   28 (211)
T ss_pred             ECCCCCCHHHHHHHHHcCCCC
Confidence            999999999999999987653

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.

>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=97.69  E-value=0.00016  Score=69.00  Aligned_cols=25  Identities=28%  Similarity=0.352  Sum_probs=21.3

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      .| +|..++|||||||+|++..++..
T Consensus         2 ~v-~G~~ssGKSTliNaLlG~~ilp~   26 (168)
T PF00350_consen    2 AV-VGQFSSGKSTLINALLGRPILPS   26 (168)
T ss_dssp             EE-EEBTTSSHHHHHHHHHTSS-SSS
T ss_pred             EE-EcCCCCCHHHHHHHHHhcccCcc
Confidence            46 89999999999999999987654

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 ....

>cd04151 Arl1 Arl1 subfamily

Probab=97.69  E-value=0.0001  Score=69.53  Aligned_cols=104  Identities=16%  Similarity=0.206  Sum_probs=54.8

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      .+ +|.+|+|||||+|.|........     .+|+.++...+..  .++.+.   ......   | ...+..|+      
T Consensus         3 ~l-vG~~~~GKTsl~~~l~~~~~~~~-----~~t~~~~~~~~~~--~~~~~~i~Dt~G~~~---~-~~~~~~~~------   64 (158)
T cd04151           3 LI-LGLDNAGKTTILYRLQLGEVVTT-----IPTIGFNVETVTY--KNLKFQVWDLGGQTS---I-RPYWRCYY------   64 (158)
T ss_pred             EE-ECCCCCCHHHHHHHHccCCCcCc-----CCccCcCeEEEEE--CCEEEEEEECCCCHH---H-HHHHHHHh------
Confidence            45 99999999999999977654321     1222222222222  223322   111110   0 01111122      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                               .+.++++|++..+.. .+....-.++..+.    ...|++.|++|+|...
T Consensus        65 ---------~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~  114 (158)
T cd04151          65 ---------SNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPG  114 (158)
T ss_pred             ---------cCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCC
Confidence                     136789999986542 12222333333333    2579999999999864

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=97.68  E-value=0.00016  Score=71.42  Aligned_cols=24  Identities=25%  Similarity=0.612  Sum_probs=20.3

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|+|||||||.|++..+..
T Consensus         3 ~v-vG~~~vGKTsll~~~~~~~~~~   26 (198)
T cd04147           3 VF-MGAAGVGKTALIQRFLYDTFEP   26 (198)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCCCc
Confidence            45 9999999999999999876543

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=97.68  E-value=0.00019  Score=70.17  Aligned_cols=21  Identities=29%  Similarity=0.287  Sum_probs=18.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+|||||||.|.+..+.
T Consensus        23 vG~~~~GKTsli~~l~~~~~~   43 (184)
T smart00178       23 LGLDNAGKTTLLHMLKNDRLA   43 (184)
T ss_pred             ECCCCCCHHHHHHHHhcCCCc
Confidence            999999999999999987543

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=97.67  E-value=0.00014  Score=69.93  Aligned_cols=100  Identities=17%  Similarity=0.291  Sum_probs=54.1

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ +|.+|+|||||+|.|.+. +....    .+|..++...+.+  .++.+.     . .....+       +..|+   
T Consensus         3 ~~-~G~~~~GKTsl~~~l~~~-~~~~~----~~t~g~~~~~~~~--~~~~~~i~D~~G~~~~~~~-------~~~~~---   64 (167)
T cd04161           3 LT-VGLDNAGKTTLVSALQGE-IPKKV----APTVGFTPTKLRL--DKYEVCIFDLGGGANFRGI-------WVNYY---   64 (167)
T ss_pred             EE-ECCCCCCHHHHHHHHhCC-CCccc----cCcccceEEEEEE--CCEEEEEEECCCcHHHHHH-------HHHHH---
Confidence            35 899999999999999876 22211    1222222223333  233332     1 112221       12222   


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh-c----cCCCeeeeeecccCCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL-D----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L-~----~~vnvIPVItKAD~Lt  239 (650)
                          +        ..|+++|++..+.. .+..... .++.+ .    ..+|++.|++|+|.-.
T Consensus        65 ----~--------~a~~ii~V~D~s~~~s~~~~~~-~l~~l~~~~~~~~~piliv~NK~Dl~~  114 (167)
T cd04161          65 ----A--------EAHGLVFVVDSSDDDRVQEVKE-ILRELLQHPRVSGKPILVLANKQDKKN  114 (167)
T ss_pred             ----c--------CCCEEEEEEECCchhHHHHHHH-HHHHHHcCccccCCcEEEEEeCCCCcC
Confidence                1        24689999987643 2332222 23333 2    2569999999999743

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=97.65  E-value=0.00038  Score=66.53  Aligned_cols=122  Identities=17%  Similarity=0.205  Sum_probs=68.8

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhH-HHHHHHHHHHHHHHHHHHHhh
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSF-KSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w-~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      -+-| ||++|+|||||+++|-+....      ..+|+.+......|+-.|-++-...| ..|+.                
T Consensus         3 riml-iG~~g~GKTTL~q~L~~~~~~------~~KTq~i~~~~~~IDTPGEyiE~~~~y~aLi~----------------   59 (143)
T PF10662_consen    3 RIML-IGPSGSGKTTLAQALNGEEIR------YKKTQAIEYYDNTIDTPGEYIENPRFYHALIV----------------   59 (143)
T ss_pred             eEEE-ECCCCCCHHHHHHHHcCCCCC------cCccceeEecccEEECChhheeCHHHHHHHHH----------------
Confidence            3456 999999999999999997543      23455555444445555533332222 22221                


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCC-CHHHHHHHHHHHHHHHHHCCCc-EEe
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTI-SKSELQKFKTNIMTELTSNGVH-IYE  263 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~L-t~~El~~~K~~I~~~L~~~~I~-if~  263 (650)
                           ...|  .++++++.+.+.. ....--.|.+.+  ..+||=||||+|.. +...+.    +.++.|+..|++ ||.
T Consensus        60 -----ta~d--ad~V~ll~dat~~-~~~~pP~fa~~f--~~pvIGVITK~Dl~~~~~~i~----~a~~~L~~aG~~~if~  125 (143)
T PF10662_consen   60 -----TAQD--ADVVLLLQDATEP-RSVFPPGFASMF--NKPVIGVITKIDLPSDDANIE----RAKKWLKNAGVKEIFE  125 (143)
T ss_pred             -----HHhh--CCEEEEEecCCCC-CccCCchhhccc--CCCEEEEEECccCccchhhHH----HHHHHHHHcCCCCeEE
Confidence                 0112  3467788776642 222222233333  24899999999998 333333    334455666653 554


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       126 vS  127 (143)
T PF10662_consen  126 VS  127 (143)
T ss_pred             EE
Confidence            43

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

>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=97.65  E-value=0.0002  Score=70.33  Aligned_cols=83  Identities=18%  Similarity=0.326  Sum_probs=56.4

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHH-HHCC------CcEEeCCC-C
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTEL-TSNG------VHIYEFPT-D  267 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L-~~~~------I~if~f~~-d  267 (650)
                      .+++++++.+. .++.....+.++.+. ..+++|.||+|+|.+ ..++....+.+.+.| +..+      ++++.... .
T Consensus        94 ~D~ailvVda~-~g~~~~~~~~l~~~~~~~~p~ivvlNK~D~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~  171 (188)
T PF00009_consen   94 ADIAILVVDAN-DGIQPQTEEHLKILRELGIPIIVVLNKMDLI-EKELEEIIEEIKEKLLKEYGENGEEIVPVIPISALT  171 (188)
T ss_dssp             SSEEEEEEETT-TBSTHHHHHHHHHHHHTT-SEEEEEETCTSS-HHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTT
T ss_pred             cccceeeeecc-cccccccccccccccccccceEEeeeeccch-hhhHHHHHHHHHHHhccccccCccccceEEEEecCC
Confidence            47889999875 578899999999987 467999999999999 777777777777555 3432      34554432 2


Q ss_pred             chhHHHHHHHhhhc
Q psy8479         268 DETMSDVNAAMTIF  281 (650)
Q Consensus       268 ~~~~~~~~~~~~~~  281 (650)
                      ......+.+.+...
T Consensus       172 g~gi~~Ll~~l~~~  185 (188)
T PF00009_consen  172 GDGIDELLEALVEL  185 (188)
T ss_dssp             TBTHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHh
Confidence            22344444444444

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 ....

>PLN03110 Rab GTPase; Provisional

Probab=97.64  E-value=0.0002  Score=72.17  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ||.+|+||||||+.|.+..+..
T Consensus        18 vG~~~vGKStLi~~l~~~~~~~   39 (216)
T PLN03110         18 IGDSGVGKSNILSRFTRNEFCL   39 (216)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCC
Confidence            9999999999999999876543

>PRK09866 hypothetical protein; Provisional

Probab=97.64  E-value=0.00076  Score=77.82  Aligned_cols=89  Identities=12%  Similarity=0.107  Sum_probs=56.0

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhccC---CCeeeeeecccCCCHHH--HHHHHHHHHHHHHHCCC---cEEeCCC-
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDSK---VNIIPIIAKADTISKSE--LQKFKTNIMTELTSNGV---HIYEFPT-  266 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~---vnvIPVItKAD~Lt~~E--l~~~K~~I~~~L~~~~I---~if~f~~-  266 (650)
                      +++++||++..+ +.+.+.|..+++.|...   +|+|.||+|+|.....+  ...++..|...|...++   .||.... 
T Consensus       258 eADvVLFVVDat-~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSAl  336 (741)
T PRK09866        258 RASAVLAVLDYT-QLKSISDEEVREAILAVGQSVPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSSM  336 (741)
T ss_pred             hCCEEEEEEeCC-CCCChhHHHHHHHHHhcCCCCCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeCC
Confidence            357889988864 45778888888888742   59999999999976333  45566666656554343   5776653 


Q ss_pred             CchhHHHHHHHhhhccCCC
Q psy8479         267 DDETMSDVNAAMTIFSSIP  285 (650)
Q Consensus       267 d~~~~~~~~~~~~~~~~~P  285 (650)
                      .......+...+.....+|
T Consensus       337 kG~nid~LLdeI~~~~~l~  355 (741)
T PRK09866        337 WGYLANRARHELANNGKLP  355 (741)
T ss_pred             CCCCHHHHHHHHHhCCCCC
Confidence            2222333444444433344

>cd04148 RGK RGK subfamily

Probab=97.63  E-value=0.00016  Score=73.23  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=19.4

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      .+ ||.+|||||||||.|++..+.
T Consensus         4 ~l-vG~~gvGKTsLi~~~~~~~~~   26 (221)
T cd04148           4 VM-LGSPGVGKSSLASQFTSGEYD   26 (221)
T ss_pred             EE-ECCCCCcHHHHHHHHhcCCcC
Confidence            45 999999999999999876554

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

>cd04135 Tc10 TC10 subfamily

Probab=97.63  E-value=0.0002  Score=68.35  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||+|.|.+..+..
T Consensus         6 ~G~~~~GKTsl~~~~~~~~~~~   27 (174)
T cd04135           6 VGDGAVGKTCLLMSYANDAFPE   27 (174)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCC
Confidence            9999999999999999877543

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=97.62  E-value=0.00025  Score=71.81  Aligned_cols=125  Identities=14%  Similarity=0.244  Sum_probs=62.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+||||||||+.++...+......+.+.  .+....+.+....+.+.      ...+..+.       ..|       
T Consensus        19 vG~~gvGKTsli~~~~~~~f~~~~~~tig~--~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-------~~~-------   82 (219)
T PLN03071         19 VGDGGTGKTTFVKRHLTGEFEKKYEPTIGV--EVHPLDFFTNCGKIRFYCWDTAGQEKFGGLR-------DGY-------   82 (219)
T ss_pred             ECcCCCCHHHHHHHHhhCCCCCccCCccce--eEEEEEEEECCeEEEEEEEECCCchhhhhhh-------HHH-------
Confidence            999999999999998876654332222221  12112233333334433      11222221       011       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHH---hccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKK---LDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~---L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                            +  ...|++++++..+.. .+..+. .+++.   ....++++.|.+|+|.......   ...+ +.....++.+
T Consensus        83 ------~--~~~~~~ilvfD~~~~~s~~~i~-~w~~~i~~~~~~~piilvgNK~Dl~~~~v~---~~~~-~~~~~~~~~~  149 (219)
T PLN03071         83 ------Y--IHGQCAIIMFDVTARLTYKNVP-TWHRDLCRVCENIPIVLCGNKVDVKNRQVK---AKQV-TFHRKKNLQY  149 (219)
T ss_pred             ------c--ccccEEEEEEeCCCHHHHHHHH-HHHHHHHHhCCCCcEEEEEEchhhhhccCC---HHHH-HHHHhcCCEE
Confidence                  1  124677888776532 222221 22333   3356799999999997422110   1122 2234466777


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       150 ~e~S  153 (219)
T PLN03071        150 YEIS  153 (219)
T ss_pred             EEcC
Confidence            7664

>cd04125 RabA_like RabA-like subfamily

Probab=97.60  E-value=0.00029  Score=68.71  Aligned_cols=24  Identities=25%  Similarity=0.458  Sum_probs=20.6

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .| +|.+|+|||||||.|.+..+..
T Consensus         4 ~v-~G~~~vGKSsli~~~~~~~~~~   27 (188)
T cd04125           4 VI-IGDYGVGKSSLLKRFTEDEFSE   27 (188)
T ss_pred             EE-ECCCCCCHHHHHHHHhcCCCCC
Confidence            45 9999999999999999876643

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.

>cd04112 Rab26 Rab26 subfamily

Probab=97.60  E-value=0.00027  Score=69.38  Aligned_cols=21  Identities=24%  Similarity=0.444  Sum_probs=19.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      ||.+|+|||||+|.|.+..+.
T Consensus         6 vG~~~vGKTSli~~~~~~~~~   26 (191)
T cd04112           6 LGDSGVGKTCLLVRFKDGAFL   26 (191)
T ss_pred             ECCCCCCHHHHHHHHhcCCCC
Confidence            999999999999999987654

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.

>cd04127 Rab27A Rab27a subfamily

Probab=97.59  E-value=0.00028  Score=67.81  Aligned_cols=22  Identities=18%  Similarity=0.489  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|.+.++..
T Consensus        10 vG~~~vGKTsli~~~~~~~~~~   31 (180)
T cd04127          10 LGDSGVGKTSFLYQYTDNKFNP   31 (180)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCc
Confidence            9999999999999999876543

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

>cd04149 Arf6 Arf6 subfamily

Probab=97.59  E-value=0.00031  Score=67.77  Aligned_cols=98  Identities=16%  Similarity=0.244  Sum_probs=54.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+||||||+.|....+...     .+|+.+....+..  .++.+.     + ..+..+.       ..|       
T Consensus        15 ~G~~~~GKTsli~~l~~~~~~~~-----~~t~g~~~~~~~~--~~~~~~l~Dt~G~~~~~~~~-------~~~-------   73 (168)
T cd04149          15 LGLDAAGKTTILYKLKLGQSVTT-----IPTVGFNVETVTY--KNVKFNVWDVGGQDKIRPLW-------RHY-------   73 (168)
T ss_pred             ECcCCCCHHHHHHHHccCCCccc-----cCCcccceEEEEE--CCEEEEEEECCCCHHHHHHH-------HHH-------
Confidence            99999999999999986544321     1122222222222  233332     1 1111111       111       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhcc----CCCeeeeeecccCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLDS----KVNIIPIIAKADTI  238 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~~----~vnvIPVItKAD~L  238 (650)
                            +.  ..|+++|++..+.+ .+......+.+.+..    .++++.|.+|+|..
T Consensus        74 ------~~--~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  123 (168)
T cd04149          74 ------YT--GTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLP  123 (168)
T ss_pred             ------hc--cCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCc
Confidence                  11  25689999987654 344444434344432    36999999999974

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=97.59  E-value=0.0002  Score=69.44  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|++..+..
T Consensus         6 vG~~~vGKTsli~~l~~~~~~~   27 (187)
T cd04132           6 VGDGGCGKTCLLIVYSQGKFPE   27 (187)
T ss_pred             ECCCCCCHHHHHHHHHhCcCCC
Confidence            9999999999999999876543

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.

>cd04176 Rap2 Rap2 subgroup

Probab=97.58  E-value=0.00031  Score=66.25  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||++.++...+..
T Consensus         7 ~G~~~vGKTsl~~~~~~~~~~~   28 (163)
T cd04176           7 LGSGGVGKSALTVQFVSGTFIE   28 (163)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCC
Confidence            9999999999999999876654

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=97.57  E-value=0.0002  Score=68.68  Aligned_cols=124  Identities=15%  Similarity=0.302  Sum_probs=63.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee--CCceeec------chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ--ENNVKLK------EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~--e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +|.+|+|||||||.++...+....    .+|..+......+.  .+.+.+.      ...+..+.       ..|     
T Consensus         6 vG~~~vGKTsli~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-------~~~-----   69 (166)
T cd00877           6 VGDGGTGKTTFVKRHLTGEFEKKY----VATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLR-------DGY-----   69 (166)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCC----CCceeeEEEEEEEEECCEEEEEEEEECCCChhhcccc-------HHH-----
Confidence            999999999999999976543321    22333332233222  2223332      11111111       001     


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCC-CCCcc--hHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGH-GLKSL--DLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~l--DI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                              +  ...|++++++..+.. .+..+  -+..++.....+++|.|.+|.|.... +.   +....+....+++.
T Consensus        70 --------~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~~-~~---~~~~~~~~~~~~~~  135 (166)
T cd00877          70 --------Y--IGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKDR-KV---KAKQITFHRKKNLQ  135 (166)
T ss_pred             --------h--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhcccc-cC---CHHHHHHHHHcCCE
Confidence                    1  124788888876431 11111  11222233336899999999998622 21   11222333456777


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       136 ~~e~S  140 (166)
T cd00877         136 YYEIS  140 (166)
T ss_pred             EEEEe
Confidence            88765

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=97.56  E-value=0.0003  Score=70.57  Aligned_cols=127  Identities=20%  Similarity=0.289  Sum_probs=62.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|.+..+......+.+  ..+....+.+.+..+.+.      ...+..+.       ..|       
T Consensus        12 vG~~gvGKStLi~~l~~~~~~~~~~~ti~--~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~-------~~~-------   75 (210)
T PLN03108         12 IGDTGVGKSCLLLQFTDKRFQPVHDLTIG--VEFGARMITIDNKPIKLQIWDTAGQESFRSIT-------RSY-------   75 (210)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCCcc--ceEEEEEEEECCEEEEEEEEeCCCcHHHHHHH-------HHH-------
Confidence            99999999999999998765432222222  122122233433333332      11111111       111       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHh----ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKL----DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L----~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                            +.  ..+++++++..+... +..+. .++..+    ....++|.|.+|+|........  .....+.++.+++.
T Consensus        76 ------~~--~ad~~vlv~D~~~~~s~~~l~-~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  144 (210)
T PLN03108         76 ------YR--GAAGALLVYDITRRETFNHLA-SWLEDARQHANANMTIMLIGNKCDLAHRRAVS--TEEGEQFAKEHGLI  144 (210)
T ss_pred             ------hc--cCCEEEEEEECCcHHHHHHHH-HHHHHHHHhcCCCCcEEEEEECccCccccCCC--HHHHHHHHHHcCCE
Confidence                  11  246788888765422 22211 222222    2357899999999975422111  11222233456677


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       145 ~~e~S  149 (210)
T PLN03108        145 FMEAS  149 (210)
T ss_pred             EEEEe
Confidence            77654

>cd04144 Ras2 Ras2 subfamily

Probab=97.55  E-value=0.00051  Score=67.37  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=20.1

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|+|||||||.|++..+..
T Consensus         3 ~i-vG~~~vGKTsli~~l~~~~f~~   26 (190)
T cd04144           3 VV-LGDGGVGKTALTIQLCLNHFVE   26 (190)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCCCc
Confidence            45 9999999999999999766543

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.

>cd04177 RSR1 RSR1 subgroup

Probab=97.54  E-value=0.00036  Score=66.64  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=20.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      +|.+|+|||||||.|.+..+...
T Consensus         7 iG~~~~GKTsli~~~~~~~~~~~   29 (168)
T cd04177           7 LGAGGVGKSALTVQFVQNVFIES   29 (168)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCcc
Confidence            99999999999999998776543

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=97.54  E-value=0.0004  Score=67.84  Aligned_cols=24  Identities=21%  Similarity=0.123  Sum_probs=20.2

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      +.| +|.+|+|||||||.|....+.
T Consensus         6 v~~-vG~~~~GKTsli~~~~~~~~~   29 (183)
T cd04152           6 IVM-LGLDSAGKTTVLYRLKFNEFV   29 (183)
T ss_pred             EEE-ECCCCCCHHHHHHHHhcCCcC
Confidence            445 999999999999999876554

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.

>cd04155 Arl3 Arl3 subfamily

Probab=97.54  E-value=0.00035  Score=66.58  Aligned_cols=20  Identities=20%  Similarity=0.272  Sum_probs=18.4

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|+|||||+|.|++...
T Consensus        20 ~G~~g~GKStLl~~l~~~~~   39 (173)
T cd04155          20 LGLDNAGKTTILKQLASEDI   39 (173)
T ss_pred             EccCCCCHHHHHHHHhcCCC
Confidence            99999999999999998743

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.

>cd00879 Sar1 Sar1 subfamily

Probab=97.53  E-value=0.00028  Score=68.64  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~  131 (650)
                      +.+ +|.+|+|||||||.|.+...
T Consensus        22 i~i-lG~~~~GKStLi~~l~~~~~   44 (190)
T cd00879          22 ILF-LGLDNAGKTTLLHMLKDDRL   44 (190)
T ss_pred             EEE-ECCCCCCHHHHHHHHhcCCC
Confidence            345 99999999999999998764

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=97.53  E-value=0.00032  Score=66.59  Aligned_cols=20  Identities=30%  Similarity=0.536  Sum_probs=18.1

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||.+|+||||||+.++...+
T Consensus         5 vG~~~~GKtsli~~~~~~~~   24 (165)
T cd04146           5 LGASGVGKSALVVRFLTKRF   24 (165)
T ss_pred             ECCCCCcHHHHHHHHHhCcc
Confidence            99999999999999987654

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

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=97.53  E-value=6.7e-05  Score=81.98  Aligned_cols=58  Identities=17%  Similarity=0.336  Sum_probs=37.9

Q ss_pred             CCCCCcchHHHHHHhcc-CCCeeeeeecccC------------CCHHH-HHHHHHHHHHHHHHCCC---cEEeCC
Q psy8479         208 GHGLKSLDLVCMKKLDS-KVNIIPIIAKADT------------ISKSE-LQKFKTNIMTELTSNGV---HIYEFP  265 (650)
Q Consensus       208 ~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~------------Lt~~E-l~~~K~~I~~~L~~~~I---~if~f~  265 (650)
                      ..+++..|+.+.+.+.. +-++..|-||.|.            ++.++ ++..++.+.+.|++.++   +||-..
T Consensus       123 s~rf~~ndv~La~~i~~~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS  197 (376)
T PF05049_consen  123 SERFTENDVQLAKEIQRMGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLVS  197 (376)
T ss_dssp             SSS--HHHHHHHHHHHHTT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB-
T ss_pred             CCCCchhhHHHHHHHHHcCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEEe
Confidence            36899999999999986 5599999999995            33333 56677788888888776   577543

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.

>smart00053 DYNc Dynamin, GTPase

Probab=97.52  E-value=0.00052  Score=70.97  Aligned_cols=41  Identities=24%  Similarity=0.258  Sum_probs=27.9

Q ss_pred             EEEEEcCCCCCCCcch-HHHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         200 CLYFICPTGHGLKSLD-LVCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       200 cLYfI~ps~h~Lk~lD-I~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                      .|++++ ...++...| +++++++.. ...+|.|+||+|.+.+.
T Consensus       166 IL~Vvd-a~~d~~~~d~l~ia~~ld~~~~rti~ViTK~D~~~~~  208 (240)
T smart00053      166 ILAVTP-ANVDLANSDALKLAKEVDPQGERTIGVITKLDLMDEG  208 (240)
T ss_pred             EEEEEE-CCCCCCchhHHHHHHHHHHcCCcEEEEEECCCCCCcc
Confidence            344443 345677767 588888874 45888888888888654

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd01882 BMS1 Bms1

Probab=97.51  E-value=0.001  Score=67.79  Aligned_cols=67  Identities=15%  Similarity=0.324  Sum_probs=45.2

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHH-HHHHHHHHHHHHHH---CCCcEEeC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSE-LQKFKTNIMTELTS---NGVHIYEF  264 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~E-l~~~K~~I~~~L~~---~~I~if~f  264 (650)
                      .++|+++++.+ .++...|..++..+.. ..+ +|.|++|.|.+...+ +...++.+++.+..   .+.+++..
T Consensus       104 aDvVllviDa~-~~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~i  176 (225)
T cd01882         104 ADLVLLLIDAS-FGFEMETFEFLNILQVHGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYL  176 (225)
T ss_pred             cCEEEEEEecC-cCCCHHHHHHHHHHHHcCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEE
Confidence            46888888864 6788888888888864 456 455999999985543 45556666654442   23455544

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=97.49  E-value=0.0013  Score=72.57  Aligned_cols=133  Identities=14%  Similarity=0.173  Sum_probs=76.0

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCC------------CCC--CCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFE------------STP--SPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVD  169 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~------------~~~--s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~  169 (650)
                      +-+++. +|..+.|||||+++|++....            ...  -...+.|..+....|......+.+. .....   +
T Consensus        11 ~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~---~   87 (394)
T PRK12736         11 PHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHA---D   87 (394)
T ss_pred             CeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHH---H
Confidence            344444 999999999999999974211            000  0123445444322222222222222 22222   2


Q ss_pred             HHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHHHHH-H
Q psy8479         170 YIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSELQK-F  246 (650)
Q Consensus       170 yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~El~~-~  246 (650)
                      |+        ..-.   +.   .  ...|++++++..+ .++.+.+.+.+..+.. .++ +|.|++|+|..+.+++.. .
T Consensus        88 f~--------~~~~---~~---~--~~~d~~llVvd~~-~g~~~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~~~~~~i  150 (394)
T PRK12736         88 YV--------KNMI---TG---A--AQMDGAILVVAAT-DGPMPQTREHILLARQVGVPYLVVFLNKVDLVDDEELLELV  150 (394)
T ss_pred             HH--------HHHH---HH---H--hhCCEEEEEEECC-CCCchhHHHHHHHHHHcCCCEEEEEEEecCCcchHHHHHHH
Confidence            22        1111   11   1  2468899988864 6788888888887763 566 678999999987666544 4


Q ss_pred             HHHHHHHHHHCC
Q psy8479         247 KTNIMTELTSNG  258 (650)
Q Consensus       247 K~~I~~~L~~~~  258 (650)
                      ++.+.+.|...+
T Consensus       151 ~~~i~~~l~~~~  162 (394)
T PRK12736        151 EMEVRELLSEYD  162 (394)
T ss_pred             HHHHHHHHHHhC
Confidence            456776666544

>cd01870 RhoA_like RhoA-like subfamily

Probab=97.47  E-value=0.00032  Score=67.02  Aligned_cols=25  Identities=16%  Similarity=0.186  Sum_probs=21.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +.+ +|.+|+||||||+.|.+..+..
T Consensus         4 i~i-iG~~~~GKTsl~~~~~~~~~~~   28 (175)
T cd01870           4 LVI-VGDGACGKTCLLIVFSKDQFPE   28 (175)
T ss_pred             EEE-ECCCCCCHHHHHHHHhcCCCCC
Confidence            456 9999999999999999876543

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

>COG5406 Nucleosome binding factor SPN, SPT16 subunit [Transcription / DNA replication, recombination, and repair / Chromatin structure and dynamics]

Probab=97.47  E-value=1.7e-05  Score=89.02  Aligned_cols=26  Identities=27%  Similarity=0.292  Sum_probs=21.2

Q ss_pred             CccccCCccccCcccCCCCCcchhhh
Q psy8479         326 PTIDKNLYSFFDCKYFNGLEEEEEEE  351 (650)
Q Consensus       326 ~ti~~~~~~~~~~~g~~~leeeee~e  351 (650)
                      |+|..||.+||.+|||+|+....+++
T Consensus       905 ksi~~DPi~FfedGgW~fL~~gsddE  930 (1001)
T COG5406         905 KSIMKDPISFFEDGGWSFLMVGSDDE  930 (1001)
T ss_pred             HHHhcCcHHHhhcCcceeeecCCccc
Confidence            67899999999999999986544433

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=97.47  E-value=0.00057  Score=66.15  Aligned_cols=21  Identities=29%  Similarity=0.418  Sum_probs=19.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+||||||+.+.+..+.
T Consensus         8 vG~~~vGKTsL~~~~~~~~f~   28 (172)
T cd04141           8 LGAGGVGKSAVTMQFISHSFP   28 (172)
T ss_pred             ECCCCCcHHHHHHHHHhCCCC
Confidence            999999999999999987654

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

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=97.47  E-value=0.00064  Score=68.05  Aligned_cols=117  Identities=15%  Similarity=0.241  Sum_probs=59.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee--CCce--eec-chhHHHHHHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ--ENNV--KLK-EDSFKSIVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~--e~g~--~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      +|.+|+|||||++.|+..+...+..+.     ..+...+.+.  ..++  .|. ......+    ..++..|+.      
T Consensus         6 ~G~~~sGKTsL~~~l~~~~~~~t~~s~-----~~~~~~~~~~~~~~~~~~~l~D~pG~~~~----~~~~~~~~~------   70 (203)
T cd04105           6 LGPSDSGKTALFTKLTTGKYRSTVTSI-----EPNVATFILNSEGKGKKFRLVDVPGHPKL----RDKLLETLK------   70 (203)
T ss_pred             EcCCCCCHHHHHHHHhcCCCCCccCcE-----eecceEEEeecCCCCceEEEEECCCCHHH----HHHHHHHHh------
Confidence            999999999999999987654432111     1111112221  1222  222 1111111    111122221      


Q ss_pred             hcccccCCceeeEEEEEEcCCCC--CCCcchHHHH----HHh---ccCCCeeeeeecccCCCHHHHHHHHHHHHH
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGH--GLKSLDLVCM----KKL---DSKVNIIPIIAKADTISKSELQKFKTNIMT  252 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h--~Lk~lDI~~m----k~L---~~~vnvIPVItKAD~Lt~~El~~~K~~I~~  252 (650)
                             .. +++++|++..+..  .+... ..++    ..+   ...++++.|.+|.|..+.......++.+.+
T Consensus        71 -------~~-~~~vV~VvD~~~~~~~~~~~-~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~~~~i~~~le~  136 (203)
T cd04105          71 -------NS-AKGIVFVVDSATFQKNLKDV-AEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKPAKKIKEQLEK  136 (203)
T ss_pred             -------cc-CCEEEEEEECccchhHHHHH-HHHHHHHHHHHhhccCCCCEEEEecchhhcccCCHHHHHHHHHH
Confidence                   11 5789999987643  12211 1111    111   246899999999998875554444444433

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

>cd04158 ARD1 ARD1 subfamily

Probab=97.46  E-value=0.00055  Score=65.70  Aligned_cols=100  Identities=16%  Similarity=0.287  Sum_probs=54.0

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ ||.+|+|||||||.|.+..+..     ..+|+.+....+..  .++.+.     . .....+       +..|+   
T Consensus         3 vl-vG~~~~GKTsl~~~l~~~~~~~-----~~~T~~~~~~~~~~--~~~~i~l~Dt~G~~~~~~~-------~~~~~---   64 (169)
T cd04158           3 VT-LGLDGAGKTTILFKLKQDEFMQ-----PIPTIGFNVETVEY--KNLKFTIWDVGGKHKLRPL-------WKHYY---   64 (169)
T ss_pred             EE-ECCCCCCHHHHHHHHhcCCCCC-----cCCcCceeEEEEEE--CCEEEEEEECCCChhcchH-------HHHHh---
Confidence            35 9999999999999999864321     12233222222222  233332     1 111111       11121   


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhcc----CCCeeeeeecccCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLDS----KVNIIPIIAKADTI  238 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~~----~vnvIPVItKAD~L  238 (650)
                          +        ..++++|++..+.+ .+......+...+..    ..+++.|.+|+|.-
T Consensus        65 ----~--------~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  113 (169)
T cd04158          65 ----L--------NTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVA  113 (169)
T ss_pred             ----c--------cCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcc
Confidence                1        24789999987643 244443333333322    36999999999963

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

>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=97.45  E-value=0.00013  Score=65.43  Aligned_cols=21  Identities=29%  Similarity=0.577  Sum_probs=18.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+||||||+.|++....
T Consensus         5 ~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    5 LGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             ECSTTSSHHHHHHHHHHSS--
T ss_pred             ECcCCCCHHHHHHHHhcCCCc
Confidence            899999999999999998765

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=97.45  E-value=0.00075  Score=75.04  Aligned_cols=63  Identities=13%  Similarity=0.217  Sum_probs=41.1

Q ss_pred             eeeEEEEEEcCCCC-CCCcchHHHHHHhcc-CC-CeeeeeecccCCC--HHHHHHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGH-GLKSLDLVCMKKLDS-KV-NIIPIIAKADTIS--KSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt--~~El~~~K~~I~~~L~~~~  258 (650)
                      ..+++++++..+.. ++...+.+.+..+.. .+ ++|.|++|.|...  ...+...++.+.+.+...+
T Consensus       107 ~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g  174 (425)
T PRK12317        107 QADAAVLVVAADDAGGVMPQTREHVFLARTLGINQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVG  174 (425)
T ss_pred             cCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCCeEEEEEEccccccccHHHHHHHHHHHHHHHHhhC
Confidence            36789999887532 566666665555543 33 6899999999875  2334555666666665554

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=97.44  E-value=0.0012  Score=66.29  Aligned_cols=62  Identities=8%  Similarity=0.123  Sum_probs=36.0

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-C-CCeeeeeecccCCCH--HHHHHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-K-VNIIPIIAKADTISK--SELQKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt~--~El~~~K~~I~~~L~~~~  258 (650)
                      ..+++++++..+ .++...+......+.. . .++|.|++|.|....  .........++..+...+
T Consensus       100 ~ad~~llVvD~~-~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~  165 (208)
T cd04166         100 TADLAILLVDAR-KGVLEQTRRHSYILSLLGIRHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLG  165 (208)
T ss_pred             hCCEEEEEEECC-CCccHhHHHHHHHHHHcCCCcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcC
Confidence            357888998865 4555555444444432 2 257889999998753  223334445554444444

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.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=97.44  E-value=6.1e-05  Score=78.22  Aligned_cols=79  Identities=14%  Similarity=0.116  Sum_probs=57.7

Q ss_pred             cccccccCCCCCcccc----cccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         536 LGRGIVRSPGERKEKN----AEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       536 l~ltivdtpGfg~~~~----~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      ..+++||||||++...    +.... ..|..|+                    +...+|++||+ +.-........|..+
T Consensus        79 ~~i~vIDTPGl~~~~~~~~~~~~~~-~~I~~~l--------------------~~~~idvIL~V-~rlD~~r~~~~d~~l  136 (249)
T cd01853          79 FKLNIIDTPGLLESVMDQRVNRKIL-SSIKRYL--------------------KKKTPDVVLYV-DRLDMYRRDYLDLPL  136 (249)
T ss_pred             eEEEEEECCCcCcchhhHHHHHHHH-HHHHHHH--------------------hccCCCEEEEE-EcCCCCCCCHHHHHH
Confidence            4689999999998632    11111 1222333                    23458999999 767777888999999


Q ss_pred             HHhccCc------ceEEeeeecCCCCCHHHH
Q psy8479         612 MKKLDSK------VNIIPIIAKADTISKSEL  636 (650)
Q Consensus       612 mk~l~~~------vnviPvIaKaD~lt~~e~  636 (650)
                      ++.|...      .|+|.|+.|+|.++++..
T Consensus       137 lk~I~e~fG~~i~~~~ivV~T~~d~~~p~~~  167 (249)
T cd01853         137 LRAITDSFGPSIWRNAIVVLTHAASSPPDGL  167 (249)
T ss_pred             HHHHHHHhChhhHhCEEEEEeCCccCCCCCC
Confidence            9988864      689999999999988754

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.

>cd04169 RF3 RF3 subfamily

Probab=97.44  E-value=0.00077  Score=70.67  Aligned_cols=58  Identities=17%  Similarity=0.204  Sum_probs=36.9

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                      .+++++++..+ .++......+++.+. ..++++.|++|.|..... .......+++.|..
T Consensus        95 aD~~IlVvda~-~g~~~~~~~i~~~~~~~~~P~iivvNK~D~~~a~-~~~~~~~l~~~l~~  153 (267)
T cd04169          95 VDSAVMVIDAA-KGVEPQTRKLFEVCRLRGIPIITFINKLDREGRD-PLELLDEIEEELGI  153 (267)
T ss_pred             CCEEEEEEECC-CCccHHHHHHHHHHHhcCCCEEEEEECCccCCCC-HHHHHHHHHHHHCC
Confidence            57899999875 355554455555554 367999999999975442 22334455555543

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.

>cd04109 Rab28 Rab28 subfamily

Probab=97.44  E-value=0.00065  Score=68.21  Aligned_cols=21  Identities=19%  Similarity=0.351  Sum_probs=18.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      ||.+|+|||||||.|.+..+.
T Consensus         6 vG~~~vGKSsLi~~l~~~~~~   26 (215)
T cd04109           6 LGDGAVGKTSLCRRFAKEGFG   26 (215)
T ss_pred             ECcCCCCHHHHHHHHhcCCCC
Confidence            999999999999999987653

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=97.43  E-value=0.00079  Score=69.28  Aligned_cols=59  Identities=19%  Similarity=0.317  Sum_probs=40.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSN  257 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~  257 (650)
                      .++|++++..+ .++......+++.+. ..+++|.|++|.|.... ........|++.|..+
T Consensus        88 aD~~IlVvd~~-~g~~~~~~~~~~~~~~~~~P~iivvNK~D~~~a-~~~~~~~~i~~~~~~~  147 (237)
T cd04168          88 LDGAILVISAV-EGVQAQTRILWRLLRKLNIPTIIFVNKIDRAGA-DLEKVYQEIKEKLSSD  147 (237)
T ss_pred             hCeEEEEEeCC-CCCCHHHHHHHHHHHHcCCCEEEEEECccccCC-CHHHHHHHHHHHHCCC
Confidence            36788888765 456665666666665 46799999999998753 2345566666666544

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.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=97.40  E-value=0.00012  Score=71.27  Aligned_cols=27  Identities=26%  Similarity=0.455  Sum_probs=20.4

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      -..| +|.||||||||||+|++.....+
T Consensus        37 ~~vl-~G~SGvGKSSLiN~L~~~~~~~t   63 (161)
T PF03193_consen   37 TSVL-LGQSGVGKSSLINALLPEAKQKT   63 (161)
T ss_dssp             EEEE-ECSTTSSHHHHHHHHHTSS----
T ss_pred             EEEE-ECCCCCCHHHHHHHHHhhcchhh
Confidence            4456 99999999999999999865544

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>KOG1191|consensus

Probab=97.40  E-value=0.00032  Score=78.01  Aligned_cols=122  Identities=21%  Similarity=0.222  Sum_probs=73.2

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHH-HHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKS-IVDYIDNQFEAYLQEE  182 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~-Ii~yI~~qf~~yL~eE  182 (650)
                      .|++.- +|+.|||||||+|+|.+.. .+-+|+.+|-|.......+.+.+..+.|. ...|.. =.+-| ++ ....+.+
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~d-rsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~i-E~-~gI~rA~  343 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSRED-RSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGI-EA-LGIERAR  343 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCC-ceEeCCCCCcchhhheeEeecCCeEEEEEeccccccccCChh-HH-HhHHHHH
Confidence            677666 9999999999999999875 33466777777655444566665555554 445543 00000 01 1112222


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc---cC----------CCeeeeeecccCCCH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD---SK----------VNIIPIIAKADTISK  240 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~---~~----------vnvIPVItKAD~Lt~  240 (650)
                      .++.         |=|+|++.++|.- +....|+.+.+.|.   ..          -.+|.|++|.|..++
T Consensus       344 k~~~---------~advi~~vvda~~-~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  344 KRIE---------RADVILLVVDAEE-SDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK  404 (531)
T ss_pred             HHHh---------hcCEEEEEecccc-cccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence            2232         4489999999854 34444555444444   22          246678888888776

>cd04128 Spg1 Spg1p

Probab=97.39  E-value=0.0012  Score=64.76  Aligned_cols=22  Identities=23%  Similarity=0.442  Sum_probs=19.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+||||||+.+++..+..
T Consensus         6 lG~~~vGKTsLi~~~~~~~f~~   27 (182)
T cd04128           6 LGDAQIGKTSLMVKYVEGEFDE   27 (182)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCC
Confidence            9999999999999998876543

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=97.38  E-value=0.00081  Score=65.28  Aligned_cols=102  Identities=15%  Similarity=0.215  Sum_probs=54.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+||||||..+....+.....+..+...   ...+.+.+..+.|.      ...+..+.                 
T Consensus         7 iG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~---~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-----------------   66 (174)
T cd01871           7 VGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY---SANVMVDGKPVNLGLWDTAGQEDYDRLR-----------------   66 (174)
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCcCCCcceeee---EEEEEECCEEEEEEEEECCCchhhhhhh-----------------
Confidence            99999999999999987655432212111111   11233333333333      11121111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTI  238 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~L  238 (650)
                       +.  .+  ...|+++++...+.+ .+..+...+++.+.   ..+++|.|.+|+|..
T Consensus        67 -~~--~~--~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~  118 (174)
T cd01871          67 -PL--SY--PQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLR  118 (174)
T ss_pred             -hh--hc--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhc
Confidence             10  11  245888888876532 22332222333333   357999999999974

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

>PRK13768 GTPase; Provisional

Probab=97.37  E-value=0.0012  Score=68.66  Aligned_cols=54  Identities=22%  Similarity=0.308  Sum_probs=42.9

Q ss_pred             eEEEEEEcCCCCCCCcchHHHHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHHH
Q psy8479         198 HVCLYFICPTGHGLKSLDLVCMKKLD------SKVNIIPIIAKADTISKSELQKFKTNIM  251 (650)
Q Consensus       198 H~cLYfI~ps~h~Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I~  251 (650)
                      +.|++|+.+..+..++.|+.+..+|.      ...|+|+|++|+|+++.+++..+++.+.
T Consensus       129 ~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~~~~~~~~~~l~  188 (253)
T PRK13768        129 KSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSEEELERILKWLE  188 (253)
T ss_pred             CeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCchhHHHHHHHHh
Confidence            45666666667788899988887764      4669999999999999999877777655

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=97.32  E-value=0.00052  Score=65.91  Aligned_cols=109  Identities=17%  Similarity=0.271  Sum_probs=53.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNT  191 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~  191 (650)
                      +|.+|+|||||++.+.+..+.....++.   .......+.+.+..+.+.  -|..-=.   .+|.       .+ +.. .
T Consensus         6 ~G~~~~GKtsl~~~~~~~~~~~~~~~t~---~~~~~~~~~~~~~~~~~~--i~Dt~G~---~~~~-------~~-~~~-~   68 (173)
T cd04130           6 VGDGAVGKTSLIVSYTTNGYPTEYVPTA---FDNFSVVVLVDGKPVRLQ--LCDTAGQ---DEFD-------KL-RPL-C   68 (173)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCce---eeeeeEEEEECCEEEEEE--EEECCCC---hhhc-------cc-ccc-c
Confidence            8999999999999998866543221111   111111223332223332  1100000   0000       00 110 1


Q ss_pred             cCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCC
Q psy8479         192 YHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTIS  239 (650)
Q Consensus       192 ~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt  239 (650)
                      +.  -.|+++++...+.+ .+..+.-.++..+.   ..++++.|.+|+|...
T Consensus        69 ~~--~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  118 (173)
T cd04130          69 YP--DTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRT  118 (173)
T ss_pred             cC--CCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhcc
Confidence            22  24788888865532 34433223333333   3579999999999754

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,

>cd04167 Snu114p Snu114p subfamily

Probab=97.32  E-value=0.00094  Score=67.05  Aligned_cols=41  Identities=15%  Similarity=0.158  Sum_probs=29.4

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTI  238 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~L  238 (650)
                      .+++++++..+ ++....+..+++.+. ...+++.|++|+|.+
T Consensus        95 aD~~llVvD~~-~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~  136 (213)
T cd04167          95 SDGVVLVVDVV-EGVTSNTERLIRHAILEGLPIVLVINKIDRL  136 (213)
T ss_pred             CCEEEEEEECC-CCCCHHHHHHHHHHHHcCCCEEEEEECcccC
Confidence            46888888764 455555555555554 457999999999986

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=97.32  E-value=0.0019  Score=71.35  Aligned_cols=61  Identities=13%  Similarity=0.178  Sum_probs=41.1

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCee-eeeecccCCCHHHH-HHHHHHHHHHHHHC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNII-PIIAKADTISKSEL-QKFKTNIMTELTSN  257 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvI-PVItKAD~Lt~~El-~~~K~~I~~~L~~~  257 (650)
                      .++++++++... .++...+.+.+..+.. .++.| .|++|.|.++.+++ ...+..+...|...
T Consensus        98 ~aD~~llVvda~-~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~  161 (396)
T PRK12735         98 QMDGAILVVSAA-DGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKY  161 (396)
T ss_pred             cCCEEEEEEECC-CCCchhHHHHHHHHHHcCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHc
Confidence            467899998865 4677777777777763 56755 57999999865543 33444566555543

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=97.31  E-value=0.0016  Score=67.71  Aligned_cols=56  Identities=14%  Similarity=0.140  Sum_probs=36.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTEL  254 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L  254 (650)
                      .+++++.+.++ .+.......+++.+. ...+++.|++|.|.... ........+++.+
T Consensus        88 aD~~i~Vvd~~-~g~~~~~~~~~~~~~~~~~p~iivvNK~D~~~~-~~~~~~~~l~~~~  144 (268)
T cd04170          88 ADAALVVVSAQ-SGVEVGTEKLWEFADEAGIPRIIFINKMDRERA-DFDKTLAALQEAF  144 (268)
T ss_pred             CCEEEEEEeCC-CCCCHHHHHHHHHHHHcCCCEEEEEECCccCCC-CHHHHHHHHHHHh
Confidence            45778888765 355555566666665 36799999999998764 3334444455444

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

>cd01858 NGP_1 NGP-1

Probab=97.30  E-value=0.00023  Score=67.91  Aligned_cols=35  Identities=14%  Similarity=0.190  Sum_probs=26.0

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL  145 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I  145 (650)
                      .| ||++|||||||||+|.+.+... .+..++.|...
T Consensus       106 ~~-~G~~nvGKStliN~l~~~~~~~-~~~~~g~T~~~  140 (157)
T cd01858         106 GF-IGYPNVGKSSIINTLRSKKVCK-VAPIPGETKVW  140 (157)
T ss_pred             EE-EeCCCCChHHHHHHHhcCCcee-eCCCCCeeEeE
Confidence            35 9999999999999999976433 44555655544

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=97.28  E-value=0.00082  Score=65.78  Aligned_cols=98  Identities=15%  Similarity=0.221  Sum_probs=54.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+||||||+.|....+... .    +|...+...+.+  .++.+.     + ..+..+.       ..|+      
T Consensus        23 vG~~~vGKTsli~~~~~~~~~~~-~----~T~~~~~~~~~~--~~~~~~l~D~~G~~~~~~~~-------~~~~------   82 (182)
T PTZ00133         23 VGLDAAGKTTILYKLKLGEVVTT-I----PTIGFNVETVEY--KNLKFTMWDVGGQDKLRPLW-------RHYY------   82 (182)
T ss_pred             EcCCCCCHHHHHHHHhcCCcccc-C----CccccceEEEEE--CCEEEEEEECCCCHhHHHHH-------HHHh------
Confidence            99999999999999976544321 1    222232223332  233333     1 1111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhcc----CCCeeeeeecccCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLDS----KVNIIPIIAKADTI  238 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~~----~vnvIPVItKAD~L  238 (650)
                             .  ..|+++|++..+. ..+......+.+.+..    ..++|.|++|.|.-
T Consensus        83 -------~--~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~  131 (182)
T PTZ00133         83 -------Q--NTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLP  131 (182)
T ss_pred             -------c--CCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCC
Confidence                   1  2478999998653 2344444344444432    46999999999964

>cd04134 Rho3 Rho3 subfamily

Probab=97.28  E-value=0.0015  Score=64.19  Aligned_cols=24  Identities=17%  Similarity=0.278  Sum_probs=20.4

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|+||||||+.|++..+..
T Consensus         4 vi-vG~~~vGKTsli~~~~~~~~~~   27 (189)
T cd04134           4 VV-LGDGACGKTSLLNVFTRGYFPQ   27 (189)
T ss_pred             EE-ECCCCCCHHHHHHHHhcCCCCC
Confidence            45 9999999999999999876543

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=97.26  E-value=0.0013  Score=68.01  Aligned_cols=22  Identities=18%  Similarity=0.431  Sum_probs=19.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|..|+|||||||.+++..+..
T Consensus         6 lG~~gvGKTSLi~r~~~~~f~~   27 (247)
T cd04143           6 LGASKVGKTAIVSRFLGGRFEE   27 (247)
T ss_pred             ECcCCCCHHHHHHHHHcCCCCC
Confidence            9999999999999999876544

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=97.25  E-value=0.0013  Score=64.45  Aligned_cols=99  Identities=13%  Similarity=0.226  Sum_probs=53.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+||||||+.|....+.. .    .+|+.++...+..  .++.+.     + ..+.++.       ..|+      
T Consensus        23 vG~~~~GKTsl~~~l~~~~~~~-~----~pt~g~~~~~~~~--~~~~~~i~D~~Gq~~~~~~~-------~~~~------   82 (181)
T PLN00223         23 VGLDAAGKTTILYKLKLGEIVT-T----IPTIGFNVETVEY--KNISFTVWDVGGQDKIRPLW-------RHYF------   82 (181)
T ss_pred             ECCCCCCHHHHHHHHccCCCcc-c----cCCcceeEEEEEE--CCEEEEEEECCCCHHHHHHH-------HHHh------
Confidence            9999999999999998654432 1    2233333223332  233333     1 1122211       1221      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                             .  ..|+++|++..+.+ .+.....++.+.+.    ..++++.|.+|.|.-.
T Consensus        83 -------~--~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~  132 (181)
T PLN00223         83 -------Q--NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN  132 (181)
T ss_pred             -------c--cCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCC
Confidence                   1  14789999986532 23322222333333    2568999999999754

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=97.23  E-value=0.003  Score=66.33  Aligned_cols=57  Identities=14%  Similarity=0.184  Sum_probs=39.8

Q ss_pred             eEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         198 HVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       198 H~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                      +++++++... .++...+..+++.+.. ..++|.||+|.|....+ .......+++.+..
T Consensus        89 D~ailVVDa~-~g~~~~t~~~~~~~~~~~~p~ivviNK~D~~~a~-~~~~~~~l~~~l~~  146 (270)
T cd01886          89 DGAVAVFDAV-AGVEPQTETVWRQADRYNVPRIAFVNKMDRTGAD-FFRVVEQIREKLGA  146 (270)
T ss_pred             CEEEEEEECC-CCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCCC-HHHHHHHHHHHhCC
Confidence            4888888764 5778878888888774 67999999999987432 33344455555543

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

>cd04117 Rab15 Rab15 subfamily

Probab=97.23  E-value=0.0013  Score=62.71  Aligned_cols=22  Identities=27%  Similarity=0.523  Sum_probs=19.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+||||||+.+.+..+..
T Consensus         6 vG~~~~GKTsli~~~~~~~~~~   27 (161)
T cd04117           6 IGDSGVGKTCLLCRFTDNEFHS   27 (161)
T ss_pred             ECcCCCCHHHHHHHHhcCCCCC
Confidence            9999999999999999876654

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

>cd04142 RRP22 RRP22 subfamily

Probab=97.22  E-value=0.00091  Score=66.68  Aligned_cols=22  Identities=18%  Similarity=0.471  Sum_probs=19.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|||||||||.|.+..+..
T Consensus         6 vG~~~vGKTsLi~~~~~~~f~~   27 (198)
T cd04142           6 LGAPGVGKTAIVRQFLAQEFPE   27 (198)
T ss_pred             ECCCCCcHHHHHHHHHcCCCCc
Confidence            9999999999999999876543

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=97.21  E-value=0.00092  Score=63.68  Aligned_cols=42  Identities=7%  Similarity=0.090  Sum_probs=27.7

Q ss_pred             eeEEEEEEcCCCC-CCCcchHHHHHHhcc----CCCeeeeeecccCC
Q psy8479         197 IHVCLYFICPTGH-GLKSLDLVCMKKLDS----KVNIIPIIAKADTI  238 (650)
Q Consensus       197 VH~cLYfI~ps~h-~Lk~lDI~~mk~L~~----~vnvIPVItKAD~L  238 (650)
                      .++++|++..+.+ .+......+.+.+..    ..+++.|++|.|..
T Consensus        68 ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  114 (159)
T cd04150          68 TQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLP  114 (159)
T ss_pred             CCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCC
Confidence            4689999987642 244444334444432    36999999999974

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

>cd04131 Rnd Rnd subfamily

Probab=97.21  E-value=0.0015  Score=63.96  Aligned_cols=23  Identities=13%  Similarity=0.280  Sum_probs=19.7

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      .+ +|.+||||||||+.+.+..+.
T Consensus         5 v~-vG~~~vGKTsli~~~~~~~f~   27 (178)
T cd04131           5 VV-VGDVQCGKTALLQVFAKDCYP   27 (178)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCcCC
Confidence            34 999999999999999987654

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=97.21  E-value=0.0015  Score=66.65  Aligned_cols=21  Identities=14%  Similarity=0.351  Sum_probs=18.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      ||.+|+||||||+.|.+..+.
T Consensus         7 vGd~~vGKTsLi~~~~~~~f~   27 (222)
T cd04173           7 VGDAECGKTALLQVFAKDAYP   27 (222)
T ss_pred             ECCCCCCHHHHHHHHHcCCCC
Confidence            999999999999999986654

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

>cd04120 Rab12 Rab12 subfamily

Probab=97.19  E-value=0.0015  Score=65.62  Aligned_cols=105  Identities=21%  Similarity=0.327  Sum_probs=56.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+||||||||+.+....+...-..+.  +..+....+.+.+..+.|.      ...+..+.       ..|+      
T Consensus         6 lG~~gVGKTSli~r~~~~~f~~~~~~Ti--~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~-------~~y~------   70 (202)
T cd04120           6 IGSRGVGKTSLMRRFTDDTFCEACKSGV--GVDFKIKTVELRGKKIRLQIWDTAGQERFNSIT-------SAYY------   70 (202)
T ss_pred             ECcCCCCHHHHHHHHHhCCCCCcCCCcc--eeEEEEEEEEECCEEEEEEEEeCCCchhhHHHH-------HHHh------
Confidence            9999999999999999766543211111  2233333444544334443      12222222       1121      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhc-cCCCeeeeeecccCCCH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLD-SKVNIIPIIAKADTISK  240 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~  240 (650)
                             .  ..++++++..-+.. .+..+.  +..++... ..+++|.|.+|+|....
T Consensus        71 -------~--~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~  120 (202)
T cd04120          71 -------R--SAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETD  120 (202)
T ss_pred             -------c--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccc
Confidence                   1  13678888775432 233322  22233332 46799999999997543

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

>PRK00049 elongation factor Tu; Reviewed

Probab=97.19  E-value=0.0031  Score=69.78  Aligned_cols=60  Identities=13%  Similarity=0.171  Sum_probs=43.2

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCee-eeeecccCCCHHHHH-HHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNII-PIIAKADTISKSELQ-KFKTNIMTELTS  256 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvI-PVItKAD~Lt~~El~-~~K~~I~~~L~~  256 (650)
                      ..+++++++... .++.+.+.+.+..+.. .++++ .|++|.|..+..++. ..+..+...|..
T Consensus        98 ~aD~~llVVDa~-~g~~~qt~~~~~~~~~~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~  160 (396)
T PRK00049         98 QMDGAILVVSAA-DGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSK  160 (396)
T ss_pred             cCCEEEEEEECC-CCCchHHHHHHHHHHHcCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHh
Confidence            468899999865 5788888888887774 56865 589999998755533 345566666654

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=97.17  E-value=0.0018  Score=66.56  Aligned_cols=22  Identities=14%  Similarity=0.323  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ||.+||||||||+.+.+..+..
T Consensus        19 vGd~~VGKTsLi~r~~~~~F~~   40 (232)
T cd04174          19 VGDVQCGKTAMLQVLAKDCYPE   40 (232)
T ss_pred             ECCCCCcHHHHHHHHhcCCCCC
Confidence            9999999999999999876544

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.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=97.17  E-value=0.0023  Score=74.24  Aligned_cols=42  Identities=17%  Similarity=0.230  Sum_probs=32.6

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      .|++++++..+ .++++.+.+.++.+. ..+++|.|++|+|...
T Consensus        93 aD~~IlVvD~~-~g~~~qt~e~i~~l~~~~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        93 ADLAILIVDIN-EGFKPQTQEALNILRMYKTPFVVAANKIDRIP  135 (590)
T ss_pred             CCEEEEEEECC-cCCCHhHHHHHHHHHHcCCCEEEEEECCCccc
Confidence            46888888765 567777777777765 4679999999999873

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.15  E-value=0.0042  Score=68.55  Aligned_cols=62  Identities=15%  Similarity=0.187  Sum_probs=43.4

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCee-eeeecccCCCHHHHHH-HHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNII-PIIAKADTISKSELQK-FKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvI-PVItKAD~Lt~~El~~-~K~~I~~~L~~~~  258 (650)
                      .+|+++.++... .++...+.+.+..+.. .++.+ .|+||.|.++.+++.. .+..+++.|...+
T Consensus        98 ~~D~~ilVvda~-~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~  162 (394)
T TIGR00485        98 QMDGAILVVSAT-DGPMPQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYD  162 (394)
T ss_pred             hCCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcC
Confidence            457888888754 5777888888888764 55654 6899999998665433 4556777776654

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.

>PLN03126 Elongation factor Tu; Provisional

Probab=97.15  E-value=0.0057  Score=69.36  Aligned_cols=61  Identities=13%  Similarity=0.193  Sum_probs=42.5

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHHH-HHHHHHHHHHHHHC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSEL-QKFKTNIMTELTSN  257 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~El-~~~K~~I~~~L~~~  257 (650)
                      ..|+|+.++... .++.....+.+..+.. .++ +|.|++|.|..+.+++ ...+..+++.|...
T Consensus       167 ~aD~ailVVda~-~G~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~  230 (478)
T PLN03126        167 QMDGAILVVSGA-DGPMPQTKEHILLAKQVGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSY  230 (478)
T ss_pred             hCCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhc
Confidence            357889988765 5677777777777663 565 7889999999886553 33445666666543

>CHL00189 infB translation initiation factor 2; Provisional

Probab=97.13  E-value=0.0029  Score=74.94  Aligned_cols=109  Identities=21%  Similarity=0.286  Sum_probs=63.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee--CCceeec---chhHHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ--ENNVKLK---EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~--e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      +.+ +|..|+|||||+|+|.+..+...  ..++.|+.+..+.+.+.  ..++.+.   .....           .|....
T Consensus       247 V~I-vGhvdvGKTSLld~L~~~~~~~~--e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe-----------~F~~mr  312 (742)
T CHL00189        247 VTI-LGHVDHGKTTLLDKIRKTQIAQK--EAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHE-----------AFSSMR  312 (742)
T ss_pred             EEE-ECCCCCCHHHHHHHHHhccCccc--cCCccccccceEEEEEEecCCceEEEEEECCcHH-----------HHHHHH
Confidence            344 99999999999999998765432  22333444333333332  2233333   11111           111110


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      .   |.   +  ...+++++++..+ .++++..++.++.+. ..+|+|.|++|+|...
T Consensus       313 ~---rg---~--~~aDiaILVVDA~-dGv~~QT~E~I~~~k~~~iPiIVViNKiDl~~  361 (742)
T CHL00189        313 S---RG---A--NVTDIAILIIAAD-DGVKPQTIEAINYIQAANVPIIVAINKIDKAN  361 (742)
T ss_pred             H---HH---H--HHCCEEEEEEECc-CCCChhhHHHHHHHHhcCceEEEEEECCCccc
Confidence            0   11   0  1246777777654 566777777777776 4679999999999875

>COG3596 Predicted GTPase [General function prediction only]

Probab=97.13  E-value=0.00076  Score=70.52  Aligned_cols=41  Identities=12%  Similarity=0.178  Sum_probs=29.8

Q ss_pred             EEEEEEcCCCCCCCcchHHHHHHhccC---CCeeeeeecccCCCH
Q psy8479         199 VCLYFICPTGHGLKSLDLVCMKKLDSK---VNIIPIIAKADTISK  240 (650)
Q Consensus       199 ~cLYfI~ps~h~Lk~lDI~~mk~L~~~---vnvIPVItKAD~Lt~  240 (650)
                      ++|.+|+. +-+-...|..+++.+...   -.+|.|++.+|..-+
T Consensus       120 LvL~l~~~-~draL~~d~~f~~dVi~~~~~~~~i~~VtQ~D~a~p  163 (296)
T COG3596         120 LVLWLIKA-DDRALGTDEDFLRDVIILGLDKRVLFVVTQADRAEP  163 (296)
T ss_pred             EEEEeccC-CCccccCCHHHHHHHHHhccCceeEEEEehhhhhcc
Confidence            56666654 445556788888887743   389999999998755

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=97.13  E-value=0.0016  Score=77.75  Aligned_cols=106  Identities=15%  Similarity=0.231  Sum_probs=65.7

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +.+ +|.+|+|||||||.|.+..+...  ..++.|..+..+.+.+.+..+.+.    ...|..+..              
T Consensus       293 V~I-mGhvd~GKTSLl~~Lr~~~v~~~--e~~GIT~~iga~~v~~~~~~ItfiDTPGhe~F~~m~~--------------  355 (787)
T PRK05306        293 VTI-MGHVDHGKTSLLDAIRKTNVAAG--EAGGITQHIGAYQVETNGGKITFLDTPGHEAFTAMRA--------------  355 (787)
T ss_pred             EEE-ECCCCCCHHHHHHHHHhCCcccc--ccCceeeeccEEEEEECCEEEEEEECCCCccchhHHH--------------
Confidence            344 99999999999999998766432  223445555444444433222222    222322220              


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                         |..     ...|++++++..+ .++.+...+.++.+. ..+++|.|++|+|+..
T Consensus       356 ---rga-----~~aDiaILVVdAd-dGv~~qT~e~i~~a~~~~vPiIVviNKiDl~~  403 (787)
T PRK05306        356 ---RGA-----QVTDIVVLVVAAD-DGVMPQTIEAINHAKAAGVPIIVAINKIDKPG  403 (787)
T ss_pred             ---hhh-----hhCCEEEEEEECC-CCCCHhHHHHHHHHHhcCCcEEEEEECccccc
Confidence               110     1246788888654 567777777777765 4689999999999864

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=97.12  E-value=0.0029  Score=70.40  Aligned_cols=62  Identities=13%  Similarity=0.213  Sum_probs=38.8

Q ss_pred             eeEEEEEEcCCCCC--CCcchHH---HHHHhccCCCeeeeeecccCC--CHHHHHHHHHHHHHHHHHCCC
Q psy8479         197 IHVCLYFICPTGHG--LKSLDLV---CMKKLDSKVNIIPIIAKADTI--SKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       197 VH~cLYfI~ps~h~--Lk~lDI~---~mk~L~~~vnvIPVItKAD~L--t~~El~~~K~~I~~~L~~~~I  259 (650)
                      .+++++++..+...  ......+   +++.+. ..++|.|++|+|..  ..+.+...++.+.+.++..++
T Consensus       109 aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~-~~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~  177 (426)
T TIGR00483       109 ADAAVLVVAVGDGEFEVQPQTREHAFLARTLG-INQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGY  177 (426)
T ss_pred             CCEEEEEEECCCCCcccCCchHHHHHHHHHcC-CCeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCC
Confidence            56888888876431  2222222   233332 34799999999987  455566677777777776553

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=97.12  E-value=0.0025  Score=73.90  Aligned_cols=41  Identities=15%  Similarity=0.276  Sum_probs=31.9

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTI  238 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~L  238 (650)
                      .|++++++..+ .++++...+.++.+. ..++++.|++|.|..
T Consensus        95 aD~~IlVvDa~-~g~~~qt~e~i~~~~~~~vpiIvviNK~D~~  136 (586)
T PRK04004         95 ADIAILVVDIN-EGFQPQTIEAINILKRRKTPFVVAANKIDRI  136 (586)
T ss_pred             CCEEEEEEECC-CCCCHhHHHHHHHHHHcCCCEEEEEECcCCc
Confidence            46888888765 467777777777765 467999999999975

>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=97.11  E-value=0.0055  Score=62.83  Aligned_cols=45  Identities=24%  Similarity=0.302  Sum_probs=28.9

Q ss_pred             ceeeEEEEEEcCCCCCCCcchHHHHHHhc---cCCCeeeeeecccCCCHHHHH
Q psy8479         195 NRIHVCLYFICPTGHGLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSELQ  244 (650)
Q Consensus       195 ~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El~  244 (650)
                      -+||-|.+.|.   ...+--|+  +..|.   ..++++.|++|+|+++.+++.
T Consensus       148 ~~i~~~~v~~~---~~~~~~~~--~~~~~~~~~y~p~iiV~NK~Dl~~~~~~~  195 (233)
T cd01896         148 YKIHNADVLIR---EDITVDDL--IDVIEGNRVYIPCLYVYNKIDLISIEELD  195 (233)
T ss_pred             hCeeeEEEEEc---cCCCHHHH--HHHHhCCceEeeEEEEEECccCCCHHHHH
Confidence            35666666554   23333332  44444   245999999999999888766

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.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=97.09  E-value=0.00026  Score=70.05  Aligned_cols=82  Identities=10%  Similarity=0.104  Sum_probs=55.7

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      -.++|||||||++......-....+..++..                  -...+|++||+ + +.++ +...|..+++.|
T Consensus        49 ~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~------------------~~~g~~~illV-i-~~~~-~t~~d~~~l~~l  107 (196)
T cd01852          49 RRVNVIDTPGLFDTSVSPEQLSKEIVRCLSL------------------SAPGPHAFLLV-V-PLGR-FTEEEEQAVETL  107 (196)
T ss_pred             eEEEEEECcCCCCccCChHHHHHHHHHHHHh------------------cCCCCEEEEEE-E-ECCC-cCHHHHHHHHHH
Confidence            3789999999998643221121222222222                  12468999999 6 3455 888999999888


Q ss_pred             cCc------ceEEeeeecCCCCCHHHHHH
Q psy8479         616 DSK------VNIIPIIAKADTISKSELQK  638 (650)
Q Consensus       616 ~~~------vnviPvIaKaD~lt~~e~~~  638 (650)
                      ...      -++|.|+.++|.|...++..
T Consensus       108 ~~~fg~~~~~~~ivv~T~~d~l~~~~~~~  136 (196)
T cd01852         108 QELFGEKVLDHTIVLFTRGDDLEGGTLED  136 (196)
T ss_pred             HHHhChHhHhcEEEEEECccccCCCcHHH
Confidence            764      58999999999998654433

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).

>cd04121 Rab40 Rab40 subfamily

Probab=97.08  E-value=0.0035  Score=62.25  Aligned_cols=127  Identities=20%  Similarity=0.250  Sum_probs=66.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|..||||||||+.+....+.....  +..+..+....+.+.+..+.|.      ...+..+.       ..|+      
T Consensus        12 iG~~~vGKTsll~~~~~~~~~~~~~--~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~-------~~~~------   76 (189)
T cd04121          12 VGDSDVGKGEILASLQDGSTESPYG--YNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIF-------RSYS------   76 (189)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCC--CcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHH-------HHHh------
Confidence            9999999999999999865432211  1122333333344444334443      11222221       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc---cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                             .  ..|+++++..-+. ..+..+. .++..|.   ..+++|.|.+|+|.-...++  ....++...+.+++.+
T Consensus        77 -------~--~ad~illVfD~t~~~Sf~~~~-~w~~~i~~~~~~~piilVGNK~DL~~~~~v--~~~~~~~~a~~~~~~~  144 (189)
T cd04121          77 -------R--GAQGIILVYDITNRWSFDGID-RWIKEIDEHAPGVPKILVGNRLHLAFKRQV--ATEQAQAYAERNGMTF  144 (189)
T ss_pred             -------c--CCCEEEEEEECcCHHHHHHHH-HHHHHHHHhCCCCCEEEEEECccchhccCC--CHHHHHHHHHHcCCEE
Confidence                   1  2467888777542 2333332 2333332   46799999999996321111  1222333445577888


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       145 ~e~S  148 (189)
T cd04121         145 FEVS  148 (189)
T ss_pred             EEec
Confidence            8775

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=97.08  E-value=0.0015  Score=63.54  Aligned_cols=21  Identities=24%  Similarity=0.343  Sum_probs=19.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+||||||+.+....+.
T Consensus         7 vG~~~vGKTsl~~~~~~~~f~   27 (175)
T cd01874           7 VGDGAVGKTCLLISYTTNKFP   27 (175)
T ss_pred             ECCCCCCHHHHHHHHHcCCCC
Confidence            999999999999999987653

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

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=97.05  E-value=0.0021  Score=64.51  Aligned_cols=124  Identities=14%  Similarity=0.276  Sum_probs=63.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEE--EEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLK--AHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~--~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      ||.+||||||||+.++...+...    ..+|+.+.  ...+.+.+..+.|.      ...+..+.       ..|+    
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~----~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~-------~~~~----   65 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKK----YVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLR-------DGYY----   65 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCC----CCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhh-------HHHh----
Confidence            79999999999999997554332    12233332  23344444444444      12233332       1111    


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                         |        ..+++++++..+.. .+..+.  +..++.....+++|.|.+|+|.... +. .. +.+ ......++.
T Consensus        66 ---~--------~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~-~v-~~-~~~-~~~~~~~~~  130 (200)
T smart00176       66 ---I--------QGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKDR-KV-KA-KSI-TFHRKKNLQ  130 (200)
T ss_pred             ---c--------CCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccc-cC-CH-HHH-HHHHHcCCE
Confidence               1        13577777765432 122221  2223333356899999999996421 11 11 111 223445677


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       131 ~~e~S  135 (200)
T smart00176      131 YYDIS  135 (200)
T ss_pred             EEEEe
Confidence            77664

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=97.05  E-value=0.0018  Score=65.18  Aligned_cols=23  Identities=22%  Similarity=0.395  Sum_probs=20.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      +|.+||||||||+.+.+..+...
T Consensus         6 vGd~gVGKTSLi~~~~~~~f~~~   28 (202)
T cd04102           6 VGDSGVGKSSLVHLICKNQVLGR   28 (202)
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCC
Confidence            99999999999999998876554

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=97.03  E-value=0.0026  Score=62.68  Aligned_cols=22  Identities=18%  Similarity=0.354  Sum_probs=19.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+||||||||+.+....+..
T Consensus        11 vGd~~vGKTsli~~~~~~~f~~   32 (182)
T cd04172          11 VGDSQCGKTALLHVFAKDCFPE   32 (182)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCC
Confidence            9999999999999999876543

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

>PLN03127 Elongation factor Tu; Provisional

Probab=97.02  E-value=0.0055  Score=68.92  Aligned_cols=58  Identities=12%  Similarity=0.184  Sum_probs=41.3

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHHHHH-HHHHHHHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSELQK-FKTNIMTEL  254 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~El~~-~K~~I~~~L  254 (650)
                      ..+++++++... .++.+.+.+.+..+.. .++ +|.||+|.|.+..+++.. .++.+++.+
T Consensus       147 ~aD~allVVda~-~g~~~qt~e~l~~~~~~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l  207 (447)
T PLN03127        147 QMDGGILVVSAP-DGPMPQTKEHILLARQVGVPSLVVFLNKVDVVDDEELLELVEMELRELL  207 (447)
T ss_pred             hCCEEEEEEECC-CCCchhHHHHHHHHHHcCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHH
Confidence            368899999854 5788888888888874 567 578899999987655333 333454444

>PRK12288 GTPase RsgA; Reviewed

Probab=97.01  E-value=0.00097  Score=72.56  Aligned_cols=26  Identities=23%  Similarity=0.423  Sum_probs=22.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      ..| ||.||||||||||+|.+...+.+
T Consensus       208 ~~~-vG~sgVGKSTLiN~Ll~~~~~~t  233 (347)
T PRK12288        208 SIF-VGQSGVGKSSLINALLPEAEILV  233 (347)
T ss_pred             EEE-ECCCCCCHHHHHHHhccccceee
Confidence            355 99999999999999999866554

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=97.01  E-value=0.0049  Score=62.30  Aligned_cols=61  Identities=10%  Similarity=0.072  Sum_probs=38.8

Q ss_pred             eeEEEEEEcCCCC------CCCcchHHHHHHhcc-C-CCeeeeeecccCCC----HHHHHHHHHHHHHHHHHC
Q psy8479         197 IHVCLYFICPTGH------GLKSLDLVCMKKLDS-K-VNIIPIIAKADTIS----KSELQKFKTNIMTELTSN  257 (650)
Q Consensus       197 VH~cLYfI~ps~h------~Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt----~~El~~~K~~I~~~L~~~  257 (650)
                      .++++++|..+..      +.....+..+..+.. . .++|.|++|.|..+    ......+++.+...|...
T Consensus       101 ~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~  173 (219)
T cd01883         101 ADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKV  173 (219)
T ss_pred             CCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEccccccccccHHHHHHHHHHHHHHHHHc
Confidence            5789999987642      344444444444432 2 47899999999984    444556666666556554

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=97.01  E-value=0.0017  Score=62.90  Aligned_cols=98  Identities=15%  Similarity=0.246  Sum_probs=52.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+||||||+.|....+...     .+|..+....+..  .++.+.     + ..+..+.       ..|       
T Consensus        19 ~G~~~~GKTsL~~~~~~~~~~~~-----~~t~~~~~~~~~~--~~~~l~l~D~~G~~~~~~~~-------~~~-------   77 (175)
T smart00177       19 VGLDAAGKTTILYKLKLGESVTT-----IPTIGFNVETVTY--KNISFTVWDVGGQDKIRPLW-------RHY-------   77 (175)
T ss_pred             EcCCCCCHHHHHHHHhcCCCCCc-----CCccccceEEEEE--CCEEEEEEECCCChhhHHHH-------HHH-------
Confidence            99999999999999975544221     1232222222222  233332     1 1111111       111       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc----cCCCeeeeeecccCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD----SKVNIIPIIAKADTI  238 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~----~~vnvIPVItKAD~L  238 (650)
                            +.  ..++++|++..+.+. +....-.+.+.+.    ..++++.|.+|+|..
T Consensus        78 ------~~--~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~  127 (175)
T smart00177       78 ------YT--NTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLP  127 (175)
T ss_pred             ------hC--CCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcc
Confidence                  11  246899999876432 3333333333333    246899999999964

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).

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=97.00  E-value=0.0014  Score=61.64  Aligned_cols=127  Identities=19%  Similarity=0.321  Sum_probs=66.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||..|+||||||+.|.+..+.....++.+  .......+.+.+..+.|.      ...|..+..       .+       
T Consensus         5 vG~~~vGKtsl~~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~-------~~-------   68 (162)
T PF00071_consen    5 VGDSGVGKTSLINRLINGEFPENYIPTIG--IDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRD-------IF-------   68 (162)
T ss_dssp             EESTTSSHHHHHHHHHHSSTTSSSETTSS--EEEEEEEEEETTEEEEEEEEEETTSGGGHHHHH-------HH-------
T ss_pred             ECCCCCCHHHHHHHHHhhccccccccccc--ccccccccccccccccccccccccccccccccc-------cc-------
Confidence            99999999999999998765433222221  122222333443333333      223332221       00       


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc---c-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD---S-KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~---~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                      .+        ..++++++.+.+. ..+..+. .++..+.   . .++++.|.+|+|.....++.  .+.+++....++..
T Consensus        69 ~~--------~~~~~ii~fd~~~~~S~~~~~-~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~--~~~~~~~~~~~~~~  137 (162)
T PF00071_consen   69 YR--------NSDAIIIVFDVTDEESFENLK-KWLEEIQKYKPEDIPIIVVGNKSDLSDEREVS--VEEAQEFAKELGVP  137 (162)
T ss_dssp             HT--------TESEEEEEEETTBHHHHHTHH-HHHHHHHHHSTTTSEEEEEEETTTGGGGSSSC--HHHHHHHHHHTTSE
T ss_pred             cc--------ccccccccccccccccccccc-cccccccccccccccceeeeccccccccccch--hhHHHHHHHHhCCE
Confidence            11        1346666655432 2333333 3333332   3 47899999999976522211  22344455667777


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       138 ~~e~S  142 (162)
T PF00071_consen  138 YFEVS  142 (162)
T ss_dssp             EEEEB
T ss_pred             EEEEE
Confidence            77765

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 ....

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=96.97  E-value=0.0078  Score=66.96  Aligned_cols=82  Identities=15%  Similarity=0.161  Sum_probs=50.3

Q ss_pred             eeEEEEEEcCCCCCC-CcchHHHHHHhcc-CC-CeeeeeecccCCCHHHHHHHHHHHHHHHHHC---CCcEEeCCC-Cch
Q psy8479         197 IHVCLYFICPTGHGL-KSLDLVCMKKLDS-KV-NIIPIIAKADTISKSELQKFKTNIMTELTSN---GVHIYEFPT-DDE  269 (650)
Q Consensus       197 VH~cLYfI~ps~h~L-k~lDI~~mk~L~~-~v-nvIPVItKAD~Lt~~El~~~K~~I~~~L~~~---~I~if~f~~-d~~  269 (650)
                      ++++++++..+ +++ .......+..+.. .+ +++.|++|+|+++.++.......++..+...   ++.++.... ..+
T Consensus       109 ~D~~llVVDa~-~~~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~  187 (411)
T PRK04000        109 MDGAILVIAAN-EPCPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENAPIIPVSALHKV  187 (411)
T ss_pred             CCEEEEEEECC-CCCCChhHHHHHHHHHHcCCCcEEEEEEeeccccchhHHHHHHHHHHHhccccCCCCeEEEEECCCCc
Confidence            46788888765 344 5555556666643 33 6999999999998777665556666666442   456666542 223


Q ss_pred             hHHHHHHHhh
Q psy8479         270 TMSDVNAAMT  279 (650)
Q Consensus       270 ~~~~~~~~~~  279 (650)
                      ....+...+.
T Consensus       188 gI~~L~~~L~  197 (411)
T PRK04000        188 NIDALIEAIE  197 (411)
T ss_pred             CHHHHHHHHH
Confidence            3444444443

>cd01855 YqeH YqeH

Probab=96.97  E-value=0.00063  Score=66.93  Aligned_cols=57  Identities=19%  Similarity=0.098  Sum_probs=34.9

Q ss_pred             ccCCCCCCcccccccccCCCCceeecCCCCCChhhHhhhhhCcCCCC-------CCCCCCCCcEEE
Q psy8479          87 WVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFES-------TPSPHSLPSVKL  145 (650)
Q Consensus        87 ~vG~~~lp~Q~~rk~~~~k~g~~FnVG~SGvGKSTlINtLf~~~~~~-------~~s~~~~~T~~I  145 (650)
                      .-|+..|-..+.....+ +..+.| ||.+|||||||||+|++.....       ..+..++.|...
T Consensus       110 ~~gi~eL~~~l~~~l~~-~~~~~~-~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~  173 (190)
T cd01855         110 GWGVEELINAIKKLAKK-GGDVYV-VGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDL  173 (190)
T ss_pred             CCCHHHHHHHHHHHhhc-CCcEEE-EcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeee
Confidence            34555555544432211 134455 9999999999999999976533       234455555544

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.

>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=96.94  E-value=0.0017  Score=66.95  Aligned_cols=155  Identities=16%  Similarity=0.254  Sum_probs=77.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|++|+||||..+.+|... .+.-+...+.|..++...+... +.+.|+    ..+....-.|...|.       ..+- 
T Consensus         5 mG~~~SGKTSi~~vIF~~~-~p~dT~~L~~T~~ve~~~v~~~-~~~~l~iwD~pGq~~~~~~~~~~~~-------~~if-   74 (232)
T PF04670_consen    5 MGPRRSGKTSIRSVIFHKY-SPRDTLRLEPTIDVEKSHVRFL-SFLPLNIWDCPGQDDFMENYFNSQR-------EEIF-   74 (232)
T ss_dssp             EESTTSSHHHHHHHHHS----GGGGGG-----SEEEEEEECT-TSCEEEEEEE-SSCSTTHTTHTCCH-------HHHH-
T ss_pred             EcCCCCChhhHHHHHHcCC-CchhccccCCcCCceEEEEecC-CCcEEEEEEcCCccccccccccccH-------HHHH-
Confidence            8999999999999999853 2222334455665554333211 222333    111111111111111       1111 


Q ss_pred             cccccCCceeeEEEEEEcCCCCCCCcchH-------HHHHHhccCCCeeeeeecccCCCHHHHHHHH----HHHHHHHHH
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGHGLKSLDL-------VCMKKLDSKVNIIPIIAKADTISKSELQKFK----TNIMTELTS  256 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI-------~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K----~~I~~~L~~  256 (650)
                             ..|++.+|.|...... -.-|+       +.+...+...+|-..|-|.|.++.++.....    +.|.+.+..
T Consensus        75 -------~~v~~LIyV~D~qs~~-~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~  146 (232)
T PF04670_consen   75 -------SNVGVLIYVFDAQSDD-YDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELED  146 (232)
T ss_dssp             -------CTESEEEEEEETT-ST-CHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHH
T ss_pred             -------hccCEEEEEEEccccc-HHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhh
Confidence                   2478999999864222 22232       2233444677999999999999988876644    455555666


Q ss_pred             CC---CcEEeCCCCchhHHHHH-HHhhhccCCCC
Q psy8479         257 NG---VHIYEFPTDDETMSDVN-AAMTIFSSIPC  286 (650)
Q Consensus       257 ~~---I~if~f~~d~~~~~~~~-~~~~~~~~~P~  286 (650)
                      .+   +.+|.-..-|+.+.+.- +-++.+  +|.
T Consensus       147 ~~~~~~~~~~TSI~D~Sly~A~S~Ivq~L--iP~  178 (232)
T PF04670_consen  147 LGIEDITFFLTSIWDESLYEAWSKIVQKL--IPN  178 (232)
T ss_dssp             TT-TSEEEEEE-TTSTHHHHHHHHHHHTT--STT
T ss_pred             ccccceEEEeccCcCcHHHHHHHHHHHHH--ccc
Confidence            66   55665443344444332 234444  774

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.

>COG2262 HflX GTPases [General function prediction only]

Probab=96.92  E-value=0.001  Score=72.85  Aligned_cols=117  Identities=19%  Similarity=0.279  Sum_probs=67.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec-c-hhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK-E-DSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~-~-~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      ||-+|.|||||+|.|++...+...  ...-|+.-+...+.|.++ .+-|. . .-...+-..|-+.|...|++-...   
T Consensus       198 vGYTNAGKSTL~N~LT~~~~~~~d--~LFATLdpttR~~~l~~g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~a---  272 (411)
T COG2262         198 VGYTNAGKSTLFNALTGADVYVAD--QLFATLDPTTRRIELGDGRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEA---  272 (411)
T ss_pred             EeeccccHHHHHHHHhccCeeccc--cccccccCceeEEEeCCCceEEEecCccCcccCChHHHHHHHHHHHHhhcC---
Confidence            999999999999999988766431  011122222223444432 22222 1 122334445567888888774322   


Q ss_pred             ccccCCceeeEEEEEEcCCCCCC-Ccch--HHHHHHhc-cCCCeeeeeecccCCCHHH
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGL-KSLD--LVCMKKLD-SKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~L-k~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~~E  242 (650)
                           |    +.|..+..+-..+ ..++  ..+|+.|. ...++|+|++|.|++...+
T Consensus       273 -----D----lllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~  321 (411)
T COG2262         273 -----D----LLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE  321 (411)
T ss_pred             -----C----EEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh
Confidence                 2    3444555442211 1111  45566664 3569999999999998876

>PLN00023 GTP-binding protein; Provisional

Probab=96.92  E-value=0.0025  Score=68.78  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      +|.+||||||||+.|.+..+...
T Consensus        27 LGdsGVGKTSLI~rf~~g~F~~~   49 (334)
T PLN00023         27 VGDSGVGKSSLVHLIVKGSSIAR   49 (334)
T ss_pred             ECCCCCcHHHHHHHHhcCCcccc
Confidence            99999999999999998766543

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=96.90  E-value=0.0044  Score=71.95  Aligned_cols=106  Identities=17%  Similarity=0.232  Sum_probs=64.8

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec----chhHHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK----EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~----~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      +.+ +|.+|+|||||+|.|.+..+...  ..++.|..+..+.+.+.++ .+.+.    ...|..+.              
T Consensus        90 V~I-~Ghvd~GKTSLl~~l~~~~v~~~--e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~F~~~r--------------  152 (587)
T TIGR00487        90 VTI-MGHVDHGKTSLLDSIRKTKVAQG--EAGGITQHIGAYHVENEDGKMITFLDTPGHEAFTSMR--------------  152 (587)
T ss_pred             EEE-ECCCCCCHHHHHHHHHhCCcccc--cCCceeecceEEEEEECCCcEEEEEECCCCcchhhHH--------------
Confidence            344 99999999999999998765543  2234455554444444332 33332    22222211              


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      .   |..     ...+++++++..+ .++.+..++.++.+. ..+|+|.+++|+|...
T Consensus       153 ~---rga-----~~aDiaILVVda~-dgv~~qT~e~i~~~~~~~vPiIVviNKiDl~~  201 (587)
T TIGR00487       153 A---RGA-----KVTDIVVLVVAAD-DGVMPQTIEAISHAKAANVPIIVAINKIDKPE  201 (587)
T ss_pred             H---hhh-----ccCCEEEEEEECC-CCCCHhHHHHHHHHHHcCCCEEEEEECccccc
Confidence            0   111     1245677777543 567777777777765 4689999999999853

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.

>KOG1423|consensus

Probab=96.89  E-value=0.0046  Score=65.59  Aligned_cols=116  Identities=13%  Similarity=0.173  Sum_probs=61.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE----EEE---EEEeeCCceeecchh--HHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL----KAH---TYELQENNVKLKEDS--FKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I----~~~---~~~l~e~g~~L~~~~--w~~Ii~yI~~qf~~yL~eE  182 (650)
                      +|..|+|||||+|.|.|+++.+...+....+..+    ++.   -++++..|+-.....  ...+.+        +++.-
T Consensus        78 IG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s--------~lq~~  149 (379)
T KOG1423|consen   78 IGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMS--------VLQNP  149 (379)
T ss_pred             EcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHH--------hhhCH
Confidence            9999999999999999999876533321111111    110   123344444333221  122221        22221


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCC--CCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPT--GHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQ  244 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps--~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~  244 (650)
                         .+.+    + +-+|++.+...+  ++.+.+.=+.+++..+ .++-|.|++|.|++.+.-+.
T Consensus       150 ---~~a~----q-~AD~vvVv~Das~tr~~l~p~vl~~l~~ys-~ips~lvmnkid~~k~k~~L  204 (379)
T KOG1423|consen  150 ---RDAA----Q-NADCVVVVVDASATRTPLHPRVLHMLEEYS-KIPSILVMNKIDKLKQKRLL  204 (379)
T ss_pred             ---HHHH----h-hCCEEEEEEeccCCcCccChHHHHHHHHHh-cCCceeeccchhcchhhhHH
Confidence               1111    0 124555555544  6666665555555443 44777899999999775443

>COG1162 Predicted GTPases [General function prediction only]

Probab=96.84  E-value=0.0008  Score=71.42  Aligned_cols=25  Identities=32%  Similarity=0.478  Sum_probs=20.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      .| +|.||||||||||+|.......+
T Consensus       168 vl-~GqSGVGKSSLiN~L~p~~~~~t  192 (301)
T COG1162         168 VL-LGQSGVGKSTLINALLPELNQKT  192 (301)
T ss_pred             EE-ECCCCCcHHHHHHhhCchhhhhh
Confidence            44 99999999999999998644443

>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=96.83  E-value=0.0014  Score=63.82  Aligned_cols=96  Identities=16%  Similarity=0.246  Sum_probs=55.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec--------chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK--------EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~--------~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +|-.|+|||||++.|....+..     ..+|..++...+.+.+..+.+-        ...|....               
T Consensus        20 lGl~~sGKTtll~~l~~~~~~~-----~~pT~g~~~~~i~~~~~~~~~~d~gG~~~~~~~w~~y~---------------   79 (175)
T PF00025_consen   20 LGLDGSGKTTLLNRLKNGEISE-----TIPTIGFNIEEIKYKGYSLTIWDLGGQESFRPLWKSYF---------------   79 (175)
T ss_dssp             EESTTSSHHHHHHHHHSSSEEE-----EEEESSEEEEEEEETTEEEEEEEESSSGGGGGGGGGGH---------------
T ss_pred             ECCCccchHHHHHHhhhccccc-----cCcccccccceeeeCcEEEEEEeccccccccccceeec---------------
Confidence            9999999999999998754322     2233334433443332222221        12333221               


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCC
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTI  238 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~L  238 (650)
                               .  .+|+++|+|..+.+ ++.+.-..+...|.    ..+|++.+++|.|..
T Consensus        80 ---------~--~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~  128 (175)
T PF00025_consen   80 ---------Q--NADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLP  128 (175)
T ss_dssp             ---------T--TESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTST
T ss_pred             ---------c--ccceeEEEEecccceeecccccchhhhcchhhcccceEEEEecccccc
Confidence                     1  25799999987643 34444333333333    256999999999964

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 ....

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=96.83  E-value=0.0016  Score=68.48  Aligned_cols=32  Identities=19%  Similarity=0.151  Sum_probs=23.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEE
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVK  144 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~  144 (650)
                      ||.+|||||||||+|.+.+.... +..++.|..
T Consensus       124 vG~~nvGKSslin~l~~~~~~~~-~~~~g~T~~  155 (276)
T TIGR03596       124 VGIPNVGKSTLINRLAGKKVAKV-GNRPGVTKG  155 (276)
T ss_pred             ECCCCCCHHHHHHHHhCCCcccc-CCCCCeecc
Confidence            99999999999999998764443 344444443

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.

>cd04126 Rab20 Rab20 subfamily

Probab=96.81  E-value=0.0045  Score=63.09  Aligned_cols=21  Identities=19%  Similarity=0.479  Sum_probs=19.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+|||||||.|.+..+.
T Consensus         6 vG~~~vGKTSLi~r~~~~~f~   26 (220)
T cd04126           6 LGDMNVGKTSLLHRYMERRFK   26 (220)
T ss_pred             ECCCCCcHHHHHHHHhcCCCC
Confidence            999999999999999987764

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

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=96.81  E-value=0.0018  Score=74.88  Aligned_cols=113  Identities=15%  Similarity=0.205  Sum_probs=69.6

Q ss_pred             CCceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      ..+++ ||-.|||||||+|+|+|.+  .+.+.-||-|++-..-.+...++.+.+.    .++..+..            .
T Consensus         4 ~~val-vGNPNvGKTtlFN~LTG~~--q~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S------------~   68 (653)
T COG0370           4 LTVAL-VGNPNVGKTTLFNALTGAN--QKVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYS------------E   68 (653)
T ss_pred             ceEEE-ecCCCccHHHHHHHHhccC--ceecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCC------------c
Confidence            35778 9999999999999999974  3467788888887766666665555544    23332221            1


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccC
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADT  237 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~  237 (650)
                      +.++.|..  +.+.++++++-.+..+.  |.-.=.-.++-+.-..|+|.++++.|.
T Consensus        69 DE~Var~~--ll~~~~D~ivnVvDAtn--LeRnLyltlQLlE~g~p~ilaLNm~D~  120 (653)
T COG0370          69 DEKVARDF--LLEGKPDLIVNVVDATN--LERNLYLTLQLLELGIPMILALNMIDE  120 (653)
T ss_pred             hHHHHHHH--HhcCCCCEEEEEcccch--HHHHHHHHHHHHHcCCCeEEEeccHhh
Confidence            12233331  33455666666666542  211111234444457789999999885

>cd01875 RhoG RhoG subfamily

Probab=96.81  E-value=0.0052  Score=60.53  Aligned_cols=22  Identities=18%  Similarity=0.312  Sum_probs=19.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+||||||+.+....+..
T Consensus         9 vG~~~vGKTsli~~~~~~~f~~   30 (191)
T cd01875           9 VGDGAVGKTCLLICYTTNAFPK   30 (191)
T ss_pred             ECCCCCCHHHHHHHHHhCCCCc
Confidence            9999999999999999866543

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

>cd04129 Rho2 Rho2 subfamily

Probab=96.80  E-value=0.0023  Score=62.66  Aligned_cols=23  Identities=17%  Similarity=0.258  Sum_probs=19.2

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      .+ +|.+|+|||||+|.|....+.
T Consensus         5 ~i-vG~~g~GKStLl~~l~~~~~~   27 (187)
T cd04129           5 VI-VGDGACGKTSLLSVFTLGEFP   27 (187)
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCCC
Confidence            45 999999999999999865543

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).

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=96.79  E-value=0.016  Score=59.27  Aligned_cols=58  Identities=16%  Similarity=0.197  Sum_probs=39.6

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCC------CHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTI------SKSELQKFKTNIMTELT  255 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~L------t~~El~~~K~~I~~~L~  255 (650)
                      .++|++++..+ .++......+++.+. ..+++|.|++|.|.+      ++++...-...|.+.+.
T Consensus        97 aD~~ilVvD~~-~g~~~~t~~~l~~~~~~~~p~ilviNKiD~~~~e~~~~~~~~~~~~~~ii~~~n  161 (222)
T cd01885          97 CDGALVVVDAV-EGVCVQTETVLRQALKERVKPVLVINKIDRLILELKLSPEEAYQRLARIIEQVN  161 (222)
T ss_pred             cCeeEEEEECC-CCCCHHHHHHHHHHHHcCCCEEEEEECCCcchhhhcCCHHHHHHHHHHHHHHHh
Confidence            46788888754 466666677777664 467999999999975      66665554444444443

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

>cd04133 Rop_like Rop subfamily

Probab=96.74  E-value=0.005  Score=60.39  Aligned_cols=102  Identities=13%  Similarity=0.220  Sum_probs=54.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+||||||||+.+....+...-.++.+.+..   ..+.+.+..+.|.      ...|..+..                
T Consensus         7 ~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~---~~~~~~~~~v~l~i~Dt~G~~~~~~~~~----------------   67 (176)
T cd04133           7 VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS---ANVSVDGNTVNLGLWDTAGQEDYNRLRP----------------   67 (176)
T ss_pred             ECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeE---EEEEECCEEEEEEEEECCCCccccccch----------------
Confidence            999999999999999987664432222222111   1233433333333      122222220                


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcch---HHHHHHhccCCCeeeeeecccCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLD---LVCMKKLDSKVNIIPIIAKADTI  238 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lD---I~~mk~L~~~vnvIPVItKAD~L  238 (650)
                        .  .+.  ..|+++++..-+. ..+..+.   +..++.....+++|.|.+|+|..
T Consensus        68 --~--~~~--~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~  118 (176)
T cd04133          68 --L--SYR--GADVFVLAFSLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLR  118 (176)
T ss_pred             --h--hcC--CCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhc
Confidence              0  122  2356777665432 2333331   22233333568999999999984

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,

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=96.73  E-value=0.0082  Score=60.05  Aligned_cols=20  Identities=25%  Similarity=0.511  Sum_probs=16.3

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|+|||||||.++...+
T Consensus        15 iG~~g~GKTtLi~~~~~~~~   34 (215)
T PTZ00132         15 VGDGGVGKTTFVKRHLTGEF   34 (215)
T ss_pred             ECCCCCCHHHHHHHHHhCCC
Confidence            99999999999986654433

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=96.73  E-value=0.0027  Score=59.35  Aligned_cols=133  Identities=17%  Similarity=0.310  Sum_probs=71.4

Q ss_pred             CCceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEE-EEEEeeCCceeecchhHH-HHHHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKA-HTYELQENNVKLKEDSFK-SIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~-~~~~l~e~g~~L~~~~w~-~Ii~yI~~qf~~yL~eE~  183 (650)
                      |-+.| ||++|.|||||.|+|-|...+.+      +|+-+.. ....|+..|-++...+|- .|+-         +    
T Consensus         2 Kri~~-vG~~gcGKTtL~q~L~G~~~lyk------KTQAve~~d~~~IDTPGEy~~~~~~Y~aL~t---------t----   61 (148)
T COG4917           2 KRIAF-VGQVGCGKTTLFQSLYGNDTLYK------KTQAVEFNDKGDIDTPGEYFEHPRWYHALIT---------T----   61 (148)
T ss_pred             ceeEE-ecccccCchhHHHHhhcchhhhc------ccceeeccCccccCCchhhhhhhHHHHHHHH---------H----
Confidence            36789 99999999999999999876654      3444432 223556666555555552 2321         1    


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCC--CCCC--cchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTG--HGLK--SLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~--h~Lk--~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                              ..|-  .+..|....+-  .++.  -+|+      ..+ ++|-|++|+|.-....+...++.++ +....  
T Consensus        62 --------~~da--dvi~~v~~and~~s~f~p~f~~~------~~k-~vIgvVTK~DLaed~dI~~~~~~L~-eaGa~--  121 (148)
T COG4917          62 --------LQDA--DVIIYVHAANDPESRFPPGFLDI------GVK-KVIGVVTKADLAEDADISLVKRWLR-EAGAE--  121 (148)
T ss_pred             --------hhcc--ceeeeeecccCccccCCcccccc------ccc-ceEEEEecccccchHhHHHHHHHHH-HcCCc--
Confidence                    1121  23344443221  1122  1222      122 4999999999987666655554433 22322  


Q ss_pred             cEEeCCC-CchhHHHHHHHh
Q psy8479         260 HIYEFPT-DDETMSDVNAAM  278 (650)
Q Consensus       260 ~if~f~~-d~~~~~~~~~~~  278 (650)
                      +||.... |.....++...+
T Consensus       122 ~IF~~s~~d~~gv~~l~~~L  141 (148)
T COG4917         122 PIFETSAVDNQGVEELVDYL  141 (148)
T ss_pred             ceEEEeccCcccHHHHHHHH
Confidence            4665542 333344444333

>TIGR01393 lepA GTP-binding protein LepA

Probab=96.73  E-value=0.018  Score=67.09  Aligned_cols=42  Identities=26%  Similarity=0.434  Sum_probs=29.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHH-HhccCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMK-KLDSKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk-~L~~~vnvIPVItKAD~Lt  239 (650)
                      .+++++++..+ .+.+...+..+. ++...+++|+|++|+|...
T Consensus        94 aD~aILVvDat-~g~~~qt~~~~~~~~~~~ipiIiViNKiDl~~  136 (595)
T TIGR01393        94 CEGALLLVDAA-QGIEAQTLANVYLALENDLEIIPVINKIDLPS  136 (595)
T ss_pred             CCEEEEEecCC-CCCCHhHHHHHHHHHHcCCCEEEEEECcCCCc
Confidence            36788888765 456665654433 3445679999999999753

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=96.73  E-value=0.0013  Score=61.67  Aligned_cols=35  Identities=20%  Similarity=0.188  Sum_probs=26.2

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL  145 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I  145 (650)
                      .| +|.+|+|||||||+|++..... .+..++.|...
T Consensus        87 ~~-~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~  121 (141)
T cd01857          87 GL-VGYPNVGKSSLINALVGKKKVS-VSATPGKTKHF  121 (141)
T ss_pred             EE-ECCCCCCHHHHHHHHhCCCcee-eCCCCCcccce
Confidence            44 9999999999999999987553 44455555544

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.

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=96.67  E-value=0.013  Score=68.68  Aligned_cols=68  Identities=7%  Similarity=0.092  Sum_probs=43.2

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-C-CCeeeeeecccCCC--HHHHHHHHHHHHHHHHHCC---CcEEeC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-K-VNIIPIIAKADTIS--KSELQKFKTNIMTELTSNG---VHIYEF  264 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt--~~El~~~K~~I~~~L~~~~---I~if~f  264 (650)
                      ..+++++++..+ .++.+.+.+.+..+.. . -++|.|++|+|...  .+.+...+..+.+.+...+   +.++..
T Consensus       127 ~aD~~llVvda~-~g~~~~t~e~~~~~~~~~~~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iipi  201 (632)
T PRK05506        127 TADLAIILVDAR-KGVLTQTRRHSFIASLLGIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFIPI  201 (632)
T ss_pred             hCCEEEEEEECC-CCccccCHHHHHHHHHhCCCeEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccEEEE
Confidence            356888888764 5677766555555442 2 37889999999985  4445556666665555544   335544

>TIGR00484 EF-G translation elongation factor EF-G

Probab=96.65  E-value=0.013  Score=69.44  Aligned_cols=57  Identities=12%  Similarity=0.204  Sum_probs=40.8

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      ++++++++..+ .++...+..+++.+.. .+++|.|++|.|....+ +......|++.|.
T Consensus        99 ~D~~ilVvda~-~g~~~~~~~~~~~~~~~~~p~ivviNK~D~~~~~-~~~~~~~i~~~l~  156 (689)
T TIGR00484        99 LDGAVAVLDAV-GGVQPQSETVWRQANRYEVPRIAFVNKMDKTGAN-FLRVVNQIKQRLG  156 (689)
T ss_pred             hCEEEEEEeCC-CCCChhHHHHHHHHHHcCCCEEEEEECCCCCCCC-HHHHHHHHHHHhC
Confidence            36888888765 4677777888887764 67999999999988643 4445555555553

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=96.65  E-value=0.029  Score=62.32  Aligned_cols=82  Identities=15%  Similarity=0.176  Sum_probs=49.4

Q ss_pred             eeEEEEEEcCCCCCC-CcchHHHHHHhcc-CC-CeeeeeecccCCCHHHHHHHHHHHHHHHHHC---CCcEEeCCC-Cch
Q psy8479         197 IHVCLYFICPTGHGL-KSLDLVCMKKLDS-KV-NIIPIIAKADTISKSELQKFKTNIMTELTSN---GVHIYEFPT-DDE  269 (650)
Q Consensus       197 VH~cLYfI~ps~h~L-k~lDI~~mk~L~~-~v-nvIPVItKAD~Lt~~El~~~K~~I~~~L~~~---~I~if~f~~-d~~  269 (650)
                      .|++++++..+ +++ .+...+.+..+.. .+ ++|.|++|+|.++.++.......+.+.+...   +..++.... ..+
T Consensus       104 aD~aIlVVDa~-~g~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~  182 (406)
T TIGR03680       104 MDGALLVIAAN-EPCPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSKEKALENYEEIKEFVKGTVAENAPIIPVSALHNA  182 (406)
T ss_pred             CCEEEEEEECC-CCccccchHHHHHHHHHcCCCeEEEEEEccccCCHHHHHHHHHHHHhhhhhcccCCCeEEEEECCCCC
Confidence            57889998876 344 5555555555543 23 6899999999998776655555666655543   445555432 222


Q ss_pred             hHHHHHHHhh
Q psy8479         270 TMSDVNAAMT  279 (650)
Q Consensus       270 ~~~~~~~~~~  279 (650)
                      ....+.+.+.
T Consensus       183 gi~~L~e~L~  192 (406)
T TIGR03680       183 NIDALLEAIE  192 (406)
T ss_pred             ChHHHHHHHH
Confidence            3344444443

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PRK00007 elongation factor G; Reviewed

Probab=96.62  E-value=0.01  Score=70.37  Aligned_cols=56  Identities=16%  Similarity=0.179  Sum_probs=42.1

Q ss_pred             eEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         198 HVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       198 H~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      ++|++++.. ..++...+..++..+.. ..++|.+++|.|....+ .......|++.|.
T Consensus       100 D~~vlVvda-~~g~~~qt~~~~~~~~~~~~p~iv~vNK~D~~~~~-~~~~~~~i~~~l~  156 (693)
T PRK00007        100 DGAVAVFDA-VGGVEPQSETVWRQADKYKVPRIAFVNKMDRTGAD-FYRVVEQIKDRLG  156 (693)
T ss_pred             CEEEEEEEC-CCCcchhhHHHHHHHHHcCCCEEEEEECCCCCCCC-HHHHHHHHHHHhC
Confidence            588888875 46889999998888874 67999999999988644 4455555655553

>KOG1424|consensus

Probab=96.59  E-value=0.0016  Score=72.94  Aligned_cols=42  Identities=19%  Similarity=0.169  Sum_probs=34.1

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEee
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQ  153 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~  153 (650)
                      +=| ||-.||||||+||+|.|+|... +|.+||+|..+.  ++.|.
T Consensus       317 VG~-VGYPNVGKSSTINaLvG~KkVs-VS~TPGkTKHFQ--Ti~ls  358 (562)
T KOG1424|consen  317 VGF-VGYPNVGKSSTINALVGRKKVS-VSSTPGKTKHFQ--TIFLS  358 (562)
T ss_pred             EEe-ecCCCCchhHHHHHHhcCceee-eecCCCCcceeE--EEEcC
Confidence            345 9999999999999999998655 788899998774  55554

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=96.59  E-value=0.0023  Score=66.19  Aligned_cols=27  Identities=22%  Similarity=0.393  Sum_probs=22.1

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      -..| +|.||||||||||+|.+.....+
T Consensus       122 ~~~~-~G~sgvGKStLiN~L~~~~~~~t  148 (245)
T TIGR00157       122 ISVF-AGQSGVGKSSLINALDPSVKQQV  148 (245)
T ss_pred             EEEE-ECCCCCCHHHHHHHHhhhhhccc
Confidence            4456 99999999999999999765543

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PRK12289 GTPase RsgA; Reviewed

Probab=96.57  E-value=0.0021  Score=70.11  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=21.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ..| +|.||||||||||+|++.....
T Consensus       175 ~v~-iG~SgVGKSSLIN~L~~~~~~~  199 (352)
T PRK12289        175 TVV-AGPSGVGKSSLINRLIPDVELR  199 (352)
T ss_pred             EEE-EeCCCCCHHHHHHHHcCccccc
Confidence            456 9999999999999999876544

>PRK12739 elongation factor G; Reviewed

Probab=96.56  E-value=0.012  Score=69.67  Aligned_cols=57  Identities=16%  Similarity=0.174  Sum_probs=41.9

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      +++|++++..+ .++...+..+++.+. ...++|.+++|.|....+ +....+.|++.+.
T Consensus        97 ~D~~ilVvDa~-~g~~~qt~~i~~~~~~~~~p~iv~iNK~D~~~~~-~~~~~~~i~~~l~  154 (691)
T PRK12739         97 LDGAVAVFDAV-SGVEPQSETVWRQADKYGVPRIVFVNKMDRIGAD-FFRSVEQIKDRLG  154 (691)
T ss_pred             hCeEEEEEeCC-CCCCHHHHHHHHHHHHcCCCEEEEEECCCCCCCC-HHHHHHHHHHHhC
Confidence            36899999865 578888888888887 467999999999998643 4444555555443

>KOG1490|consensus

Probab=96.49  E-value=0.0095  Score=66.74  Aligned_cols=66  Identities=17%  Similarity=0.335  Sum_probs=49.3

Q ss_pred             EEEEEEcCCC---CCCCcchHHH---HHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC-CcEEeCC
Q psy8479         199 VCLYFICPTG---HGLKSLDLVC---MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNG-VHIYEFP  265 (650)
Q Consensus       199 ~cLYfI~ps~---h~Lk~lDI~~---mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~-I~if~f~  265 (650)
                      |+|||+.-++   +++.+ ...+   ||-|...-++|.|++|+|.|.++.+..-++.+.+++...+ ++|+.-.
T Consensus       250 aVLYfmDLSe~CGySva~-QvkLfhsIKpLFaNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS  322 (620)
T KOG1490|consen  250 AVLYFMDLSEMCGYSVAA-QVKLYHSIKPLFANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTS  322 (620)
T ss_pred             hheeeeechhhhCCCHHH-HHHHHHHhHHHhcCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEec
Confidence            7999998763   33322 2333   4444445589999999999999999999988988888865 8888754

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.47  E-value=0.0023  Score=62.79  Aligned_cols=33  Identities=18%  Similarity=0.127  Sum_probs=26.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL  145 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I  145 (650)
                      ||.+|+|||||||+|++.+... .+..|+.|..+
T Consensus       123 vG~pnvGKSslin~l~~~~~~~-~~~~pg~T~~~  155 (172)
T cd04178         123 VGFPNVGKSSLINSLKRSRACN-VGATPGVTKSM  155 (172)
T ss_pred             EcCCCCCHHHHHHHHhCcccce-ecCCCCeEcce
Confidence            9999999999999999976543 45556666654

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=96.42  E-value=0.036  Score=62.89  Aligned_cols=59  Identities=12%  Similarity=0.183  Sum_probs=36.8

Q ss_pred             eeeEEEEEEcCCCCCCCcchHH---HHHHhccCCCeeeeeecccCCCHH--HHHHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLV---CMKKLDSKVNIIPIIAKADTISKS--ELQKFKTNIMTELTS  256 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~---~mk~L~~~vnvIPVItKAD~Lt~~--El~~~K~~I~~~L~~  256 (650)
                      ..+++++++... .++.+.+.+   ++..+. .-++|.|++|.|....+  .+...++.+...+..
T Consensus       130 ~aD~allVVDa~-~G~~~qt~~~~~l~~~lg-~~~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~  193 (474)
T PRK05124        130 TCDLAILLIDAR-KGVLDQTRRHSFIATLLG-IKHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQ  193 (474)
T ss_pred             hCCEEEEEEECC-CCccccchHHHHHHHHhC-CCceEEEEEeeccccchhHHHHHHHHHHHHHHHh
Confidence            457899998864 566665444   333333 22789999999998533  345555566554443

>KOG0094|consensus

Probab=96.39  E-value=0.028  Score=56.30  Aligned_cols=112  Identities=19%  Similarity=0.340  Sum_probs=74.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      -| +|.++|||||||+-.+-.++..+-..++|  +.+-+.+++|.+..++|.      -+-++.|+       -.     
T Consensus        26 Vf-lGdqsVGKTslItRf~yd~fd~~YqATIG--iDFlskt~~l~d~~vrLQlWDTAGQERFrsli-------ps-----   90 (221)
T KOG0094|consen   26 VF-LGDQSVGKTSLITRFMYDKFDNTYQATIG--IDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-------PS-----   90 (221)
T ss_pred             EE-EccCccchHHHHHHHHHhhhcccccceee--eEEEEEEEEEcCcEEEEEEEecccHHHHhhhh-------hh-----
Confidence            46 99999999999999987766554323332  344456778888777776      34455554       11     


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc--------cCCCeeeeeecccCCCHHHHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD--------SKVNIIPIIAKADTISKSELQKFKT  248 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~--------~~vnvIPVItKAD~Lt~~El~~~K~  248 (650)
                              -+.|+.|-++.|=|.. ...+...+    |||.        ..|.|+.|-+|.|.+.+.+....-.
T Consensus        91 --------Y~Rds~vaviVyDit~-~~Sfe~t~----kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg  151 (221)
T KOG0094|consen   91 --------YIRDSSVAVIVYDITD-RNSFENTS----KWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEG  151 (221)
T ss_pred             --------hccCCeEEEEEEeccc-cchHHHHH----HHHHHHHhccCCCceEEEEEcccccccchhhhhHHHH
Confidence                    3567888899998864 23443333    3443        2478888899999998877655443

>PRK13351 elongation factor G; Reviewed

Probab=96.36  E-value=0.013  Score=69.21  Aligned_cols=59  Identities=14%  Similarity=0.196  Sum_probs=41.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSN  257 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~  257 (650)
                      .++|++++..+ .+........++.+. ..++++.|++|+|.... ++......|+..|...
T Consensus        97 aD~~ilVvd~~-~~~~~~~~~~~~~~~~~~~p~iiviNK~D~~~~-~~~~~~~~i~~~l~~~  156 (687)
T PRK13351         97 LDGAVVVFDAV-TGVQPQTETVWRQADRYGIPRLIFINKMDRVGA-DLFKVLEDIEERFGKR  156 (687)
T ss_pred             CCEEEEEEeCC-CCCCHHHHHHHHHHHhcCCCEEEEEECCCCCCC-CHHHHHHHHHHHHCCC
Confidence            36788888765 456656666666665 46799999999998764 4556666666666443

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=96.32  E-value=0.032  Score=65.01  Aligned_cols=110  Identities=20%  Similarity=0.180  Sum_probs=62.7

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCC-CCCC---C----------CCCCCcEEEEEEEEEeeCCceeec---chhHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSF-ESTP---S----------PHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVD  169 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~-~~~~---s----------~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~  169 (650)
                      -+.+ +|-.++|||||++.|+...- ....   .          ...+-|+...  ...+..+++.++   .-.+..   
T Consensus         3 NIaI-iGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~--~~~v~~~~~kinlIDTPGh~D---   76 (594)
T TIGR01394         3 NIAI-IAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAK--NTAIRYNGTKINIVDTPGHAD---   76 (594)
T ss_pred             EEEE-EcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEee--eEEEEECCEEEEEEECCCHHH---
Confidence            4566 99999999999999986421 1110   0          0122333332  233344444443   222211   


Q ss_pred             HHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         170 YIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       170 yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      |... ...++       +        .++++++++..+ .++.+.....++.+. ..+++|+|++|.|...
T Consensus        77 F~~e-v~~~l-------~--------~aD~alLVVDa~-~G~~~qT~~~l~~a~~~~ip~IVviNKiD~~~  130 (594)
T TIGR01394        77 FGGE-VERVL-------G--------MVDGVLLLVDAS-EGPMPQTRFVLKKALELGLKPIVVINKIDRPS  130 (594)
T ss_pred             HHHH-HHHHH-------H--------hCCEEEEEEeCC-CCCcHHHHHHHHHHHHCCCCEEEEEECCCCCC
Confidence            1110 01222       1        246888888765 467777777777765 4679999999999754

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=96.31  E-value=0.028  Score=65.55  Aligned_cols=109  Identities=19%  Similarity=0.194  Sum_probs=62.4

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCC-CCC-CC--------C--CCCCcEEEEEEEEEeeCCceeec------chhHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSF-EST-PS--------P--HSLPSVKLKAHTYELQENNVKLK------EDSFKSIV  168 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~-~~~-~s--------~--~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii  168 (650)
                      -+.+ +|..|+|||||++.|+.... ... ..        .  ...+...+......+..+++.++      ...|...+
T Consensus         7 nIaI-iGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v   85 (607)
T PRK10218          7 NIAI-IAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEV   85 (607)
T ss_pred             EEEE-ECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHHH
Confidence            4556 99999999999999997421 111 00        0  01112233333344445555544      11222211


Q ss_pred             HHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         169 DYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       169 ~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                             ..|+       +        .++++++++..+ .++.......++.+. ..+++|.|++|.|...
T Consensus        86 -------~~~l-------~--------~aDg~ILVVDa~-~G~~~qt~~~l~~a~~~gip~IVviNKiD~~~  134 (607)
T PRK10218         86 -------ERVM-------S--------MVDSVLLVVDAF-DGPMPQTRFVTKKAFAYGLKPIVVINKVDRPG  134 (607)
T ss_pred             -------HHHH-------H--------hCCEEEEEEecc-cCccHHHHHHHHHHHHcCCCEEEEEECcCCCC
Confidence                   1222       1        257888888765 466666666666654 5679999999999753

>PRK05433 GTP-binding protein LepA; Provisional

Probab=96.28  E-value=0.034  Score=64.87  Aligned_cols=41  Identities=20%  Similarity=0.309  Sum_probs=29.3

Q ss_pred             eEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         198 HVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       198 H~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      +++++++..+ .+++..++..+.++. ...++|+|++|+|...
T Consensus        99 D~aILVVDas-~gv~~qt~~~~~~~~~~~lpiIvViNKiDl~~  140 (600)
T PRK05433         99 EGALLVVDAS-QGVEAQTLANVYLALENDLEIIPVLNKIDLPA  140 (600)
T ss_pred             CEEEEEEECC-CCCCHHHHHHHHHHHHCCCCEEEEEECCCCCc
Confidence            5678888765 566666665555443 5679999999999753

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=96.17  E-value=0.045  Score=60.81  Aligned_cols=44  Identities=7%  Similarity=0.105  Sum_probs=31.0

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CC-CeeeeeecccCCCH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KV-NIIPIIAKADTISK  240 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt~  240 (650)
                      ..+++++++... .++.+.+.+.+..+.. .+ ++|.|++|.|....
T Consensus       103 ~aD~allVVda~-~G~~~qt~~~~~~~~~~~~~~iivviNK~D~~~~  148 (406)
T TIGR02034       103 TADLAVLLVDAR-KGVLEQTRRHSYIASLLGIRHVVLAVNKMDLVDY  148 (406)
T ss_pred             hCCEEEEEEECC-CCCccccHHHHHHHHHcCCCcEEEEEEecccccc
Confidence            356888888864 6777777655554443 23 68999999999853

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).

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.12  E-value=0.0043  Score=66.88  Aligned_cols=33  Identities=21%  Similarity=0.267  Sum_probs=27.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL  145 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I  145 (650)
                      ||-.|||||||||+|.+.+. .+++..||.|..+
T Consensus       138 vG~PNVGKSslIN~L~~k~~-~~~s~~PG~Tk~~  170 (322)
T COG1161         138 VGYPNVGKSTLINRLLGKKV-AKTSNRPGTTKGI  170 (322)
T ss_pred             EcCCCCcHHHHHHHHhcccc-eeeCCCCceecce
Confidence            99999999999999999876 5567777776654

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=96.11  E-value=0.03  Score=62.20  Aligned_cols=65  Identities=5%  Similarity=0.103  Sum_probs=41.2

Q ss_pred             eeeEEEEEEcCC------CCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeC
Q psy8479         196 RIHVCLYFICPT------GHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEF  264 (650)
Q Consensus       196 RVH~cLYfI~ps------~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f  264 (650)
                      +-.+.|++....      +....+.+..++..|.+ ..|+|.|++|+|.++++ ...+.+.+.   ..+++.+...
T Consensus       144 hstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~~kPfiivlN~~dp~~~e-t~~l~~~l~---eky~vpvl~v  215 (492)
T TIGR02836       144 HSTIGVVVTTDGTITDIPREDYVEAEERVIEELKELNKPFIILLNSTHPYHPE-TEALRQELE---EKYDVPVLAM  215 (492)
T ss_pred             cCcEEEEEEcCCCccccccccchHHHHHHHHHHHhcCCCEEEEEECcCCCCch-hHHHHHHHH---HHhCCceEEE
Confidence            334556665322      14577788999999986 56999999999988654 333332222   3456665544

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=96.11  E-value=0.0064  Score=56.43  Aligned_cols=90  Identities=19%  Similarity=0.140  Sum_probs=57.5

Q ss_pred             ccccccCCCCCcccccc---cccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHH
Q psy8479         537 GRGIVRSPGERKEKNAE---FFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMK  613 (650)
Q Consensus       537 ~ltivdtpGfg~~~~~~---~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk  613 (650)
                      .+++|||||||.+....   ..|..-+..|+..                   -..++++++. +.. .+.....+.++++
T Consensus        46 ~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~v-~d~-~~~~~~~~~~~~~  104 (170)
T cd01876          46 KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLEN-------------------RENLKGVVLL-IDS-RHGPTEIDLEMLD  104 (170)
T ss_pred             eEEEecCCCccccccCHHHHHHHHHHHHHHHHh-------------------ChhhhEEEEE-EEc-CcCCCHhHHHHHH
Confidence            89999999999975422   1121122333333                   0346677776 322 2334566666666


Q ss_pred             hccCc-ceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         614 KLDSK-VNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       614 ~l~~~-vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      .+... .+++.|+.|+|.++..+....+..+...+
T Consensus       105 ~l~~~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l  139 (170)
T cd01876         105 WLEELGIPFLVVLTKADKLKKSELAKALKEIKKEL  139 (170)
T ss_pred             HHHHcCCCEEEEEEchhcCChHHHHHHHHHHHHHH
Confidence            66654 68899999999999998877776665443

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.

>PRK13796 GTPase YqeH; Provisional

Probab=96.07  E-value=0.0025  Score=69.82  Aligned_cols=37  Identities=22%  Similarity=0.141  Sum_probs=26.8

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCC----CCCCCCCCCCcEEE
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSF----ESTPSPHSLPSVKL  145 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~----~~~~s~~~~~T~~I  145 (650)
                      +.| ||.+|||||||||+|++...    ..+.|..|+-|+.+
T Consensus       163 v~v-vG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~  203 (365)
T PRK13796        163 VYV-VGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDK  203 (365)
T ss_pred             EEE-EcCCCCcHHHHHHHHHhhccCccceEEecCCCCcccee
Confidence            445 99999999999999997532    22245667766654

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=95.98  E-value=0.01  Score=57.58  Aligned_cols=90  Identities=23%  Similarity=0.205  Sum_probs=58.4

Q ss_pred             ccccccCCCCCcccccc---cccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHH
Q psy8479         537 GRGIVRSPGERKEKNAE---FFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMK  613 (650)
Q Consensus       537 ~ltivdtpGfg~~~~~~---~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk  613 (650)
                      .+.+|||||+|..-...   ..|..-+..|+..                   -.++|+++|+ +..+ +++...++++++
T Consensus        65 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~-------------------~~~~~~ii~v-vd~~-~~~~~~~~~~~~  123 (179)
T TIGR03598        65 GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEK-------------------RENLKGVVLL-MDIR-HPLKELDLEMLE  123 (179)
T ss_pred             cEEEEeCCCCccccCChhHHHHHHHHHHHHHHh-------------------ChhhcEEEEE-ecCC-CCCCHHHHHHHH
Confidence            68999999998753321   1121122234332                   0136788888 5443 468888887777


Q ss_pred             hccC-cceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         614 KLDS-KVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       614 ~l~~-~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      .+.. ...+|-|+.|.|.+...++......|.+.+
T Consensus       124 ~~~~~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l  158 (179)
T TIGR03598       124 WLRERGIPVLIVLTKADKLKKSELNKQLKKIKKAL  158 (179)
T ss_pred             HHHHcCCCEEEEEECcccCCHHHHHHHHHHHHHHH
Confidence            6653 578999999999998877766555555544

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=95.93  E-value=0.025  Score=56.09  Aligned_cols=22  Identities=32%  Similarity=0.602  Sum_probs=19.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|..|+|||||+|.|.+..+..
T Consensus        11 ~G~~g~GKTtl~~~l~~~~~~~   32 (219)
T COG1100          11 LGDGGVGKTTLLNRLVGDEFPE   32 (219)
T ss_pred             EcCCCccHHHHHHHHhcCcCcc
Confidence            9999999999999999976554

>PRK12740 elongation factor G; Reviewed

Probab=95.87  E-value=0.06  Score=63.49  Aligned_cols=56  Identities=14%  Similarity=0.314  Sum_probs=38.8

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTEL  254 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L  254 (650)
                      .+++++++.++. ++......+++.+. ...++|.|++|+|.... ......+.+++.+
T Consensus        84 aD~vllvvd~~~-~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~-~~~~~~~~l~~~l  140 (668)
T PRK12740         84 LDGAVVVVCAVG-GVEPQTETVWRQAEKYGVPRIIFVNKMDRAGA-DFFRVLAQLQEKL  140 (668)
T ss_pred             hCeEEEEEeCCC-CcCHHHHHHHHHHHHcCCCEEEEEECCCCCCC-CHHHHHHHHHHHH
Confidence            578999998764 56666766666665 36799999999998763 3344444555444

>TIGR00503 prfC peptide chain release factor 3

Probab=95.86  E-value=0.068  Score=61.47  Aligned_cols=42  Identities=19%  Similarity=0.252  Sum_probs=30.2

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      +++|++++..+. ++......+++.+. ...|+|.|++|.|...
T Consensus       104 aD~aIlVvDa~~-gv~~~t~~l~~~~~~~~~PiivviNKiD~~~  146 (527)
T TIGR00503       104 VDNCLMVIDAAK-GVETRTRKLMEVTRLRDTPIFTFMNKLDRDI  146 (527)
T ss_pred             CCEEEEEEECCC-CCCHHHHHHHHHHHhcCCCEEEEEECccccC
Confidence            568999998753 56655555555554 4679999999999753

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=95.83  E-value=0.052  Score=62.41  Aligned_cols=56  Identities=18%  Similarity=0.189  Sum_probs=37.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTEL  254 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L  254 (650)
                      ++++++++.++ .++......+++.+. ..+|+|.+++|.|....+ .......|++.|
T Consensus       103 aD~aIlVvDa~-~gv~~~t~~l~~~~~~~~iPiiv~iNK~D~~~a~-~~~~l~~i~~~l  159 (526)
T PRK00741        103 VDSALMVIDAA-KGVEPQTRKLMEVCRLRDTPIFTFINKLDRDGRE-PLELLDEIEEVL  159 (526)
T ss_pred             CCEEEEEEecC-CCCCHHHHHHHHHHHhcCCCEEEEEECCcccccC-HHHHHHHHHHHh
Confidence            57889998865 456665556666554 467999999999976543 223344455444

>cd01854 YjeQ_engC YjeQ/EngC

Probab=95.79  E-value=0.0098  Score=62.99  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=21.1

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +.| +|.||+|||||||+|++.....
T Consensus       164 ~~~-~G~sg~GKSTlin~l~~~~~~~  188 (287)
T cd01854         164 SVL-VGQSGVGKSTLINALLPDLDLA  188 (287)
T ss_pred             EEE-ECCCCCCHHHHHHHHhchhhcc
Confidence            455 9999999999999999975544

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=95.79  E-value=0.011  Score=63.02  Aligned_cols=25  Identities=28%  Similarity=0.359  Sum_probs=21.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +.| +|+||+|||||||+|++.....
T Consensus       167 ~~~-~G~sgvGKStlin~l~~~~~~~  191 (298)
T PRK00098        167 TVL-AGQSGVGKSTLLNALAPDLELK  191 (298)
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCcCCC
Confidence            345 9999999999999999875544

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=95.73  E-value=0.0097  Score=56.70  Aligned_cols=24  Identities=21%  Similarity=0.242  Sum_probs=20.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|+|||||||+|.+.....
T Consensus       104 ~~-~G~~~~GKstlin~l~~~~~~~  127 (155)
T cd01849         104 GV-IGYPNVGKSSVINALLNKLKLK  127 (155)
T ss_pred             EE-EccCCCCHHHHHHHHHcccccc
Confidence            44 9999999999999999976543

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=95.63  E-value=0.017  Score=61.09  Aligned_cols=33  Identities=18%  Similarity=0.139  Sum_probs=26.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL  145 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I  145 (650)
                      ||.+|||||||||+|.+.+... ++..++.|..+
T Consensus       127 ~G~pnvGKSsliN~l~~~~~~~-~~~~~g~T~~~  159 (287)
T PRK09563        127 IGIPNVGKSTLINRLAGKKIAK-TGNRPGVTKAQ  159 (287)
T ss_pred             ECCCCCCHHHHHHHHhcCCccc-cCCCCCeEEEE
Confidence            9999999999999999976543 45566666655

>PTZ00416 elongation factor 2; Provisional

Probab=95.62  E-value=0.073  Score=64.47  Aligned_cols=58  Identities=10%  Similarity=0.123  Sum_probs=42.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCC------CHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTI------SKSELQKFKTNIMTELT  255 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~L------t~~El~~~K~~I~~~L~  255 (650)
                      +++|++++.+. .++...+..+++.+.. +.++|.||+|.|.+      ++.|...-...+.++++
T Consensus       116 ~D~ailVvda~-~g~~~~t~~~~~~~~~~~~p~iv~iNK~D~~~~~~~~~~~~~~~~~~~ii~~in  180 (836)
T PTZ00416        116 TDGALVVVDCV-EGVCVQTETVLRQALQERIRPVLFINKVDRAILELQLDPEEIYQNFVKTIENVN  180 (836)
T ss_pred             CCeEEEEEECC-CCcCccHHHHHHHHHHcCCCEEEEEEChhhhhhhcCCCHHHHHHHHHHHHHHHH
Confidence            57899999865 5788888888888874 67999999999987      45554444444444444

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=95.58  E-value=0.08  Score=58.11  Aligned_cols=54  Identities=7%  Similarity=0.100  Sum_probs=36.0

Q ss_pred             CCCcchHHHHHHhccC--CCeeeeeecccC-CCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         210 GLKSLDLVCMKKLDSK--VNIIPIIAKADT-ISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       210 ~Lk~lDI~~mk~L~~~--vnvIPVItKAD~-Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      .+.+.|+..++.+.-.  -|+|.|++++|. +..  -..+.+.|++.+..++..+..+.
T Consensus       182 ~~~~~e~~~l~~~~llt~KP~i~v~N~~e~~~~~--~~~~~~~i~~~~~~~~~~~i~~s  238 (364)
T PRK09601        182 ELTDEEEKLLKSLQLLTAKPVLYVANVDEDDLAD--GNPYVKKVREIAAKEGAEVVVIC  238 (364)
T ss_pred             CCCHHHHHHHHHhcccccCCeEEEEECCcccccc--ccHHHHHHHHHHHHcCCeEEEEE
Confidence            5677788888888743  399999999994 221  22355566666666666666554

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=95.54  E-value=0.0062  Score=65.25  Aligned_cols=77  Identities=12%  Similarity=0.104  Sum_probs=53.3

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..++||||||+.+.-    .....+.+.++.                .+....+||+||+ +......+...|.++++.|
T Consensus        86 ~~l~VIDTPGL~d~~----~~~e~~~~~ik~----------------~l~~~g~DvVLyV-~rLD~~R~~~~DkqlLk~I  144 (313)
T TIGR00991        86 FTLNIIDTPGLIEGG----YINDQAVNIIKR----------------FLLGKTIDVLLYV-DRLDAYRVDTLDGQVIRAI  144 (313)
T ss_pred             eEEEEEECCCCCchH----HHHHHHHHHHHH----------------HhhcCCCCEEEEE-eccCcccCCHHHHHHHHHH
Confidence            578999999999841    111122222322                1223479999999 7665557888889998888


Q ss_pred             cCc------ceEEeeeecCCCCCH
Q psy8479         616 DSK------VNIIPIIAKADTISK  633 (650)
Q Consensus       616 ~~~------vnviPvIaKaD~lt~  633 (650)
                      ...      -|+|-|+.++|.+.+
T Consensus       145 qe~FG~~iw~~~IVVfTh~d~~~p  168 (313)
T TIGR00991       145 TDSFGKDIWRKSLVVLTHAQFSPP  168 (313)
T ss_pred             HHHhhhhhhccEEEEEECCccCCC
Confidence            764      578999999998854

>KOG0078|consensus

Probab=95.48  E-value=0.087  Score=53.24  Aligned_cols=131  Identities=21%  Similarity=0.301  Sum_probs=75.4

Q ss_pred             Cceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEE--EEEEeeCCceeec--ch----hHHHHHHHHHHHHHH
Q psy8479         107 GKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKA--HTYELQENNVKLK--ED----SFKSIVDYIDNQFEA  177 (650)
Q Consensus       107 g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~--~~~~l~e~g~~L~--~~----~w~~Ii~yI~~qf~~  177 (650)
                      .|-+- ||.||||||.|+-.+....+...    ..+|+.|..  .++.|++..+.|.  .-    -+..|.       ..
T Consensus        12 ~~kvlliGDs~vGKt~~l~rf~d~~f~~~----~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~-------~s   80 (207)
T KOG0078|consen   12 LFKLLLIGDSGVGKTCLLLRFSDDSFNTS----FISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTIT-------TA   80 (207)
T ss_pred             EEEEEEECCCCCchhHhhhhhhhccCcCC----ccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHH-------HH
Confidence            33344 99999999999988776554332    334444443  3455555444444  22    233333       34


Q ss_pred             HHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHH
Q psy8479         178 YLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTE  253 (650)
Q Consensus       178 yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~  253 (650)
                      |...-.             -=.++|-|.- -.....+.. +|+++.    ..|+++.|-+|+|.-.+  ++--+.+=.+.
T Consensus        81 YyrgA~-------------gi~LvyDitn-e~Sfeni~~-W~~~I~e~a~~~v~~~LvGNK~D~~~~--R~V~~e~ge~l  143 (207)
T KOG0078|consen   81 YYRGAM-------------GILLVYDITN-EKSFENIRN-WIKNIDEHASDDVVKILVGNKCDLEEK--RQVSKERGEAL  143 (207)
T ss_pred             HHhhcC-------------eeEEEEEccc-hHHHHHHHH-HHHHHHhhCCCCCcEEEeecccccccc--ccccHHHHHHH
Confidence            443311             1146666642 233433333 666665    36799999999998663  22333344445


Q ss_pred             HHHCCCcEEeCC
Q psy8479         254 LTSNGVHIYEFP  265 (650)
Q Consensus       254 L~~~~I~if~f~  265 (650)
                      ..++|+.+|...
T Consensus       144 A~e~G~~F~EtS  155 (207)
T KOG0078|consen  144 AREYGIKFFETS  155 (207)
T ss_pred             HHHhCCeEEEcc
Confidence            567899999875

>cd01856 YlqF YlqF

Probab=95.44  E-value=0.014  Score=56.68  Aligned_cols=33  Identities=18%  Similarity=0.148  Sum_probs=24.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL  145 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I  145 (650)
                      +|.+|+|||||||.|++.... ..+..++.|...
T Consensus       121 ~G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~  153 (171)
T cd01856         121 VGIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGI  153 (171)
T ss_pred             ECCCCCCHHHHHHHHhCCCce-eecCCCCEEeee
Confidence            999999999999999997654 233334444433

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=95.20  E-value=0.13  Score=51.17  Aligned_cols=42  Identities=17%  Similarity=0.210  Sum_probs=24.4

Q ss_pred             eeEEEEEEcCCCC-CCCcch---HHHHHHhccCCCeeeeeecccCC
Q psy8479         197 IHVCLYFICPTGH-GLKSLD---LVCMKKLDSKVNIIPIIAKADTI  238 (650)
Q Consensus       197 VH~cLYfI~ps~h-~Lk~lD---I~~mk~L~~~vnvIPVItKAD~L  238 (650)
                      .++++++...+.+ .+..+.   +..++.....+++|.|.+|+|..
T Consensus        88 ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~  133 (195)
T cd01873          88 SDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLR  133 (195)
T ss_pred             CCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcc
Confidence            4566666665432 233332   22333333567999999999964

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=95.17  E-value=0.068  Score=51.12  Aligned_cols=23  Identities=22%  Similarity=0.258  Sum_probs=19.0

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      .+ +|.+|+||||||+.+....+.
T Consensus         4 ~v-vG~~gvGKTsli~~~~~~~f~   26 (158)
T cd04103           4 GI-VGNLQSGKSALVHRYLTGSYV   26 (158)
T ss_pred             EE-ECCCCCcHHHHHHHHHhCCCC
Confidence            45 999999999999998776543

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.

>KOG0084|consensus

Probab=95.14  E-value=0.093  Score=52.65  Aligned_cols=133  Identities=17%  Similarity=0.234  Sum_probs=73.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNT  191 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~  191 (650)
                      +|.||||||-|+--+..-.+..+-.+++|  +.+...++.+++..++|.  -|...=+   ++|+....   ...|.   
T Consensus        15 iGds~VGKtCL~~Rf~~~~f~e~~~sTIG--VDf~~rt~e~~gk~iKlQ--IWDTAGQ---ERFrtit~---syYR~---   81 (205)
T KOG0084|consen   15 IGDSGVGKTCLLLRFKDDTFTESYISTIG--VDFKIRTVELDGKTIKLQ--IWDTAGQ---ERFRTITS---SYYRG---   81 (205)
T ss_pred             ECCCCcChhhhhhhhccCCcchhhcceee--eEEEEEEeeecceEEEEE--eeecccc---HHHhhhhH---hhccC---
Confidence            99999999999998888665554333333  455556778887766665  2322111   22322111   12244   


Q ss_pred             cCCceeeEEEEEEcCC-CCCCCcchHHHHHHh----ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc-EEeCC
Q psy8479         192 YHDNRIHVCLYFICPT-GHGLKSLDLVCMKKL----DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH-IYEFP  265 (650)
Q Consensus       192 ~~D~RVH~cLYfI~ps-~h~Lk~lDI~~mk~L----~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~-if~f~  265 (650)
                           .|.+++.-.-| .+.+..+.. .|+.+    ...||.+.|-+|+|.........  .........++|. ++.-.
T Consensus        82 -----ahGii~vyDiT~~~SF~~v~~-Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~--~~a~~fa~~~~~~~f~ETS  153 (205)
T KOG0084|consen   82 -----AHGIIFVYDITKQESFNNVKR-WIQEIDRYASENVPKLLVGNKCDLTEKRVVST--EEAQEFADELGIPIFLETS  153 (205)
T ss_pred             -----CCeEEEEEEcccHHHhhhHHH-HHHHhhhhccCCCCeEEEeeccccHhheecCH--HHHHHHHHhcCCcceeecc
Confidence                 35555544433 345555554 23333    34679999999999864433222  1223344557887 44433

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=95.14  E-value=0.1  Score=56.51  Aligned_cols=29  Identities=24%  Similarity=0.424  Sum_probs=23.6

Q ss_pred             Ceeeeeeccc-CCCHHHHHHHHHHHHHHHH
Q psy8479         227 NIIPIIAKAD-TISKSELQKFKTNIMTELT  255 (650)
Q Consensus       227 nvIPVItKAD-~Lt~~El~~~K~~I~~~L~  255 (650)
                      +.|.|++|+| .+..++++.+++.+.+...
T Consensus       277 ~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~  306 (369)
T COG0536         277 PRIVVLNKIDLPLDEEELEELKKALAEALG  306 (369)
T ss_pred             ceEEEEeccCCCcCHHHHHHHHHHHHHhcC
Confidence            8899999999 7788888888887765543

>KOG0073|consensus

Probab=95.03  E-value=0.069  Score=52.20  Aligned_cols=126  Identities=14%  Similarity=0.202  Sum_probs=72.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|-.|+||||+++.|.+...     ....+|..++.++..+.  ++.|.   -..-+.+..|+.    +|+..       
T Consensus        22 LGLdNsGKTti~~kl~~~~~-----~~i~pt~gf~Iktl~~~--~~~L~iwDvGGq~~lr~~W~----nYfes-------   83 (185)
T KOG0073|consen   22 LGLDNSGKTTIVKKLLGEDT-----DTISPTLGFQIKTLEYK--GYTLNIWDVGGQKTLRSYWK----NYFES-------   83 (185)
T ss_pred             EecCCCCchhHHHHhcCCCc-----cccCCccceeeEEEEec--ceEEEEEEcCCcchhHHHHH----Hhhhc-------
Confidence            99999999999999998752     22334454444444444  34443   233345555553    33322       


Q ss_pred             ccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHh-c-c---CCCeeeeeecccC---CCHHHHHHHHHHHHHHHHHCCC
Q psy8479         189 LNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKL-D-S---KVNIIPIIAKADT---ISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L-~-~---~vnvIPVItKAD~---Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                              .|..+|++..+- .++.+. ...++.| . +   ..+++.+.+|.|.   |+.+++..... +.+.++.+.+
T Consensus        84 --------tdglIwvvDssD~~r~~e~-~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~-L~~l~ks~~~  153 (185)
T KOG0073|consen   84 --------TDGLIWVVDSSDRMRMQEC-KQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALD-LEELAKSHHW  153 (185)
T ss_pred             --------cCeEEEEEECchHHHHHHH-HHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhC-HHHhccccCc
Confidence                    477888887532 222222 2223333 2 2   2499999999995   56666543322 2333366777


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      +++.+.
T Consensus       154 ~l~~cs  159 (185)
T KOG0073|consen  154 RLVKCS  159 (185)
T ss_pred             eEEEEe
Confidence            777765

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=95.02  E-value=0.089  Score=58.47  Aligned_cols=133  Identities=17%  Similarity=0.202  Sum_probs=89.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC-CCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST-PSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKIKRSL  189 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~-~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~  189 (650)
                      +|.---|||||+.+|++...... ..+..+-|..|..+++.+.++.+.+. .-.+...+.       ..+.         
T Consensus         6 ~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~-------~mia---------   69 (447)
T COG3276           6 AGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFIS-------NLLA---------   69 (447)
T ss_pred             eeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCCceEEeeCCCcHHHHH-------HHHh---------
Confidence            56667899999999999643222 23345567777766666666543333 223333221       0000         


Q ss_pred             cccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc--CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeC
Q psy8479         190 NTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS--KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEF  264 (650)
Q Consensus       190 ~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~--~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f  264 (650)
                         .=+=+|+|+++|.++ .++++...+.+--|.-  .-|.|.||+|+|...+..+....++|...+.-.+.++|..
T Consensus        70 ---g~~~~d~alLvV~~d-eGl~~qtgEhL~iLdllgi~~giivltk~D~~d~~r~e~~i~~Il~~l~l~~~~i~~~  142 (447)
T COG3276          70 ---GLGGIDYALLVVAAD-EGLMAQTGEHLLILDLLGIKNGIIVLTKADRVDEARIEQKIKQILADLSLANAKIFKT  142 (447)
T ss_pred             ---hhcCCceEEEEEeCc-cCcchhhHHHHHHHHhcCCCceEEEEeccccccHHHHHHHHHHHHhhccccccccccc
Confidence               112368899999875 5788888887777764  3488999999999999988888888988887666666544

>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=94.99  E-value=0.05  Score=54.14  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=17.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      +|.||+|||+|..-|...+...+
T Consensus         9 ~Gps~SGKTaLf~~L~~~~~~~T   31 (181)
T PF09439_consen    9 VGPSGSGKTALFSQLVNGKTVPT   31 (181)
T ss_dssp             E-STTSSHHHHHHHHHHSS---B
T ss_pred             EcCCCCCHHHHHHHHhcCCcCCe
Confidence            99999999999999998755444

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=94.85  E-value=0.027  Score=55.94  Aligned_cols=72  Identities=11%  Similarity=0.054  Sum_probs=47.9

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      -.+++|||||+|+.-       .....|++. .              .+.  +.+++|++ .   ...+...|..+++.|
T Consensus        52 ~~l~l~DtpG~~~~~-------~~~~~~l~~-~--------------~~~--~~d~~l~v-~---~~~~~~~d~~~~~~l  103 (197)
T cd04104          52 PNVTLWDLPGIGSTA-------FPPDDYLEE-M--------------KFS--EYDFFIII-S---STRFSSNDVKLAKAI  103 (197)
T ss_pred             CCceEEeCCCCCccc-------CCHHHHHHH-h--------------Ccc--CcCEEEEE-e---CCCCCHHHHHHHHHH
Confidence            468999999999731       123455554 1              111  34566666 3   235788888887766


Q ss_pred             cCc-ceEEeeeecCCCCCHHH
Q psy8479         616 DSK-VNIIPIIAKADTISKSE  635 (650)
Q Consensus       616 ~~~-vnviPvIaKaD~lt~~e  635 (650)
                      ... ..++-|+.|+|.+.+.+
T Consensus       104 ~~~~~~~ilV~nK~D~~~~~~  124 (197)
T cd04104         104 QCMGKKFYFVRTKVDRDLSNE  124 (197)
T ss_pred             HHhCCCEEEEEecccchhhhh
Confidence            643 46789999999987655

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

>KOG0057|consensus

Probab=94.63  E-value=0.014  Score=66.26  Aligned_cols=38  Identities=24%  Similarity=0.233  Sum_probs=29.8

Q ss_pred             CccCCCCCCcccccccccCCCCceee---------cCCCCCChhhHhhhhhCc
Q psy8479          86 CWVNTRTPPPNFLEKSWNFIPGKAYK---------PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus        86 ~~vG~~~lp~Q~~rk~~~~k~g~~Fn---------VG~SGvGKSTlINtLf~~  129 (650)
                      .-|+|.-.|++.   ..   +|+.|+         ||.+|+||||+||+||.-
T Consensus       355 ~dV~f~y~~k~~---iL---~gvsf~I~kGekVaIvG~nGsGKSTilr~LlrF  401 (591)
T KOG0057|consen  355 DDVHFSYGPKRK---VL---KGVSFTIPKGEKVAIVGSNGSGKSTILRLLLRF  401 (591)
T ss_pred             EeeEEEeCCCCc---ee---cceeEEecCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            456777777651   12   599998         999999999999999973

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=94.63  E-value=0.012  Score=54.13  Aligned_cols=19  Identities=37%  Similarity=0.392  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|++|+|||||+++|++..
T Consensus        17 ~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   17 VGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EESTTSSHHHHHHHHTTSS
T ss_pred             EccCCCccccceeeecccc
Confidence            9999999999999999963

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>cd00881 GTP_translation_factor GTP translation factor family

Probab=94.57  E-value=0.039  Score=52.74  Aligned_cols=82  Identities=16%  Similarity=0.138  Sum_probs=53.6

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ...+++|||||+++-      . .....|+.                      ..|+++|+ +.+ .++....+.++++.
T Consensus        61 ~~~~~liDtpG~~~~------~-~~~~~~~~----------------------~~d~~i~v-~d~-~~~~~~~~~~~~~~  109 (189)
T cd00881          61 DRRVNFIDTPGHEDF------S-SEVIRGLS----------------------VSDGAILV-VDA-NEGVQPQTREHLRI  109 (189)
T ss_pred             CEEEEEEeCCCcHHH------H-HHHHHHHH----------------------hcCEEEEE-EEC-CCCCcHHHHHHHHH
Confidence            578999999998751      1 11111111                      25678888 544 34555666666655


Q ss_pred             cc-CcceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         615 LD-SKVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       615 l~-~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      +. ....++-|+.|+|.+.++++......+.+.+
T Consensus       110 ~~~~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~  143 (189)
T cd00881         110 AREGGLPIIVAINKIDRVGEEDLEEVLREIKELL  143 (189)
T ss_pred             HHHCCCCeEEEEECCCCcchhcHHHHHHHHHHHH
Confidence            54 4788999999999999777766666665544

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=94.55  E-value=0.51  Score=53.50  Aligned_cols=85  Identities=12%  Similarity=0.099  Sum_probs=53.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc--cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH---CCCcEEeCCC-Cchh
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD--SKVNIIPIIAKADTISKSELQKFKTNIMTELTS---NGVHIYEFPT-DDET  270 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~--~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~---~~I~if~f~~-d~~~  270 (650)
                      ++++++++.+...++++.-.+.+..+.  ..-++|+||+|+|....+++......|++.+..   .+..++.... ..+.
T Consensus       141 ~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~n  220 (460)
T PTZ00327        141 MDAALLLIAANESCPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYN  220 (460)
T ss_pred             CCEEEEEEECCCCccchhhHHHHHHHHHcCCCcEEEEEecccccCHHHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCC
Confidence            578888888763334544344444333  223789999999999888887777888777654   3455665542 2233


Q ss_pred             HHHHHHHhhhc
Q psy8479         271 MSDVNAAMTIF  281 (650)
Q Consensus       271 ~~~~~~~~~~~  281 (650)
                      +..+...+...
T Consensus       221 I~~Ll~~L~~~  231 (460)
T PTZ00327        221 IDVVLEYICTQ  231 (460)
T ss_pred             HHHHHHHHHhh
Confidence            44555555533

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=94.50  E-value=0.25  Score=55.74  Aligned_cols=63  Identities=19%  Similarity=0.201  Sum_probs=42.2

Q ss_pred             eeeEEEEEEcCCCCCC-------CcchHHHHHHhcc-CC-CeeeeeecccC----CCHHHHHHHHHHHHHHHHHCCC
Q psy8479         196 RIHVCLYFICPTGHGL-------KSLDLVCMKKLDS-KV-NIIPIIAKADT----ISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       196 RVH~cLYfI~ps~h~L-------k~lDI~~mk~L~~-~v-nvIPVItKAD~----Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                      ..++++..+.++ .+.       ...-.+.+..+.. .+ .+|.+|+|.|.    .++..+...++.|+..|...+.
T Consensus       108 ~aD~ailVVda~-~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~  183 (446)
T PTZ00141        108 QADVAILVVAST-AGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGY  183 (446)
T ss_pred             hcCEEEEEEEcC-CCceecccCCCccHHHHHHHHHHcCCCeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCC
Confidence            356788888865 343       2444555555553 55 47899999994    2456777788888888876543

>KOG2423|consensus

Probab=94.40  E-value=0.023  Score=62.15  Aligned_cols=69  Identities=12%  Similarity=0.062  Sum_probs=39.7

Q ss_pred             ccCCCCCCcccccccccCCCCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCc-----EEEEEEEEEeeCCce
Q psy8479          87 WVNTRTPPPNFLEKSWNFIPGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPS-----VKLKAHTYELQENNV  157 (650)
Q Consensus        87 ~vG~~~lp~Q~~rk~~~~k~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T-----~~I~~~~~~l~e~g~  157 (650)
                      .-.+-+|..|+-+-... |+.+..- ||-.|+||||+||||-..++... .+-+|.|     +.+....|-|+..|+
T Consensus       288 KgalI~llRQf~kLh~d-kkqISVGfiGYPNvGKSSiINTLR~KkVCkv-APIpGETKVWQYItLmkrIfLIDcPGv  362 (572)
T KOG2423|consen  288 KGALIQLLRQFAKLHSD-KKQISVGFIGYPNVGKSSIINTLRKKKVCKV-APIPGETKVWQYITLMKRIFLIDCPGV  362 (572)
T ss_pred             hhHHHHHHHHHHhhccC-ccceeeeeecCCCCchHHHHHHHhhcccccc-cCCCCcchHHHHHHHHhceeEecCCCc
Confidence            33344555555443322 2333322 99999999999999998876553 2223322     223344566666664

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=94.32  E-value=0.16  Score=60.55  Aligned_cols=41  Identities=15%  Similarity=0.374  Sum_probs=31.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHh-ccCCCeeeeeecccCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKL-DSKVNIIPIIAKADTI  238 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L-~~~vnvIPVItKAD~L  238 (650)
                      .+++++++... .++...+..+++.+ ....++|.|++|.|..
T Consensus       110 aD~~llVvda~-~g~~~~t~~~~~~~~~~~~p~ivviNKiD~~  151 (720)
T TIGR00490       110 VDGAIVVVCAV-EGVMPQTETVLRQALKENVKPVLFINKVDRL  151 (720)
T ss_pred             cCEEEEEEecC-CCCCccHHHHHHHHHHcCCCEEEEEEChhcc
Confidence            47888888754 46777777777776 3567889999999986

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.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=94.29  E-value=0.022  Score=58.51  Aligned_cols=18  Identities=39%  Similarity=0.390  Sum_probs=16.9

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||+|.|-+-
T Consensus        37 ~GpSGSGKSTLLniig~l   54 (226)
T COG1136          37 VGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999874

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=94.12  E-value=0.016  Score=53.46  Aligned_cols=47  Identities=21%  Similarity=0.133  Sum_probs=35.4

Q ss_pred             CCceeeEeeecCCCcccCCcchHHHHHhccCcceEEeeeecCCCCCHHHH
Q psy8479         587 TRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSEL  636 (650)
Q Consensus       587 ~rvh~~lyf~i~ptgh~l~~~Di~~mk~l~~~vnviPvIaKaD~lt~~e~  636 (650)
                      .++|+++|+ +.++. .....+..+++. ....++|-|+.|+|..+..+.
T Consensus        79 ~~~~~~v~v-~d~~~-~~~~~~~~~~~~-~~~~~vi~v~nK~D~~~~~~~  125 (157)
T cd04164          79 EEADLVLFV-IDASR-GLDEEDLEILEL-PADKPIIVVLNKSDLLPDSEL  125 (157)
T ss_pred             hhCCEEEEE-EECCC-CCCHHHHHHHHh-hcCCCEEEEEEchhcCCcccc
Confidence            368999999 55542 456667777776 567899999999999876654

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.

>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=94.07  E-value=0.022  Score=51.16  Aligned_cols=70  Identities=14%  Similarity=0.094  Sum_probs=46.1

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..+.++||||+++.-.....- ..+..|++.                 +  .++|+++|+ +... +.+...+.++++.|
T Consensus        47 ~~~~~vDtpG~~~~~~~~~~~-~~~~~~~~~-----------------~--~~~d~ii~v-v~~~-~~~~~~~~~~~~~l  104 (116)
T PF01926_consen   47 KKFILVDTPGINDGESQDNDG-KEIRKFLEQ-----------------I--SKSDLIIYV-VDAS-NPITEDDKNILREL  104 (116)
T ss_dssp             EEEEEEESSSCSSSSHHHHHH-HHHHHHHHH-----------------H--CTESEEEEE-EETT-SHSHHHHHHHHHHH
T ss_pred             eeEEEEeCCCCcccchhhHHH-HHHHHHHHH-----------------H--HHCCEEEEE-EECC-CCCCHHHHHHHHHH
Confidence            445799999998853322211 122233333                 1  346889999 5543 35667788999999


Q ss_pred             cCcceEEeeeec
Q psy8479         616 DSKVNIIPIIAK  627 (650)
Q Consensus       616 ~~~vnviPvIaK  627 (650)
                      ....++|.|+.|
T Consensus       105 ~~~~~~i~v~NK  116 (116)
T PF01926_consen  105 KNKKPIILVLNK  116 (116)
T ss_dssp             HTTSEEEEEEES
T ss_pred             hcCCCEEEEEcC
Confidence            888899999876

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 ....

>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=94.06  E-value=0.017  Score=58.26  Aligned_cols=80  Identities=11%  Similarity=0.055  Sum_probs=50.6

Q ss_pred             cccccccCCCCCccccc-ccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         536 LGRGIVRSPGERKEKNA-EFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~-~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ..++|||||||++.-.. .... ..|..++..                  ....+||+||. ++..  .+..-|..+++.
T Consensus        49 ~~v~VIDTPGl~d~~~~~~~~~-~~i~~~l~~------------------~~~g~ha~llV-i~~~--r~t~~~~~~l~~  106 (212)
T PF04548_consen   49 RQVTVIDTPGLFDSDGSDEEII-REIKRCLSL------------------CSPGPHAFLLV-IPLG--RFTEEDREVLEL  106 (212)
T ss_dssp             EEEEEEE--SSEETTEEHHHHH-HHHHHHHHH------------------TTT-ESEEEEE-EETT--B-SHHHHHHHHH
T ss_pred             eEEEEEeCCCCCCCcccHHHHH-HHHHHHHHh------------------ccCCCeEEEEE-EecC--cchHHHHHHHHH
Confidence            67899999999885321 1122 234444432                  12369999998 6443  777778888777


Q ss_pred             ccC------cceEEeeeecCCCCCHHHHH
Q psy8479         615 LDS------KVNIIPIIAKADTISKSELQ  637 (650)
Q Consensus       615 l~~------~vnviPvIaKaD~lt~~e~~  637 (650)
                      |..      .-|+|-|+..+|.+.+..+.
T Consensus       107 l~~~FG~~~~k~~ivvfT~~d~~~~~~~~  135 (212)
T PF04548_consen  107 LQEIFGEEIWKHTIVVFTHADELEDDSLE  135 (212)
T ss_dssp             HHHHHCGGGGGGEEEEEEEGGGGTTTTHH
T ss_pred             HHHHccHHHHhHhhHHhhhccccccccHH
Confidence            663      34788899999999987643

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 ....

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.99  E-value=0.028  Score=58.34  Aligned_cols=19  Identities=32%  Similarity=0.361  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.||+|||||+|.+.|-.
T Consensus        35 lGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          35 LGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             ECCCCCCHHHHHHHHhCCC
Confidence            9999999999999999954

>cd01900 YchF YchF subfamily

Probab=93.98  E-value=0.044  Score=57.90  Aligned_cols=20  Identities=30%  Similarity=0.341  Sum_probs=19.0

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||..|+|||||+|+|++.+.
T Consensus         4 vG~PN~GKSTLfn~Lt~~~~   23 (274)
T cd01900           4 VGLPNVGKSTLFNALTKAGA   23 (274)
T ss_pred             eCCCCCcHHHHHHHHhCCCC
Confidence            89999999999999999876

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.

>KOG3886|consensus

Probab=93.93  E-value=0.13  Score=53.12  Aligned_cols=122  Identities=17%  Similarity=0.294  Sum_probs=72.7

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHH-HHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQ-EEL  183 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~-eE~  183 (650)
                      +-+ .|+||+||||+=-.+|. +..+.....+|.|+.|....+-.-+ ++.|+   -..-+..+       ++|+. ++.
T Consensus         7 vlL-MGrsGsGKsSmrsiiF~-ny~a~D~~rlg~tidveHsh~RflG-nl~LnlwDcGgqe~fm-------en~~~~q~d   76 (295)
T KOG3886|consen    7 VLL-MGRSGSGKSSMRSIIFA-NYIARDTRRLGATIDVEHSHVRFLG-NLVLNLWDCGGQEEFM-------ENYLSSQED   76 (295)
T ss_pred             EEE-eccCCCCccccchhhhh-hhhhhhhhccCCcceeeehhhhhhh-hheeehhccCCcHHHH-------HHHHhhcch
Confidence            345 99999999998877774 3444445567777777543332222 23444   11112233       45565 566


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHH----HHHHhcc---CCCeeeeeecccCCCHHHHHHHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLV----CMKKLDS---KVNIIPIIAKADTISKSELQKFKT  248 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~----~mk~L~~---~vnvIPVItKAD~Lt~~El~~~K~  248 (650)
                      ++-|+        |.+.+|+...+...+. -|+.    +++.|-+   ..-+.-.+.|.|.+...+....-+
T Consensus        77 ~iF~n--------V~vli~vFDves~e~~-~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~r~~if~  139 (295)
T KOG3886|consen   77 NIFRN--------VQVLIYVFDVESREME-KDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQEDARELIFQ  139 (295)
T ss_pred             hhhee--------heeeeeeeeccchhhh-hhHHHHHHHHHHHHhcCCcceEEEEEeechhcccchHHHHHH
Confidence            66565        5688999987655443 2433    3333433   336777899999998777655333

>COG2229 Predicted GTPase [General function prediction only]

Probab=93.89  E-value=0.36  Score=48.03  Aligned_cols=125  Identities=18%  Similarity=0.205  Sum_probs=70.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCC---CCCC--C---CCcEEEEEEEEEeeC-Cceeec--------chhHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFEST---PSPH--S---LPSVKLKAHTYELQE-NNVKLK--------EDSFKSIVDY  170 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~---~s~~--~---~~T~~I~~~~~~l~e-~g~~L~--------~~~w~~Ii~y  170 (650)
                      +.+ .|..|+||||||.+|.......+   .++.  .   ..|+-+..-...+.+ .++.|.        ...|.-+.  
T Consensus        13 Ivv-~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPGq~RF~fm~~~l~--   89 (187)
T COG2229          13 IVV-IGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQERFKFMWEILS--   89 (187)
T ss_pred             EEE-EcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCCcHHHHHHHHHHh--
Confidence            344 89999999999999999875433   1111  1   134444444445555 567765        12222222  


Q ss_pred             HHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC--CCeeeeeecccCCCHHHHHHHHH
Q psy8479         171 IDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK--VNIIPIIAKADTISKSELQKFKT  248 (650)
Q Consensus       171 I~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~--vnvIPVItKAD~Lt~~El~~~K~  248 (650)
                               +.      .          .-+.++..+......-...+|..+..+  .+++..++|-|..+.---.    
T Consensus        90 ---------~g------a----------~gaivlVDss~~~~~~a~~ii~f~~~~~~ip~vVa~NK~DL~~a~ppe----  140 (187)
T COG2229          90 ---------RG------A----------VGAIVLVDSSRPITFHAEEIIDFLTSRNPIPVVVAINKQDLFDALPPE----  140 (187)
T ss_pred             ---------CC------c----------ceEEEEEecCCCcchHHHHHHHHHhhccCCCEEEEeeccccCCCCCHH----
Confidence                     11      1          122233333345554668888888753  6999999998866442222    


Q ss_pred             HHHHHHHHC--CCcEEeC
Q psy8479         249 NIMTELTSN--GVHIYEF  264 (650)
Q Consensus       249 ~I~~~L~~~--~I~if~f  264 (650)
                      .|++.|...  .+.++.-
T Consensus       141 ~i~e~l~~~~~~~~vi~~  158 (187)
T COG2229         141 KIREALKLELLSVPVIEI  158 (187)
T ss_pred             HHHHHHHhccCCCceeee
Confidence            344455444  4555543

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=93.74  E-value=0.025  Score=57.68  Aligned_cols=19  Identities=37%  Similarity=0.391  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.||+||||||.+|-+-.
T Consensus        34 iGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          34 IGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             ECCCCCCHHHHHHHHHCCc
Confidence            9999999999999997743

>cd04163 Era Era subfamily

Probab=93.74  E-value=0.083  Score=48.69  Aligned_cols=57  Identities=12%  Similarity=0.064  Sum_probs=41.3

Q ss_pred             CceeeEeeecCCCcccCCcchHHHHHhccCc-ceEEeeeecCCCC-CHHHHHHHHHHHHhh
Q psy8479         588 RLRCASKNSDLPLAECLKSLDLVCMKKLDSK-VNIIPIIAKADTI-SKSELQKFKVSKTRV  646 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~~Di~~mk~l~~~-vnviPvIaKaD~l-t~~e~~~~K~~i~~~  646 (650)
                      .+|+++|. +.++. .....+..+++.+... ..++.|+.|+|.. ...++..+...+...
T Consensus        82 ~~d~i~~v-~d~~~-~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~  140 (168)
T cd04163          82 DVDLVLFV-VDASE-PIGEGDEFILELLKKSKTPVILVLNKIDLVKDKEDLLPLLEKLKEL  140 (168)
T ss_pred             hCCEEEEE-EECCC-ccCchHHHHHHHHHHhCCCEEEEEEchhccccHHHHHHHHHHHHhc
Confidence            36778888 65543 3566677777777654 8899999999999 677777777776554

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.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=93.72  E-value=0.034  Score=55.80  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=22.0

Q ss_pred             CCceeecCCCCCChhhHhhhhhCcCC
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~~~  131 (650)
                      .+|.|-+|.||.||||||+.|++...
T Consensus        28 Gef~fl~GpSGAGKSTllkLi~~~e~   53 (223)
T COG2884          28 GEFVFLTGPSGAGKSTLLKLIYGEER   53 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhhc
Confidence            46666699999999999999998643

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=93.68  E-value=0.35  Score=58.77  Aligned_cols=42  Identities=10%  Similarity=0.069  Sum_probs=33.9

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      .++|+.+|... .++......+++.+. .+.++|.+|+|.|.+.
T Consensus       122 ~D~ailVvda~-~Gv~~~t~~~~~~~~~~~~p~i~~iNK~D~~~  164 (843)
T PLN00116        122 TDGALVVVDCI-EGVCVQTETVLRQALGERIRPVLTVNKMDRCF  164 (843)
T ss_pred             cCEEEEEEECC-CCCcccHHHHHHHHHHCCCCEEEEEECCcccc
Confidence            46788888754 688888888888776 4779999999999983

>cd01859 MJ1464 MJ1464

Probab=93.61  E-value=0.093  Score=49.73  Aligned_cols=20  Identities=20%  Similarity=0.265  Sum_probs=18.2

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|+|||||||.|++...
T Consensus       107 ig~~~~Gkssl~~~l~~~~~  126 (156)
T cd01859         107 VGYPNVGKSSIINALKGRHS  126 (156)
T ss_pred             ECCCCCCHHHHHHHHhCCCc
Confidence            99999999999999998653

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=93.51  E-value=0.42  Score=54.59  Aligned_cols=120  Identities=18%  Similarity=0.247  Sum_probs=67.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCC-------CCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPH-------SLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~-------~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~  184 (650)
                      ||.+|+||||||.+|..+--..+-+.-       .+++..|+    +         -+|-..|-.+|+-.          
T Consensus        75 vGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTvvsgK~RRiT----f---------lEcp~Dl~~miDva----------  131 (1077)
T COG5192          75 VGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVVSGKTRRIT----F---------LECPSDLHQMIDVA----------  131 (1077)
T ss_pred             ecCCCCChhHHHHHHHHHHHHhhhhccCCceEEeecceeEEE----E---------EeChHHHHHHHhHH----------
Confidence            999999999999999976322221111       12222221    1         22444554444322          


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC-C-CeeeeeecccCC-CHHHHHHHHHHHHHHHHH---CC
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK-V-NIIPIIAKADTI-SKSELQKFKTNIMTELTS---NG  258 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~-v-nvIPVItKAD~L-t~~El~~~K~~I~~~L~~---~~  258 (650)
                            ++-    +++|.+|..+ -|+.-.-.+||.-|... . -|+-|+|..|.+ +++-|...|++++..+=.   .|
T Consensus       132 ------KIa----DLVlLlIdgn-fGfEMETmEFLnil~~HGmPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqG  200 (1077)
T COG5192         132 ------KIA----DLVLLLIDGN-FGFEMETMEFLNILISHGMPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQG  200 (1077)
T ss_pred             ------Hhh----heeEEEeccc-cCceehHHHHHHHHhhcCCCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCC
Confidence                  121    3467777643 34443334444444432 2 688899999988 456677777755544322   47


Q ss_pred             CcEEeCC
Q psy8479         259 VHIYEFP  265 (650)
Q Consensus       259 I~if~f~  265 (650)
                      +++|-..
T Consensus       201 aKlFyls  207 (1077)
T COG5192         201 AKLFYLS  207 (1077)
T ss_pred             ceEEEec
Confidence            7777553

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=93.49  E-value=0.11  Score=50.57  Aligned_cols=91  Identities=20%  Similarity=0.157  Sum_probs=52.5

Q ss_pred             cccccccCCCCCccccccc---ccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHH
Q psy8479         536 LGRGIVRSPGERKEKNAEF---FSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCM  612 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~---~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~m  612 (650)
                      ..++||||||++.+.....   .|..-+..|+..                  . .++++++++ +.. +......+.+++
T Consensus        70 ~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~------------------~-~~~~~~~~v-~d~-~~~~~~~~~~i~  128 (196)
T PRK00454         70 DKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRT------------------R-ENLKGVVLL-IDS-RHPLKELDLQMI  128 (196)
T ss_pred             CeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHh------------------C-ccceEEEEE-Eec-CCCCCHHHHHHH
Confidence            6799999999987543221   111111223322                  0 134556665 322 334555665555


Q ss_pred             HhccC-cceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         613 KKLDS-KVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       613 k~l~~-~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      +.+.. ...++.|+.|+|.+...+.+.....+.+.+
T Consensus       129 ~~l~~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l  164 (196)
T PRK00454        129 EWLKEYGIPVLIVLTKADKLKKGERKKQLKKVRKAL  164 (196)
T ss_pred             HHHHHcCCcEEEEEECcccCCHHHHHHHHHHHHHHH
Confidence            55542 356789999999999888766555554443

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=93.41  E-value=0.041  Score=54.85  Aligned_cols=18  Identities=39%  Similarity=0.364  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (211)
T cd03225          33 VGPNGSGKSTLLRLLNGL   50 (211)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.15  E-value=0.045  Score=55.01  Aligned_cols=18  Identities=33%  Similarity=0.492  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        43 ~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         43 QGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             EcCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=93.10  E-value=0.049  Score=54.67  Aligned_cols=18  Identities=28%  Similarity=0.344  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (220)
T cd03263          34 LGHNGAGKTTTLKMLTGE   51 (220)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>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=93.06  E-value=0.23  Score=51.40  Aligned_cols=18  Identities=28%  Similarity=0.268  Sum_probs=16.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|..|+|||||+++|..-
T Consensus         2 iGpaGSGKTT~~~~~~~~   19 (238)
T PF03029_consen    2 IGPAGSGKTTFCKGLSEW   19 (238)
T ss_dssp             EESTTSSHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHH
Confidence            699999999999999863

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=93.05  E-value=0.054  Score=44.65  Aligned_cols=17  Identities=41%  Similarity=0.597  Sum_probs=15.3

Q ss_pred             cCCCCCChhhHhhhhhC
Q psy8479         112 PCETGLGKSTLMDSLFN  128 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~  128 (650)
                      .|.+|+||||++.++.-
T Consensus        29 ~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   29 TGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            99999999999988753

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=93.04  E-value=0.048  Score=54.84  Aligned_cols=18  Identities=33%  Similarity=0.392  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+.
T Consensus        36 ~G~nGsGKSTLl~~l~Gl   53 (220)
T cd03293          36 VGPSGCGKSTLLRIIAGL   53 (220)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=93.04  E-value=0.052  Score=54.12  Aligned_cols=18  Identities=33%  Similarity=0.324  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|++.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (213)
T cd03262          32 IGPSGSGKSTLLRCINLL   49 (213)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=93.01  E-value=0.051  Score=53.88  Aligned_cols=18  Identities=39%  Similarity=0.372  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        30 ~G~nGsGKSTLl~~l~G~   47 (206)
T TIGR03608        30 IGESGSGKSTLLNIIGLL   47 (206)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=93.01  E-value=0.049  Score=53.73  Aligned_cols=17  Identities=35%  Similarity=0.411  Sum_probs=15.9

Q ss_pred             cCCCCCChhhHhhhhhC
Q psy8479         112 PCETGLGKSTLMDSLFN  128 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~  128 (650)
                      +|.||+|||||+|+|+.
T Consensus        27 ~G~nG~GKSTLl~~il~   43 (176)
T cd03238          27 TGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             ECCCCCCHHHHHHHHhh
Confidence            99999999999999963

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=92.93  E-value=0.046  Score=54.61  Aligned_cols=18  Identities=28%  Similarity=0.364  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (213)
T cd03259          32 LGPSGCGKTTLLRLIAGL   49 (213)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=92.88  E-value=0.051  Score=55.24  Aligned_cols=18  Identities=33%  Similarity=0.405  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (235)
T cd03261          32 IGPSGSGKSTLLRLIVGL   49 (235)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=92.88  E-value=0.037  Score=55.67  Aligned_cols=18  Identities=28%  Similarity=0.302  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.|.
T Consensus        32 ~G~nGsGKSTLl~~i~G~   49 (220)
T cd03265          32 LGPNGAGKTTTIKMLTTL   49 (220)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=92.86  E-value=0.054  Score=54.08  Aligned_cols=18  Identities=33%  Similarity=0.623  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        34 ~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        34 TGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PTZ00258 GTP-binding protein; Provisional

Probab=92.86  E-value=0.12  Score=57.42  Aligned_cols=20  Identities=25%  Similarity=0.303  Sum_probs=18.5

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||..|+|||||+|+|.+.+.
T Consensus        27 VG~PNvGKSTLfnaLt~~~~   46 (390)
T PTZ00258         27 VGLPNVGKSTTFNALCKQQV   46 (390)
T ss_pred             ECCCCCChHHHHHHHhcCcc
Confidence            99999999999999988764

>KOG0054|consensus

Probab=92.82  E-value=0.049  Score=68.34  Aligned_cols=24  Identities=38%  Similarity=0.581  Sum_probs=20.9

Q ss_pred             CCceee---------cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK---------PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn---------VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+         |||+|+|||||+++||.-
T Consensus      1157 k~is~~I~p~eKVGIVGRTGaGKSSL~~aLFRl 1189 (1381)
T KOG0054|consen 1157 KGISFTIKPGEKVGIVGRTGAGKSSLILALFRL 1189 (1381)
T ss_pred             cCceEEEcCCceEEEeCCCCCCHHHHHHHHHHh
Confidence            466666         999999999999999984

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=92.81  E-value=0.058  Score=53.88  Aligned_cols=18  Identities=33%  Similarity=0.527  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        31 ~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          31 VGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999985

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=92.81  E-value=0.052  Score=53.98  Aligned_cols=18  Identities=33%  Similarity=0.405  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        32 ~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          32 TGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=92.80  E-value=0.056  Score=55.08  Aligned_cols=18  Identities=33%  Similarity=0.401  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        34 IGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=92.76  E-value=0.057  Score=54.71  Aligned_cols=18  Identities=33%  Similarity=0.414  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        37 ~G~nGsGKSTLl~~l~G~   54 (233)
T cd03258          37 IGRSGAGKSTLIRCINGL   54 (233)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=92.72  E-value=0.055  Score=53.96  Aligned_cols=18  Identities=22%  Similarity=0.353  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          32 LGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=92.72  E-value=0.047  Score=54.51  Aligned_cols=18  Identities=22%  Similarity=0.279  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (213)
T cd03301          32 LGPSGCGKTTTLRMIAGL   49 (213)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=92.69  E-value=0.059  Score=55.83  Aligned_cols=19  Identities=42%  Similarity=0.391  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      ||+||+|||||.++|.+-.
T Consensus        39 vGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          39 VGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             EcCCCCCHHHHHHHHhccc
Confidence            9999999999999999954

>PRK00089 era GTPase Era; Reviewed

Probab=92.62  E-value=0.18  Score=52.99  Aligned_cols=87  Identities=21%  Similarity=0.158  Sum_probs=55.5

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..+.+|||||+.+....   +...+......                .+  ..+|+++|+ +..+. .+...+..+++.+
T Consensus        53 ~qi~~iDTPG~~~~~~~---l~~~~~~~~~~----------------~~--~~~D~il~v-vd~~~-~~~~~~~~i~~~l  109 (292)
T PRK00089         53 AQIIFVDTPGIHKPKRA---LNRAMNKAAWS----------------SL--KDVDLVLFV-VDADE-KIGPGDEFILEKL  109 (292)
T ss_pred             ceEEEEECCCCCCchhH---HHHHHHHHHHH----------------HH--hcCCEEEEE-EeCCC-CCChhHHHHHHHH
Confidence            67999999999774321   10111111111                01  137889999 54443 5667777777777


Q ss_pred             cC-cceEEeeeecCCCC-CHHHHHHHHHHHHh
Q psy8479         616 DS-KVNIIPIIAKADTI-SKSELQKFKVSKTR  645 (650)
Q Consensus       616 ~~-~vnviPvIaKaD~l-t~~e~~~~K~~i~~  645 (650)
                      .. .+.+|-|+.|+|.+ ..+++..+.+.+.+
T Consensus       110 ~~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~  141 (292)
T PRK00089        110 KKVKTPVILVLNKIDLVKDKEELLPLLEELSE  141 (292)
T ss_pred             hhcCCCEEEEEECCcCCCCHHHHHHHHHHHHh
Confidence            64 57899999999999 66777666555544

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=92.61  E-value=0.064  Score=52.70  Aligned_cols=18  Identities=39%  Similarity=0.348  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        24 ~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166        24 LGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=92.59  E-value=0.057  Score=54.47  Aligned_cols=18  Identities=33%  Similarity=0.370  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        19 ~G~NGsGKSTLlk~i~Gl   36 (213)
T PRK15177         19 LAAPGSGKTTLTRLLCGL   36 (213)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>cd01894 EngA1 EngA1 subfamily

Probab=92.53  E-value=0.11  Score=47.93  Aligned_cols=78  Identities=17%  Similarity=0.089  Sum_probs=47.0

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..+++|||||+++...  .+. ..+.+....                .+  .++|+++|. +.+ .++....+..+++.+
T Consensus        45 ~~~~i~DtpG~~~~~~--~~~-~~~~~~~~~----------------~~--~~~d~ii~v-~d~-~~~~~~~~~~~~~~~  101 (157)
T cd01894          45 REFILIDTGGIEPDDE--GIS-KEIREQAEL----------------AI--EEADVILFV-VDG-REGLTPADEEIAKYL  101 (157)
T ss_pred             eEEEEEECCCCCCchh--HHH-HHHHHHHHH----------------HH--HhCCEEEEE-Eec-cccCCccHHHHHHHH
Confidence            6789999999998533  111 111111111                01  125678888 544 344555666555544


Q ss_pred             cC-cceEEeeeecCCCCCHHHH
Q psy8479         616 DS-KVNIIPIIAKADTISKSEL  636 (650)
Q Consensus       616 ~~-~vnviPvIaKaD~lt~~e~  636 (650)
                      .. ...+|.|+.|+|.....+.
T Consensus       102 ~~~~~piiiv~nK~D~~~~~~~  123 (157)
T cd01894         102 RKSKKPVILVVNKVDNIKEEDE  123 (157)
T ss_pred             HhcCCCEEEEEECcccCChHHH
Confidence            32 4789999999999887665

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.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=92.52  E-value=0.063  Score=53.46  Aligned_cols=18  Identities=28%  Similarity=0.381  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~Gl   49 (208)
T cd03268          32 LGPNGAGKTTTMKIILGL   49 (208)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=92.52  E-value=0.071  Score=50.47  Aligned_cols=18  Identities=33%  Similarity=0.427  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+|+|.+.
T Consensus        32 ~G~nGsGKStLl~~l~G~   49 (144)
T cd03221          32 VGRNGAGKSTLLKLIAGE   49 (144)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999986

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=92.50  E-value=0.058  Score=54.45  Aligned_cols=18  Identities=39%  Similarity=0.377  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        32 ~G~nGsGKSTLl~~i~G~   49 (227)
T cd03260          32 IGPSGCGKSTLLRLLNRL   49 (227)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999986

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK07560 elongation factor EF-2; Reviewed

Probab=92.45  E-value=0.88  Score=54.50  Aligned_cols=41  Identities=12%  Similarity=0.263  Sum_probs=31.3

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHh-ccCCCeeeeeecccCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKL-DSKVNIIPIIAKADTI  238 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L-~~~vnvIPVItKAD~L  238 (650)
                      +++|++++... .++...+..+++.+ ....+.|.+|+|.|..
T Consensus       111 ~D~avlVvda~-~g~~~~t~~~~~~~~~~~~~~iv~iNK~D~~  152 (731)
T PRK07560        111 VDGAIVVVDAV-EGVMPQTETVLRQALRERVKPVLFINKVDRL  152 (731)
T ss_pred             cCEEEEEEECC-CCCCccHHHHHHHHHHcCCCeEEEEECchhh
Confidence            47888888764 56777777777763 4567889999999976

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=92.45  E-value=0.056  Score=55.57  Aligned_cols=19  Identities=26%  Similarity=0.476  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|+.|+|||||++||++.-
T Consensus        35 lG~NGaGKTTlLkti~Gl~   53 (237)
T COG0410          35 LGRNGAGKTTLLKTIMGLV   53 (237)
T ss_pred             ECCCCCCHHHHHHHHhCCC
Confidence            9999999999999999963

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=92.45  E-value=0.068  Score=54.08  Aligned_cols=18  Identities=22%  Similarity=0.243  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          32 LGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=92.44  E-value=0.068  Score=53.77  Aligned_cols=18  Identities=39%  Similarity=0.525  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        37 ~G~nGsGKSTLl~~l~G~   54 (228)
T cd03257          37 VGESGSGKSTLARAILGL   54 (228)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>KOG0092|consensus

Probab=92.42  E-value=1  Score=45.26  Aligned_cols=147  Identities=19%  Similarity=0.338  Sum_probs=73.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+||||||||=-.....+.....++++..  +-..++.+.+..+++-      .+.+..+.                 
T Consensus        11 LG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaa--F~tktv~~~~~~ikfeIWDTAGQERy~sla-----------------   71 (200)
T KOG0092|consen   11 LGDSGVGKSSLVLRFVKDQFHENIEPTIGAA--FLTKTVTVDDNTIKFEIWDTAGQERYHSLA-----------------   71 (200)
T ss_pred             ECCCCCCchhhhhhhhhCccccccccccccE--EEEEEEEeCCcEEEEEEEEcCCcccccccc-----------------
Confidence            9999999999998888777766544444431  1122344455444433      11222222                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCC----CeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKV----NIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~v----nvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       ..  -+.+...-++.|=|... ..+..+ ...++.|+.++    .+-.|-+|+|.+...+.  -.+........++.-+
T Consensus        72 -pM--YyRgA~AAivvYDit~~-~SF~~a-K~WvkeL~~~~~~~~vialvGNK~DL~~~R~V--~~~ea~~yAe~~gll~  144 (200)
T KOG0092|consen   72 -PM--YYRGANAAIVVYDITDE-ESFEKA-KNWVKELQRQASPNIVIALVGNKADLLERREV--EFEEAQAYAESQGLLF  144 (200)
T ss_pred             -cc--eecCCcEEEEEEecccH-HHHHHH-HHHHHHHHhhCCCCeEEEEecchhhhhhcccc--cHHHHHHHHHhcCCEE
Confidence             00  12333333455544311 112211 33555666443    34447889998863322  2233344445566666


Q ss_pred             EeCCC-CchhHHHHHHHhhhccCCCC
Q psy8479         262 YEFPT-DDETMSDVNAAMTIFSSIPC  286 (650)
Q Consensus       262 f~f~~-d~~~~~~~~~~~~~~~~~P~  286 (650)
                      |.-.. ......++...+...  +|+
T Consensus       145 ~ETSAKTg~Nv~~if~~Ia~~--lp~  168 (200)
T KOG0092|consen  145 FETSAKTGENVNEIFQAIAEK--LPC  168 (200)
T ss_pred             EEEecccccCHHHHHHHHHHh--ccC
Confidence            64432 223455555555555  663

>cd04165 GTPBP1_like GTPBP1-like

Probab=92.42  E-value=0.2  Score=51.23  Aligned_cols=59  Identities=12%  Similarity=0.029  Sum_probs=43.7

Q ss_pred             CceeeEeeecCCCcccCCcchHHHHHhcc-CcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         588 RLRCASKNSDLPLAECLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~~Di~~mk~l~-~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      ..|+++++ +.. .+++.+.|.+++..+. ....+|.|+.|+|.+...++...+..+.+.|.
T Consensus       109 ~~D~~llV-vda-~~g~~~~d~~~l~~l~~~~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~  168 (224)
T cd04165         109 APDYAMLV-VAA-NAGIIGMTKEHLGLALALNIPVFVVVTKIDLAPANILQETLKDLKRILK  168 (224)
T ss_pred             CCCEEEEE-EEC-CCCCcHHHHHHHHHHHHcCCCEEEEEECccccCHHHHHHHHHHHHHHhc
Confidence            46788888 533 3567888877766554 33568999999999998888887777776654

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

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=92.38  E-value=0.066  Score=55.03  Aligned_cols=18  Identities=33%  Similarity=0.394  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.|.
T Consensus        38 ~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         38 IGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999985

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=92.34  E-value=0.073  Score=54.16  Aligned_cols=18  Identities=33%  Similarity=0.425  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        17 ~G~nGsGKSTLl~~l~Gl   34 (230)
T TIGR01184        17 IGHSGCGKSTLLNLISGL   34 (230)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999986

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=92.33  E-value=0.05  Score=55.42  Aligned_cols=18  Identities=39%  Similarity=0.379  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|++.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        33 LGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar

Probab=92.30  E-value=0.037  Score=66.54  Aligned_cols=11  Identities=18%  Similarity=0.389  Sum_probs=6.2

Q ss_pred             hhHhhhhhCcC
Q psy8479         120 STLMDSLFNTS  130 (650)
Q Consensus       120 STlINtLf~~~  130 (650)
                      ..++|.|++.+
T Consensus       288 ~~v~n~l~~ed  298 (784)
T PF04931_consen  288 RCVDNQLFSED  298 (784)
T ss_pred             HHHHHHhhccc
Confidence            45666666543

The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=92.26  E-value=0.071  Score=54.19  Aligned_cols=18  Identities=39%  Similarity=0.425  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+-
T Consensus        33 ~G~nGsGKSTLl~~l~Gl   50 (241)
T cd03256          33 IGPSGAGKSTLLRCLNGL   50 (241)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=92.25  E-value=0.067  Score=54.18  Aligned_cols=18  Identities=33%  Similarity=0.433  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        39 ~G~nGsGKSTLl~~l~G~   56 (225)
T PRK10247         39 TGPSGCGKSTLLKIVASL   56 (225)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=92.21  E-value=0.08  Score=53.76  Aligned_cols=18  Identities=28%  Similarity=0.285  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        18 ~G~nGsGKSTLl~~l~Gl   35 (230)
T TIGR02770        18 VGESGSGKSLTCLAILGL   35 (230)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999995

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=92.21  E-value=0.068  Score=54.31  Aligned_cols=18  Identities=39%  Similarity=0.370  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        41 ~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         41 VGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999995

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=92.20  E-value=0.077  Score=52.96  Aligned_cols=23  Identities=43%  Similarity=0.612  Sum_probs=19.4

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +| .+- +|.+|+|||||+++|.+-
T Consensus        25 ~g-~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          25 PG-MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             CC-cEEEECCCCCCHHHHHHHHhCC
Confidence            55 333 999999999999999984

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=92.19  E-value=0.06  Score=55.97  Aligned_cols=18  Identities=39%  Similarity=0.372  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        43 ~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         43 IGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999995

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=92.16  E-value=0.062  Score=56.08  Aligned_cols=18  Identities=33%  Similarity=0.346  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        56 ~G~nGsGKSTLl~~L~Gl   73 (269)
T cd03294          56 MGLSGSGKSTLLRCINRL   73 (269)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=92.11  E-value=0.076  Score=51.54  Aligned_cols=18  Identities=28%  Similarity=0.446  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        32 ~G~nGsGKStLl~~l~G~   49 (173)
T cd03230          32 LGPNGAGKTTLIKIILGL   49 (173)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=92.10  E-value=0.079  Score=54.29  Aligned_cols=18  Identities=28%  Similarity=0.311  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.|.
T Consensus        35 ~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         35 IGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=92.07  E-value=0.075  Score=54.21  Aligned_cols=18  Identities=28%  Similarity=0.353  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+.
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (239)
T cd03296          34 LGPSGSGKTTLLRLIAGL   51 (239)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd00880 Era_like Era (E

Probab=92.07  E-value=0.25  Score=44.67  Aligned_cols=81  Identities=7%  Similarity=-0.073  Sum_probs=50.4

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHH-HHH
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLV-CMK  613 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~-~mk  613 (650)
                      ...+++|||||+++.......+...+..++                      ...|+++|+ +.++. .....+.. ++.
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~----------------------~~~d~il~v-~~~~~-~~~~~~~~~~~~   99 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVL----------------------ERADLILFV-VDADL-RADEEEEKLLEL   99 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHH----------------------HhCCEEEEE-EeCCC-CCCHHHHHHHHH
Confidence            578999999999985332221100111111                      125678888 54442 33333333 555


Q ss_pred             hccCcceEEeeeecCCCCCHHHHHHH
Q psy8479         614 KLDSKVNIIPIIAKADTISKSELQKF  639 (650)
Q Consensus       614 ~l~~~vnviPvIaKaD~lt~~e~~~~  639 (650)
                      .......+|-|+.|+|.+...+....
T Consensus       100 ~~~~~~~~ivv~nK~D~~~~~~~~~~  125 (163)
T cd00880         100 LRERGKPVLLVLNKIDLLPEEEEEEL  125 (163)
T ss_pred             HHhcCCeEEEEEEccccCChhhHHHH
Confidence            55678889999999999998877665

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

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=92.07  E-value=0.061  Score=57.42  Aligned_cols=18  Identities=28%  Similarity=0.368  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+||||||+.|++.
T Consensus        39 lGpNGaGKSTLl~~l~Gl   56 (306)
T PRK13537         39 LGPNGAGKTTTLRMLLGL   56 (306)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.06  E-value=0.073  Score=54.60  Aligned_cols=18  Identities=33%  Similarity=0.353  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.|.
T Consensus        35 ~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14247         35 MGPSGSGKSTLLRVFNRL   52 (250)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=92.04  E-value=0.068  Score=54.23  Aligned_cols=18  Identities=39%  Similarity=0.410  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+-
T Consensus        54 ~G~nGsGKSTLl~~l~G~   71 (224)
T cd03220          54 IGRNGAGKSTLLRLLAGI   71 (224)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=91.99  E-value=0.076  Score=54.88  Aligned_cols=18  Identities=33%  Similarity=0.416  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        36 ~G~nGsGKSTLl~~laGl   53 (258)
T PRK14241         36 IGPSGCGKSTVLRTLNRM   53 (258)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999995

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=91.96  E-value=0.088  Score=52.73  Aligned_cols=18  Identities=39%  Similarity=0.396  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        36 ~G~nGsGKSTLl~~i~Gl   53 (218)
T cd03255          36 VGPSGSGKSTLLNILGGL   53 (218)
T ss_pred             EcCCCCCHHHHHHHHhCC
Confidence            999999999999999985

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=91.96  E-value=0.08  Score=54.31  Aligned_cols=18  Identities=39%  Similarity=0.436  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        37 ~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         37 IGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>PRK13768 GTPase; Provisional

Probab=91.95  E-value=0.1  Score=54.36  Aligned_cols=85  Identities=16%  Similarity=0.116  Sum_probs=55.1

Q ss_pred             ccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc-
Q psy8479         537 GRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL-  615 (650)
Q Consensus       537 ~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l-  615 (650)
                      ..-+|||||.-+..-....+ ..+.+++..                    ..-.|++|+ +.. .++.++.|+..+..+ 
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~-~~~~~~l~~--------------------~~~~~ii~l-iD~-~~~~~~~d~~~~~~l~  154 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESG-RKLVERLSG--------------------SSKSVVVFL-IDA-VLAKTPSDFVSLLLLA  154 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHH-HHHHHHHHh--------------------cCCeEEEEE-ech-HHhCCHHHHHHHHHHH
Confidence            56799999975533223334 233333332                    112344554 533 456778887776654 


Q ss_pred             -----cCcceEEeeeecCCCCCHHHHHHHHHHHH
Q psy8479         616 -----DSKVNIIPIIAKADTISKSELQKFKVSKT  644 (650)
Q Consensus       616 -----~~~vnviPvIaKaD~lt~~e~~~~K~~i~  644 (650)
                           ....++|+|+.|+|.++..++..+++.+.
T Consensus       155 ~~~~~~~~~~~i~v~nK~D~~~~~~~~~~~~~l~  188 (253)
T PRK13768        155 LSVQLRLGLPQIPVLNKADLLSEEELERILKWLE  188 (253)
T ss_pred             HHHHHHcCCCEEEEEEhHhhcCchhHHHHHHHHh
Confidence                 46789999999999999999888877665

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=91.94  E-value=0.082  Score=53.41  Aligned_cols=18  Identities=44%  Similarity=0.464  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|++.
T Consensus        42 ~G~nGsGKSTLl~~i~Gl   59 (228)
T PRK10584         42 IGESGSGKSTLLAILAGL   59 (228)
T ss_pred             ECCCCCCHHHHHHHHHcC
Confidence            999999999999999995

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=91.94  E-value=0.079  Score=53.88  Aligned_cols=18  Identities=33%  Similarity=0.325  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.|.
T Consensus        35 ~G~nGsGKSTLl~~i~G~   52 (238)
T cd03249          35 VGSSGCGKSTVVSLLERF   52 (238)
T ss_pred             EeCCCCCHHHHHHHHhcc
Confidence            999999999999999996

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=91.91  E-value=0.083  Score=53.22  Aligned_cols=18  Identities=44%  Similarity=0.706  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        40 ~G~nGsGKSTLl~~i~G~   57 (224)
T TIGR02324        40 SGPSGAGKSTLLKSLYAN   57 (224)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=91.91  E-value=0.09  Score=50.72  Aligned_cols=18  Identities=50%  Similarity=0.501  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~i~G~   49 (163)
T cd03216          32 LGENGAGKSTLMKILSGL   49 (163)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=91.89  E-value=0.25  Score=46.56  Aligned_cols=49  Identities=22%  Similarity=0.210  Sum_probs=30.5

Q ss_pred             ceeeEeeecCCCcccCCcch--HHH---HHhccCcceEEeeeecCCCCCHHHHHH
Q psy8479         589 LRCASKNSDLPLAECLKSLD--LVC---MKKLDSKVNIIPIIAKADTISKSELQK  638 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~D--i~~---mk~l~~~vnviPvIaKaD~lt~~e~~~  638 (650)
                      .+|++|+ +.++.+....++  ..+   ++......++|.|+.|+|.....++..
T Consensus        80 ~d~~l~v-~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~~~~~~  133 (168)
T cd01897          80 RAAVLFL-FDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTFEDLSE  133 (168)
T ss_pred             cCcEEEE-EeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCchhhHHH
Confidence            3678888 556543221211  123   333334689999999999998777654

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.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=91.89  E-value=1.3  Score=50.07  Aligned_cols=64  Identities=16%  Similarity=0.126  Sum_probs=37.7

Q ss_pred             eeeEEEEEEcCCCCCCC------cchHHHHHHhc-cCC-CeeeeeecccCCC----HHHHHHHHHHHHHHHHHCCC
Q psy8479         196 RIHVCLYFICPTGHGLK------SLDLVCMKKLD-SKV-NIIPIIAKADTIS----KSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk------~lDI~~mk~L~-~~v-nvIPVItKAD~Lt----~~El~~~K~~I~~~L~~~~I  259 (650)
                      ..++|+.++..+...+.      ..=.+.+..+. ..+ ++|.+++|.|...    ...+...++.++..|+..+.
T Consensus       108 ~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~g~  183 (447)
T PLN00043        108 QADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGY  183 (447)
T ss_pred             hccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCCcEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHcCC
Confidence            35788888887642221      11122222222 356 5788999999753    44455667777777776653

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=91.88  E-value=0.09  Score=52.73  Aligned_cols=18  Identities=28%  Similarity=0.521  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          32 LGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=91.88  E-value=0.088  Score=53.15  Aligned_cols=18  Identities=39%  Similarity=0.514  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        35 ~G~nGsGKSTLl~~l~G~   52 (229)
T cd03254          35 VGPTGAGKTTLINLLMRF   52 (229)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999986

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=91.86  E-value=0.086  Score=52.08  Aligned_cols=18  Identities=28%  Similarity=0.307  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        31 ~G~nGsGKSTLl~~l~Gl   48 (177)
T cd03222          31 VGPNGTGKTTAVKILAGQ   48 (177)
T ss_pred             ECCCCChHHHHHHHHHcC
Confidence            999999999999999985

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=91.84  E-value=0.087  Score=53.84  Aligned_cols=20  Identities=40%  Similarity=0.428  Sum_probs=17.3

Q ss_pred             eeecCCCCCChhhHhhhhhCc
Q psy8479         109 AYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +| +|.||.|||||+.+|=.-
T Consensus        37 Al-IGPSGcGKST~LR~lNRm   56 (253)
T COG1117          37 AL-IGPSGCGKSTLLRCLNRM   56 (253)
T ss_pred             EE-ECCCCcCHHHHHHHHHhh
Confidence            56 999999999999998653

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=91.84  E-value=0.092  Score=52.68  Aligned_cols=18  Identities=39%  Similarity=0.386  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        36 ~G~nGsGKSTLl~~i~G~   53 (220)
T cd03245          36 IGRVGSGKSTLLKLLAGL   53 (220)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=91.83  E-value=0.085  Score=51.56  Aligned_cols=18  Identities=39%  Similarity=0.468  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        31 ~G~nGsGKStLl~~i~G~   48 (180)
T cd03214          31 LGPNGAGKSTLLKTLAGL   48 (180)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.81  E-value=0.086  Score=54.28  Aligned_cols=18  Identities=33%  Similarity=0.420  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        39 ~G~nGsGKSTLl~~l~Gl   56 (254)
T PRK14273         39 IGPSGCGKSTFLRTLNRM   56 (254)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=91.80  E-value=0.083  Score=53.73  Aligned_cols=18  Identities=33%  Similarity=0.368  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        32 MGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999996

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=91.79  E-value=0.096  Score=51.08  Aligned_cols=18  Identities=33%  Similarity=0.407  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          32 LGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.78  E-value=0.084  Score=54.94  Aligned_cols=18  Identities=33%  Similarity=0.410  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        53 ~G~nGsGKSTLl~~l~Gl   70 (268)
T PRK14248         53 IGPSGCGKSTFLRSINRM   70 (268)
T ss_pred             ECCCCCCHHHHHHHHHhc
Confidence            999999999999999984

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=91.77  E-value=0.095  Score=52.48  Aligned_cols=18  Identities=28%  Similarity=0.479  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        35 ~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        35 VGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=91.76  E-value=0.085  Score=52.23  Aligned_cols=18  Identities=33%  Similarity=0.497  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (198)
T TIGR01189        32 TGPNGIGKTTLLRILAGL   49 (198)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=91.74  E-value=0.094  Score=54.70  Aligned_cols=18  Identities=39%  Similarity=0.374  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        33 ~G~nGsGKSTLl~~l~Gl   50 (271)
T PRK13638         33 VGANGCGKSTLFMNLSGL   50 (271)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999985

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=91.72  E-value=0.063  Score=54.62  Aligned_cols=18  Identities=33%  Similarity=0.503  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        37 ~G~nGsGKSTLl~~l~G~   54 (237)
T PRK11614         37 IGANGAGKTTLLGTLCGD   54 (237)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999985

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=91.70  E-value=0.097  Score=52.20  Aligned_cols=18  Identities=33%  Similarity=0.573  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (214)
T cd03292          33 VGPSGAGKSTLLKLIYKE   50 (214)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.68  E-value=0.076  Score=54.46  Aligned_cols=18  Identities=28%  Similarity=0.366  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|++-
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (246)
T PRK14269         34 IGASGCGKSTFLRCFNRM   51 (246)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999984

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=91.63  E-value=0.086  Score=55.59  Aligned_cols=18  Identities=33%  Similarity=0.291  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+.
T Consensus        43 ~G~nGsGKSTLl~~l~Gl   60 (289)
T PRK13645         43 IGTTGSGKSTMIQLTNGL   60 (289)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=91.62  E-value=0.089  Score=53.70  Aligned_cols=18  Identities=33%  Similarity=0.329  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.|.
T Consensus        34 ~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         34 LGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=91.62  E-value=0.5  Score=51.00  Aligned_cols=52  Identities=19%  Similarity=0.224  Sum_probs=33.1

Q ss_pred             CceeeEEEEEEcCCCCCCCcchHHHHHHhcc---CCCeeeeeecccCCCHHHHHHHHHHH
Q psy8479         194 DNRIHVCLYFICPTGHGLKSLDLVCMKKLDS---KVNIIPIIAKADTISKSELQKFKTNI  250 (650)
Q Consensus       194 D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~---~vnvIPVItKAD~Lt~~El~~~K~~I  250 (650)
                      +-|||-+-.+|..   ..+--|  ++..|..   .+|-|-|++|.|.+..+++..+.+..
T Consensus       210 Ey~I~nA~V~Ir~---dvTlDd--~id~l~~nrvY~p~l~v~NKiD~~~~e~~~~l~~~~  264 (365)
T COG1163         210 EYRIHNADVLIRE---DVTLDD--LIDALEGNRVYKPALYVVNKIDLPGLEELERLARKP  264 (365)
T ss_pred             HhCcccceEEEec---CCcHHH--HHHHHhhcceeeeeEEEEecccccCHHHHHHHHhcc
Confidence            3467766666652   233333  3455542   34888899999999988877666543

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=91.62  E-value=0.089  Score=53.76  Aligned_cols=18  Identities=28%  Similarity=0.289  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          33 IGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.59  E-value=0.076  Score=55.17  Aligned_cols=18  Identities=28%  Similarity=0.357  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        48 ~G~nGsGKSTLl~~l~Gl   65 (265)
T PRK14252         48 IGPSGCGKSTFLRCFNRM   65 (265)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.59  E-value=0.095  Score=54.73  Aligned_cols=18  Identities=39%  Similarity=0.429  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        45 ~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         45 IGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=91.56  E-value=0.074  Score=54.27  Aligned_cols=18  Identities=22%  Similarity=0.237  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        35 ~G~nGsGKSTLl~~l~G~   52 (241)
T PRK10895         35 LGPNGAGKTTTFYMVVGI   52 (241)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=91.55  E-value=0.095  Score=53.74  Aligned_cols=18  Identities=44%  Similarity=0.469  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (247)
T TIGR00972        33 IGPSGCGKSTLLRSLNRM   50 (247)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=91.52  E-value=0.09  Score=57.13  Aligned_cols=19  Identities=32%  Similarity=0.373  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.||+|||||++.+.|-.
T Consensus        35 lGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          35 LGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             ECCCCCCHHHHHHHHhCCC
Confidence            9999999999999999953

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=91.51  E-value=0.094  Score=47.88  Aligned_cols=19  Identities=26%  Similarity=0.419  Sum_probs=16.8

Q ss_pred             ceeecCCCCCChhhHhhhhh
Q psy8479         108 KAYKPCETGLGKSTLMDSLF  127 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf  127 (650)
                      +.+ +|.||+|||||++.|.
T Consensus        18 v~I-~GpSGsGKSTLl~~l~   36 (107)
T cd00820          18 VLI-TGDSGIGKTELALELI   36 (107)
T ss_pred             EEE-EcCCCCCHHHHHHHhh
Confidence            444 9999999999999986

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=91.50  E-value=0.089  Score=55.99  Aligned_cols=19  Identities=32%  Similarity=0.337  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|++|+||||||++|.+.-
T Consensus        37 lG~NGAGKTTllk~l~gl~   55 (293)
T COG1131          37 LGPNGAGKTTLLKILAGLL   55 (293)
T ss_pred             ECCCCCCHHHHHHHHhCCc
Confidence            9999999999999999963

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.49  E-value=0.1  Score=52.02  Aligned_cols=18  Identities=28%  Similarity=0.394  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         33 EGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>PRK01889 GTPase RsgA; Reviewed

Probab=91.49  E-value=0.087  Score=57.62  Aligned_cols=24  Identities=33%  Similarity=0.531  Sum_probs=20.1

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      +.| +|.||+|||||||+|++....
T Consensus       198 ~~l-vG~sgvGKStLin~L~g~~~~  221 (356)
T PRK01889        198 VAL-LGSSGVGKSTLVNALLGEEVQ  221 (356)
T ss_pred             EEE-ECCCCccHHHHHHHHHHhccc
Confidence            344 999999999999999986543

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=91.48  E-value=0.062  Score=55.88  Aligned_cols=18  Identities=39%  Similarity=0.431  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        39 ~G~nGsGKSTLl~~i~G~   56 (265)
T PRK10253         39 IGPNGCGKSTLLRTLSRL   56 (265)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999985

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.47  E-value=0.1  Score=53.70  Aligned_cols=18  Identities=39%  Similarity=0.449  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        36 ~G~nGsGKSTLl~~l~Gl   53 (251)
T PRK14249         36 IGPSGCGKSTLLRALNRM   53 (251)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=91.46  E-value=0.09  Score=54.03  Aligned_cols=18  Identities=28%  Similarity=0.377  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        37 ~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         37 IGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=91.45  E-value=0.1  Score=53.84  Aligned_cols=18  Identities=22%  Similarity=0.211  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        35 ~G~nGsGKSTLl~~l~Gl   52 (254)
T PRK10418         35 VGGSGSGKSLTCAAALGI   52 (254)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999996

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=91.44  E-value=0.095  Score=53.90  Aligned_cols=18  Identities=33%  Similarity=0.440  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (252)
T TIGR03005        32 IGPSGSGKSTILRILMTL   49 (252)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=91.44  E-value=0.11  Score=51.86  Aligned_cols=18  Identities=50%  Similarity=0.588  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        40 ~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          40 VGRTGAGKSTLILALFRF   57 (207)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>COG0218 Predicted GTPase [General function prediction only]

Probab=91.42  E-value=0.26  Score=49.77  Aligned_cols=89  Identities=21%  Similarity=0.126  Sum_probs=65.0

Q ss_pred             cccccCCCCCccccc---ccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         538 RGIVRSPGERKEKNA---EFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       538 ltivdtpGfg~~~~~---~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      +.+||-||||=+-..   ..-|..-|..||+.           +-+        +-.++.+++  ..|.++.+|.+++.-
T Consensus        72 ~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~-----------R~~--------L~~vvlliD--~r~~~~~~D~em~~~  130 (200)
T COG0218          72 LRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEK-----------RAN--------LKGVVLLID--ARHPPKDLDREMIEF  130 (200)
T ss_pred             EEEEeCCCcccccCCHHHHHHHHHHHHHHHhh-----------chh--------heEEEEEEE--CCCCCcHHHHHHHHH
Confidence            889999999988553   34565778888887           212        222333323  478899999999887


Q ss_pred             cc-CcceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         615 LD-SKVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       615 l~-~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      |. ....++-|..|+|-++..|.......|.+.|
T Consensus       131 l~~~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l  164 (200)
T COG0218         131 LLELGIPVIVVLTKADKLKKSERNKQLNKVAEEL  164 (200)
T ss_pred             HHHcCCCeEEEEEccccCChhHHHHHHHHHHHHh
Confidence            76 5678889999999999998877666666543

>PRK14845 translation initiation factor IF-2; Provisional

Probab=91.41  E-value=1.3  Score=54.90  Aligned_cols=42  Identities=17%  Similarity=0.256  Sum_probs=34.0

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt  239 (650)
                      .|++++++..+ .++++...+.++.+.. .+++|.|++|+|...
T Consensus       550 aDivlLVVDa~-~Gi~~qT~e~I~~lk~~~iPiIVViNKiDL~~  592 (1049)
T PRK14845        550 ADLAVLVVDIN-EGFKPQTIEAINILRQYKTPFVVAANKIDLIP  592 (1049)
T ss_pred             CCEEEEEEECc-ccCCHhHHHHHHHHHHcCCCEEEEEECCCCcc
Confidence            57888888765 5788888888888774 579999999999863

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=91.40  E-value=0.11  Score=52.15  Aligned_cols=18  Identities=39%  Similarity=0.370  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|++.
T Consensus        37 ~G~nGsGKSTLl~~i~G~   54 (221)
T TIGR02211        37 VGSSGSGKSTLLHLLGGL   54 (221)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999986

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=91.39  E-value=0.11  Score=51.97  Aligned_cols=18  Identities=28%  Similarity=0.289  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+-
T Consensus        37 ~G~nGsGKSTLl~~l~Gl   54 (218)
T cd03266          37 LGPNGAGKTTTLRMLAGL   54 (218)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999984

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=91.38  E-value=0.094  Score=51.09  Aligned_cols=18  Identities=39%  Similarity=0.453  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        34 ~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          34 LGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=91.36  E-value=0.091  Score=56.67  Aligned_cols=18  Identities=28%  Similarity=0.278  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||+++|.+.
T Consensus        39 vG~sGsGKSTL~~~l~Gl   56 (326)
T PRK11022         39 VGESGSGKSVSSLAIMGL   56 (326)
T ss_pred             ECCCCChHHHHHHHHHcC
Confidence            999999999999999985

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=91.35  E-value=0.1  Score=54.11  Aligned_cols=18  Identities=33%  Similarity=0.420  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        45 ~G~nGsGKSTLl~~l~Gl   62 (260)
T PRK10744         45 IGPSGCGKSTLLRTFNRM   62 (260)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.35  E-value=0.099  Score=53.51  Aligned_cols=18  Identities=33%  Similarity=0.385  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|++.
T Consensus        35 ~G~nGsGKSTLl~~l~Gl   52 (241)
T PRK14250         35 VGPSGAGKSTLIKLINRL   52 (241)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=91.32  E-value=0.1  Score=52.54  Aligned_cols=18  Identities=33%  Similarity=0.407  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.|.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (223)
T TIGR03740        32 LGPNGAGKSTLLKMITGI   49 (223)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=91.31  E-value=0.11  Score=52.50  Aligned_cols=19  Identities=32%  Similarity=0.483  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||++.|.+.-
T Consensus        39 ~G~nGsGKSTLlk~l~G~~   57 (226)
T cd03234          39 LGSSGSGKTTLLDAISGRV   57 (226)
T ss_pred             ECCCCCCHHHHHHHHhCcc
Confidence            9999999999999999863

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.29  E-value=0.1  Score=53.60  Aligned_cols=18  Identities=33%  Similarity=0.394  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.|-
T Consensus        36 ~G~nGsGKSTLl~~l~Gl   53 (251)
T PRK14251         36 IGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             ECCCCCCHHHHHHHHhhc
Confidence            999999999999999995

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=91.29  E-value=0.11  Score=50.27  Aligned_cols=18  Identities=33%  Similarity=0.466  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          33 TGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=91.28  E-value=0.1  Score=53.54  Aligned_cols=18  Identities=33%  Similarity=0.420  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        35 ~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14240         35 IGPSGCGKSTFLRTLNRM   52 (250)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999984

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.27  E-value=0.1  Score=53.73  Aligned_cols=18  Identities=33%  Similarity=0.394  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        38 ~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14261         38 IGPSGCGKSTLLRCFNRM   55 (253)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>KOG0080|consensus

Probab=91.27  E-value=0.26  Score=48.14  Aligned_cols=127  Identities=19%  Similarity=0.275  Sum_probs=68.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|+|||||||||-......+-.....+++  +.+......+.++.++|.      .+.++.+.       -.|.+.    
T Consensus        17 IGeSGVGKSSLllrFv~~~fd~~~~~tIG--vDFkvk~m~vdg~~~KlaiWDTAGqErFRtLT-------pSyyRg----   83 (209)
T KOG0080|consen   17 IGESGVGKSSLLLRFVSNTFDDLHPTTIG--VDFKVKVMQVDGKRLKLAIWDTAGQERFRTLT-------PSYYRG----   83 (209)
T ss_pred             EccCCccHHHHHHHHHhcccCccCCceee--eeEEEEEEEEcCceEEEEEEeccchHhhhccC-------HhHhcc----
Confidence            99999999999999887665543222222  334444556666666655      22333332       122211    


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCC---C--eeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKV---N--IIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~v---n--vIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                               .+=-.|+|=+. .+..+..+|+ +|+.|...+   |  .+.|-+|.|+-+  |+.--++.=++..++|+-=
T Consensus        84 ---------aqGiIlVYDVT-~Rdtf~kLd~-W~~Eld~Ystn~diikmlVgNKiDkes--~R~V~reEG~kfAr~h~~L  150 (209)
T KOG0080|consen   84 ---------AQGIILVYDVT-SRDTFVKLDI-WLKELDLYSTNPDIIKMLVGNKIDKES--ERVVDREEGLKFARKHRCL  150 (209)
T ss_pred             ---------CceeEEEEEcc-chhhHHhHHH-HHHHHHhhcCCccHhHhhhcccccchh--cccccHHHHHHHHHhhCcE
Confidence                     11124677664 3456777876 577776322   3  346678999653  2322333333344445433


Q ss_pred             EEeC
Q psy8479         261 IYEF  264 (650)
Q Consensus       261 if~f  264 (650)
                      +...
T Consensus       151 FiE~  154 (209)
T KOG0080|consen  151 FIEC  154 (209)
T ss_pred             EEEc
Confidence            3333

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=91.27  E-value=0.1  Score=54.57  Aligned_cols=18  Identities=33%  Similarity=0.309  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|++.
T Consensus        41 ~G~nGsGKSTLl~~l~Gl   58 (271)
T PRK13632         41 LGHNGSGKSTISKILTGL   58 (271)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999986

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=91.25  E-value=0.1  Score=54.05  Aligned_cols=18  Identities=39%  Similarity=0.458  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        34 ~G~nGsGKSTLl~~i~G~   51 (258)
T PRK13548         34 LGPNGAGKSTLLRALSGE   51 (258)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=91.25  E-value=0.09  Score=54.30  Aligned_cols=18  Identities=28%  Similarity=0.298  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        37 ~G~nGsGKSTLl~~i~G~   54 (257)
T PRK10619         37 IGSSGSGKSTFLRCINFL   54 (257)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999996

>KOG1489|consensus

Probab=91.24  E-value=1  Score=48.52  Aligned_cols=20  Identities=30%  Similarity=0.245  Sum_probs=18.5

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||-.|.|||||+|+|.+.+-
T Consensus       202 VG~PNAGKSTLL~als~AKp  221 (366)
T KOG1489|consen  202 VGFPNAGKSTLLNALSRAKP  221 (366)
T ss_pred             ecCCCCcHHHHHHHhhccCC
Confidence            99999999999999998763

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=91.24  E-value=0.11  Score=52.78  Aligned_cols=19  Identities=26%  Similarity=0.333  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|++|+|||||++.|++..
T Consensus        32 ~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          32 LGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             ECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999864

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=91.23  E-value=0.12  Score=52.31  Aligned_cols=18  Identities=33%  Similarity=0.599  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (230)
T TIGR03410        32 LGRNGVGKTTLLKTLMGL   49 (230)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=91.23  E-value=0.11  Score=53.48  Aligned_cols=18  Identities=33%  Similarity=0.409  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        28 ~G~nGsGKSTLl~~l~Gl   45 (248)
T PRK03695         28 VGPNGAGKSTLLARMAGL   45 (248)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999985

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=91.21  E-value=0.092  Score=51.78  Aligned_cols=24  Identities=33%  Similarity=0.437  Sum_probs=19.6

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      .|-.+- +|.+|+|||||+++|++.
T Consensus        24 ~g~~i~I~G~tGSGKTTll~aL~~~   48 (186)
T cd01130          24 ARKNILISGGTGSGKTTLLNALLAF   48 (186)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            344333 999999999999999985

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.19  E-value=0.1  Score=53.55  Aligned_cols=18  Identities=33%  Similarity=0.434  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        35 ~G~nGsGKSTLl~~i~Gl   52 (250)
T PRK14262         35 IGPSGCGKTTLLRSINRM   52 (250)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.18  E-value=0.12  Score=51.66  Aligned_cols=19  Identities=26%  Similarity=0.323  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||++.|++..
T Consensus        34 ~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         34 TGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             ECCCCCCHHHHHHHHhCCC
Confidence            9999999999999999953

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=91.18  E-value=0.098  Score=54.66  Aligned_cols=18  Identities=39%  Similarity=0.460  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        39 ~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         39 VGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>KOG0394|consensus

Probab=91.15  E-value=0.37  Score=48.13  Aligned_cols=136  Identities=14%  Similarity=0.221  Sum_probs=73.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhhcccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSLNT  191 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~  191 (650)
                      .|.||||||||+|-+.++++...--.+++-  .+-...+.+++.-+.|.  -|..-=+   ++|       +.+ +.. -
T Consensus        15 LGDsGVGKtSLmn~yv~~kF~~qykaTIga--dFltKev~Vd~~~vtlQ--iWDTAGQ---ERF-------qsL-g~a-F   78 (210)
T KOG0394|consen   15 LGDSGVGKTSLMNQYVNKKFSQQYKATIGA--DFLTKEVQVDDRSVTLQ--IWDTAGQ---ERF-------QSL-GVA-F   78 (210)
T ss_pred             eCCCCccHHHHHHHHHHHHHHHHhccccch--hheeeEEEEcCeEEEEE--EEecccH---HHh-------hhc-ccc-e
Confidence            899999999999999998765432222221  11112234444434443  2321110   111       001 110 1


Q ss_pred             cCCceeeEEEEE-EcCCCCCCCcch---HHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC-CCcEE
Q psy8479         192 YHDNRIHVCLYF-ICPTGHGLKSLD---LVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSN-GVHIY  262 (650)
Q Consensus       192 ~~D~RVH~cLYf-I~ps~h~Lk~lD---I~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~-~I~if  262 (650)
                      +...  +||+.. =.++...+..++   -+|+..-+    ...|+|.+-+|.|.=..+.++--.++.+.-.+.+ +|.+|
T Consensus        79 YRga--DcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyf  156 (210)
T KOG0394|consen   79 YRGA--DCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYF  156 (210)
T ss_pred             ecCC--ceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeE
Confidence            2222  456555 344555666665   56777666    3669999999999865444444444445555554 56666


Q ss_pred             eCC
Q psy8479         263 EFP  265 (650)
Q Consensus       263 ~f~  265 (650)
                      .-.
T Consensus       157 EtS  159 (210)
T KOG0394|consen  157 ETS  159 (210)
T ss_pred             Eec
Confidence            554

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.15  E-value=0.1  Score=53.65  Aligned_cols=18  Identities=28%  Similarity=0.316  Sum_probs=17.0

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+-
T Consensus        35 ~G~nGsGKSTLl~~i~Gl   52 (250)
T PRK14245         35 IGPSGCGKSTFLRLFNRM   52 (250)
T ss_pred             ECCCCCCHHHHHHHHhhh
Confidence            999999999999999874

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=91.12  E-value=0.077  Score=55.72  Aligned_cols=18  Identities=39%  Similarity=0.501  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+.
T Consensus        33 ~G~nGsGKSTLl~~laG~   50 (272)
T PRK13547         33 LGRNGAGKSTLLKALAGD   50 (272)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=91.12  E-value=1.2  Score=50.53  Aligned_cols=47  Identities=13%  Similarity=0.188  Sum_probs=31.3

Q ss_pred             hHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEE
Q psy8479         215 DLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIY  262 (650)
Q Consensus       215 DI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if  262 (650)
                      =++++|.|-....+++.=-=.--||+.|...+-..++ .|.+.|.-|.
T Consensus       148 RVEIlKaLyr~a~iLILDEPTaVLTP~E~~~lf~~l~-~l~~~G~tIi  194 (501)
T COG3845         148 RVEILKALYRGARLLILDEPTAVLTPQEADELFEILR-RLAAEGKTII  194 (501)
T ss_pred             HHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHH-HHHHCCCEEE
Confidence            4667777777766666544455678888888777665 6666665443

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=91.06  E-value=0.11  Score=53.88  Aligned_cols=18  Identities=39%  Similarity=0.431  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        43 ~G~nGsGKSTLl~~l~Gl   60 (265)
T TIGR02769        43 LGRSGCGKSTLARLLLGL   60 (265)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=91.05  E-value=0.13  Score=50.46  Aligned_cols=19  Identities=26%  Similarity=0.450  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||++.|.+..
T Consensus        32 ~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          32 AGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             ECCCCCCHHHHHHHHhCCC
Confidence            9999999999999999963

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.04  E-value=0.073  Score=55.03  Aligned_cols=18  Identities=33%  Similarity=0.368  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        44 ~G~nGsGKSTLl~~l~G~   61 (259)
T PRK14274         44 IGPSGCGKSTFIKTLNLM   61 (259)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999985

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=91.02  E-value=0.084  Score=54.99  Aligned_cols=18  Identities=39%  Similarity=0.385  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        52 ~G~nGsGKSTLl~~l~Gl   69 (267)
T PRK14237         52 IGPSGSGKSTYLRSLNRM   69 (267)
T ss_pred             ECCCCCCHHHHHHHHHhc
Confidence            999999999999999985

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=91.02  E-value=0.11  Score=53.28  Aligned_cols=18  Identities=44%  Similarity=0.541  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        35 ~G~nGsGKSTLl~~l~G~   52 (253)
T TIGR02323        35 VGESGSGKSTLLGCLAGR   52 (253)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=91.02  E-value=0.11  Score=52.85  Aligned_cols=18  Identities=33%  Similarity=0.394  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        33 ~G~nGsGKSTLl~~l~G~   50 (240)
T PRK09493         33 IGPSGSGKSTLLRCINKL   50 (240)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=91.02  E-value=0.11  Score=54.06  Aligned_cols=18  Identities=39%  Similarity=0.425  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        44 ~G~NGsGKSTLlk~l~Gl   61 (257)
T PRK11247         44 VGRSGCGKSTLLRLLAGL   61 (257)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=91.01  E-value=0.11  Score=51.51  Aligned_cols=18  Identities=33%  Similarity=0.527  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|.|||||+++|++.
T Consensus        37 ~G~nG~GKSTLl~~i~G~   54 (204)
T cd03250          37 VGPVGSGKSSLLSALLGE   54 (204)
T ss_pred             ECCCCCCHHHHHHHHhCc
Confidence            999999999999999995

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=90.98  E-value=0.084  Score=56.14  Aligned_cols=18  Identities=33%  Similarity=0.405  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        36 ~G~NGaGKSTLl~~l~Gl   53 (303)
T TIGR01288        36 LGPNGAGKSTIARMLLGM   53 (303)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=90.98  E-value=0.11  Score=56.05  Aligned_cols=18  Identities=28%  Similarity=0.420  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||+++|.+.
T Consensus        39 vG~sGsGKSTLl~~i~Gl   56 (330)
T PRK15093         39 VGESGSGKSLIAKAICGV   56 (330)
T ss_pred             ECCCCCCHHHHHHHHHcc
Confidence            999999999999999985

>KOG1145|consensus

Probab=90.98  E-value=0.7  Score=52.88  Aligned_cols=119  Identities=23%  Similarity=0.280  Sum_probs=80.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|---=|||||+.+|-++.+.+.  .+.|-|+.|-.+++.+. +|-.+.      ...|..+-            .    
T Consensus       159 MGHVDHGKTTLLD~lRks~VAA~--E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMR------------a----  219 (683)
T KOG1145|consen  159 MGHVDHGKTTLLDALRKSSVAAG--EAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMR------------A----  219 (683)
T ss_pred             eecccCChhhHHHHHhhCceehh--hcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHH------------h----
Confidence            89999999999999999887764  45566778877777777 453333      22222222            1    


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       |- +...|--   +|..  ..-.++++.=.+.++.... .|++|..|+|+|+--     +.-.+++++|-.++|.+
T Consensus       220 -RG-A~vtDIv---VLVV--AadDGVmpQT~EaIkhAk~A~VpiVvAinKiDkp~-----a~pekv~~eL~~~gi~~  284 (683)
T KOG1145|consen  220 -RG-ANVTDIV---VLVV--AADDGVMPQTLEAIKHAKSANVPIVVAINKIDKPG-----ANPEKVKRELLSQGIVV  284 (683)
T ss_pred             -cc-CccccEE---EEEE--EccCCccHhHHHHHHHHHhcCCCEEEEEeccCCCC-----CCHHHHHHHHHHcCccH
Confidence             22 1344432   2222  2336899999999999984 889999999999752     23345677777777743

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=90.96  E-value=0.12  Score=51.83  Aligned_cols=18  Identities=44%  Similarity=0.575  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        36 ~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          36 VGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             ECCCCCCHHHHHHHHHcC
Confidence            999999999999999985

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=90.95  E-value=0.12  Score=52.92  Aligned_cols=18  Identities=28%  Similarity=0.281  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        53 ~G~NGsGKSTLl~~i~Gl   70 (236)
T cd03267          53 IGPNGAGKTTTLKILSGL   70 (236)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.94  E-value=0.11  Score=54.73  Aligned_cols=18  Identities=39%  Similarity=0.479  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++-
T Consensus        39 ~G~nGsGKSTLl~~L~Gl   56 (286)
T PRK13646         39 VGQTGSGKSTLIQNINAL   56 (286)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=90.93  E-value=0.12  Score=52.53  Aligned_cols=18  Identities=39%  Similarity=0.528  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.|.
T Consensus        33 ~G~nGsGKSTLl~~i~Gl   50 (236)
T cd03253          33 VGPSGSGKSTILRLLFRF   50 (236)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999995

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=90.93  E-value=0.12  Score=52.44  Aligned_cols=18  Identities=33%  Similarity=0.353  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (234)
T cd03251          34 VGPSGSGKSTLVNLIPRF   51 (234)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999986

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.90  E-value=0.11  Score=54.48  Aligned_cols=18  Identities=33%  Similarity=0.355  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        36 ~G~NGsGKSTLl~~l~Gl   53 (277)
T PRK13652         36 IGPNGAGKSTLFRHFNGI   53 (277)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=90.90  E-value=0.12  Score=51.90  Aligned_cols=19  Identities=26%  Similarity=0.424  Sum_probs=17.9

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||+++|.+..
T Consensus        33 ~G~nGsGKSTLl~~i~G~~   51 (218)
T cd03290          33 VGQVGCGKSSLLLAILGEM   51 (218)
T ss_pred             ECCCCCCHHHHHHHHhccC
Confidence            9999999999999999964

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=90.89  E-value=0.12  Score=59.08  Aligned_cols=18  Identities=39%  Similarity=0.340  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||+|.|++-
T Consensus       367 vG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       367 LGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999974

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.88  E-value=0.081  Score=54.39  Aligned_cols=18  Identities=33%  Similarity=0.407  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        36 ~G~nGsGKSTLl~~l~Gl   53 (252)
T PRK14256         36 IGPSGCGKSTVLRSINRM   53 (252)
T ss_pred             ECCCCCCHHHHHHHHHhc
Confidence            999999999999999985

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=90.87  E-value=0.12  Score=53.96  Aligned_cols=18  Identities=44%  Similarity=0.416  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|++.
T Consensus        45 ~G~NGsGKSTLl~~l~Gl   62 (267)
T PRK15112         45 IGENGSGKSTLAKMLAGM   62 (267)
T ss_pred             EcCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=90.87  E-value=0.12  Score=51.66  Aligned_cols=19  Identities=37%  Similarity=0.429  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||++.|.+..
T Consensus        39 ~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          39 LGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             ECCCCCCHHHHHHHhcccC
Confidence            9999999999999999963

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.83  E-value=0.12  Score=54.25  Aligned_cols=18  Identities=39%  Similarity=0.283  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.|.
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (274)
T PRK13644         34 IGKNGSGKSTLALHLNGL   51 (274)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999995

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=90.81  E-value=0.12  Score=52.43  Aligned_cols=18  Identities=33%  Similarity=0.320  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (237)
T cd03252          34 VGRSGSGKSTLTKLIQRF   51 (237)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999986

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.76  E-value=0.13  Score=52.74  Aligned_cols=18  Identities=22%  Similarity=0.377  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        36 ~G~nGsGKSTLl~~i~G~   53 (252)
T PRK14272         36 IGPSGCGKTTFLRAINRM   53 (252)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999995

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.75  E-value=0.12  Score=53.37  Aligned_cols=18  Identities=33%  Similarity=0.429  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        39 ~G~nGsGKSTLlk~l~Gl   56 (259)
T PRK14260         39 IGPSGCGKSTFIKTLNRI   56 (259)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999985

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=90.73  E-value=0.14  Score=51.94  Aligned_cols=18  Identities=28%  Similarity=0.344  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          32 IGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999985

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=90.72  E-value=0.12  Score=51.74  Aligned_cols=18  Identities=28%  Similarity=0.377  Sum_probs=16.7

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+.
T Consensus        28 ~G~nGsGKStll~al~~l   45 (197)
T cd03278          28 VGPNGSGKSNIIDAIRWV   45 (197)
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999999854

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=90.72  E-value=0.19  Score=51.39  Aligned_cols=18  Identities=39%  Similarity=0.455  Sum_probs=17.7

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|..++|||||+|.|++.
T Consensus        13 ~G~~~sGKS~llN~l~~~   30 (224)
T cd01851          13 FGPQSSGKSFLLNHLFGT   30 (224)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999998

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

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=90.69  E-value=0.14  Score=53.10  Aligned_cols=18  Identities=28%  Similarity=0.394  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        33 ~G~nGsGKSTLl~~l~Gl   50 (255)
T PRK11248         33 LGPSGCGKTTLLNLIAGF   50 (255)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=90.68  E-value=0.16  Score=50.40  Aligned_cols=36  Identities=25%  Similarity=0.367  Sum_probs=25.4

Q ss_pred             ccCCCCCCcccccccccCCCCceee-cCCCCCChhhHhhhhhCc
Q psy8479          87 WVNTRTPPPNFLEKSWNFIPGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus        87 ~vG~~~lp~Q~~rk~~~~k~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      .+|..++.=+++       +|--+- ||+||+|||||++.|-++
T Consensus        19 ~~gc~~vsF~l~-------PGeVLgiVGESGSGKtTLL~~is~r   55 (258)
T COG4107          19 GKGCRDVSFDLY-------PGEVLGIVGESGSGKTTLLKCISGR   55 (258)
T ss_pred             CcCccccceeec-------CCcEEEEEecCCCcHHhHHHHHhcc
Confidence            445555554443       343344 999999999999999886

>cd01899 Ygr210 Ygr210 subfamily

Probab=90.68  E-value=0.27  Score=53.09  Aligned_cols=20  Identities=20%  Similarity=0.217  Sum_probs=18.6

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||.+|+|||||+|+|++...
T Consensus         4 vG~pnvGKStLfn~lt~~~~   23 (318)
T cd01899           4 VGKPNAGKSTFFNAATLADV   23 (318)
T ss_pred             ECCCCCCHHHHHHHHhCCCC
Confidence            89999999999999999764

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.

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.66  E-value=0.13  Score=53.30  Aligned_cols=19  Identities=32%  Similarity=0.384  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||++.|.+..
T Consensus        44 ~G~nGsGKSTLl~~i~Gl~   62 (258)
T PRK14268         44 IGPSGCGKSTFIRCLNRMN   62 (258)
T ss_pred             ECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999853

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=90.65  E-value=0.13  Score=52.77  Aligned_cols=18  Identities=33%  Similarity=0.322  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        39 ~G~nGsGKSTLl~~i~Gl   56 (252)
T CHL00131         39 MGPNGSGKSTLSKVIAGH   56 (252)
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999985

>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=90.63  E-value=0.26  Score=48.24  Aligned_cols=82  Identities=16%  Similarity=0.167  Sum_probs=53.2

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      ....-.+|++||||..+      +. ..+..-+.                      -.+++++. +.+. .|+.+...+.
T Consensus        66 ~~~~~~i~~iDtPG~~~------f~-~~~~~~~~----------------------~~D~ailv-Vda~-~g~~~~~~~~  114 (188)
T PF00009_consen   66 NENNRKITLIDTPGHED------FI-KEMIRGLR----------------------QADIAILV-VDAN-DGIQPQTEEH  114 (188)
T ss_dssp             TESSEEEEEEEESSSHH------HH-HHHHHHHT----------------------TSSEEEEE-EETT-TBSTHHHHHH
T ss_pred             cccccceeecccccccc------ee-ecccceec----------------------ccccceee-eecc-cccccccccc
Confidence            34557899999999854      22 22222121                      14678888 5553 3577777777


Q ss_pred             HHhcc-CcceEEeeeecCCCCCHHHHHHHHHHHHh
Q psy8479         612 MKKLD-SKVNIIPIIAKADTISKSELQKFKVSKTR  645 (650)
Q Consensus       612 mk~l~-~~vnviPvIaKaD~lt~~e~~~~K~~i~~  645 (650)
                      ++.+. ..+.+|-||.|.|.+ ..++...++.+.+
T Consensus       115 l~~~~~~~~p~ivvlNK~D~~-~~~~~~~~~~~~~  148 (188)
T PF00009_consen  115 LKILRELGIPIIVVLNKMDLI-EKELEEIIEEIKE  148 (188)
T ss_dssp             HHHHHHTT-SEEEEEETCTSS-HHHHHHHHHHHHH
T ss_pred             cccccccccceEEeeeeccch-hhhHHHHHHHHHH
Confidence            76663 445699999999999 6666666665553

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 ....

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=90.63  E-value=0.13  Score=50.83  Aligned_cols=18  Identities=44%  Similarity=0.599  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        39 ~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          39 MGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.63  E-value=0.12  Score=55.84  Aligned_cols=19  Identities=32%  Similarity=0.398  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|++|+|||||+++|++..
T Consensus       114 vG~~GsGKSTLl~~L~g~~  132 (329)
T PRK14257        114 IGPSGCGKSTFLRNLNQLN  132 (329)
T ss_pred             ECCCCCCHHHHHHHHhccc
Confidence            9999999999999999864

>TIGR00235 udk uridine kinase

Probab=90.62  E-value=0.12  Score=51.69  Aligned_cols=24  Identities=21%  Similarity=0.368  Sum_probs=20.0

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+- +|.||+|||||.+.|.+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHH
Confidence            455444 999999999999999874

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK10908 cell division protein FtsE; Provisional

Probab=90.61  E-value=0.15  Score=51.41  Aligned_cols=18  Identities=33%  Similarity=0.499  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+.
T Consensus        34 ~G~nGsGKSTLl~~l~G~   51 (222)
T PRK10908         34 TGHSGAGKSTLLKLICGI   51 (222)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=90.60  E-value=0.13  Score=53.24  Aligned_cols=18  Identities=39%  Similarity=0.414  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        36 ~G~nGsGKSTLl~~i~G~   53 (262)
T PRK09984         36 LGPSGSGKSTLLRHLSGL   53 (262)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=90.58  E-value=0.14  Score=49.51  Aligned_cols=18  Identities=39%  Similarity=0.490  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        34 ~G~nGsGKstLl~~i~G~   51 (171)
T cd03228          34 VGPSGSGKSTLLKLLLRL   51 (171)
T ss_pred             ECCCCCCHHHHHHHHHcC
Confidence            999999999999999995

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.58  E-value=0.13  Score=52.77  Aligned_cols=18  Identities=39%  Similarity=0.431  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        35 ~G~nGsGKSTLl~~l~Gl   52 (249)
T PRK14253         35 IGPSGCGKSTLLRCLNRM   52 (249)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999985

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.56  E-value=0.13  Score=53.99  Aligned_cols=18  Identities=33%  Similarity=0.394  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        52 iG~nGsGKSTLl~~l~Gl   69 (274)
T PRK14265         52 IGPSGCGKSTLLRCFNRM   69 (274)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.54  E-value=0.13  Score=52.94  Aligned_cols=18  Identities=28%  Similarity=0.357  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|++.
T Consensus        37 ~G~nGsGKSTLl~~i~G~   54 (251)
T PRK14244         37 IGPSGCGKSTFLRCFNRM   54 (251)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999985

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.53  E-value=0.15  Score=52.46  Aligned_cols=18  Identities=33%  Similarity=0.410  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        36 ~G~nGsGKSTLl~~l~G~   53 (253)
T PRK14267         36 MGPSGCGKSTLLRTFNRL   53 (253)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999995

>KOG0410|consensus

Probab=90.52  E-value=0.22  Score=53.69  Aligned_cols=23  Identities=30%  Similarity=0.325  Sum_probs=20.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      ||-+|.|||||||.|.+..++..
T Consensus       184 VGYTNaGKsTLikaLT~Aal~p~  206 (410)
T KOG0410|consen  184 VGYTNAGKSTLIKALTKAALYPN  206 (410)
T ss_pred             EeecCccHHHHHHHHHhhhcCcc
Confidence            99999999999999998776653

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.52  E-value=0.13  Score=54.28  Aligned_cols=18  Identities=44%  Similarity=0.453  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|++.
T Consensus        39 iG~NGaGKSTLl~~l~Gl   56 (287)
T PRK13641         39 VGHTGSGKSTLMQHFNAL   56 (287)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=90.52  E-value=0.13  Score=53.71  Aligned_cols=18  Identities=28%  Similarity=0.412  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        39 ~G~nGsGKSTLl~~l~Gl   56 (269)
T PRK11831         39 MGPSGIGKTTLLRLIGGQ   56 (269)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999986

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.51  E-value=0.13  Score=52.79  Aligned_cols=18  Identities=33%  Similarity=0.394  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.|.
T Consensus        36 ~G~nGsGKSTLl~~l~G~   53 (251)
T PRK14270         36 IGPSGCGKSTFLRCLNRM   53 (251)
T ss_pred             ECCCCCCHHHHHHHHHhc
Confidence            999999999999999985

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.50  E-value=0.12  Score=54.25  Aligned_cols=18  Identities=39%  Similarity=0.331  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|.|||||++.|++.
T Consensus        39 ~G~nGaGKSTLl~~i~G~   56 (279)
T PRK13635         39 VGHNGSGKSTLAKLLNGL   56 (279)
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999986

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=90.49  E-value=0.15  Score=50.74  Aligned_cols=18  Identities=33%  Similarity=0.407  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 ~G~nGsGKSTLl~~l~G~   49 (201)
T cd03231          32 TGPNGSGKTTLLRILAGL   49 (201)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.48  E-value=0.14  Score=52.65  Aligned_cols=18  Identities=33%  Similarity=0.383  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        37 ~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14255         37 IGPSGCGKSTYLRTLNRM   54 (252)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=90.48  E-value=0.15  Score=58.57  Aligned_cols=18  Identities=39%  Similarity=0.532  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||.||.|||||+|.|.|-
T Consensus       353 vG~SGaGKSTLl~lL~G~  370 (559)
T COG4988         353 VGASGAGKSTLLNLLLGF  370 (559)
T ss_pred             ECCCCCCHHHHHHHHhCc
Confidence            999999999999999985

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=90.48  E-value=0.14  Score=51.24  Aligned_cols=18  Identities=33%  Similarity=0.410  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        30 ~G~nGsGKSTLl~~l~G~   47 (213)
T TIGR01277        30 MGPSGAGKSTLLNLIAGF   47 (213)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=90.48  E-value=0.14  Score=52.82  Aligned_cols=18  Identities=39%  Similarity=0.564  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        38 ~G~nGsGKSTLl~~l~Gl   55 (258)
T PRK11701         38 VGESGSGKTTLLNALSAR   55 (258)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.47  E-value=0.13  Score=55.47  Aligned_cols=18  Identities=33%  Similarity=0.375  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+-
T Consensus        58 ~G~nGsGKSTLl~~L~Gl   75 (320)
T PRK13631         58 IGNSGSGKSTLVTHFNGL   75 (320)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=90.46  E-value=0.14  Score=51.58  Aligned_cols=18  Identities=28%  Similarity=0.350  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|.|||||++.|.+.
T Consensus        37 ~G~nGsGKStLl~~l~G~   54 (220)
T TIGR02982        37 TGPSGSGKTTLLTLIGGL   54 (220)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=90.46  E-value=0.15  Score=50.52  Aligned_cols=18  Identities=28%  Similarity=0.410  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        33 ~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         33 KGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.42  E-value=0.12  Score=54.48  Aligned_cols=18  Identities=44%  Similarity=0.455  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|.|||||++.|++.
T Consensus        39 ~G~nGaGKSTLl~~l~Gl   56 (287)
T PRK13637         39 IGHTGSGKSTLIQHLNGL   56 (287)
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999985

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=90.35  E-value=0.14  Score=53.35  Aligned_cols=18  Identities=28%  Similarity=0.359  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+-
T Consensus        42 ~G~nGsGKSTLl~~l~Gl   59 (264)
T PRK14243         42 IGPSGCGKSTILRCFNRL   59 (264)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999984

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=90.35  E-value=0.14  Score=52.24  Aligned_cols=18  Identities=33%  Similarity=0.372  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||+++|.+.
T Consensus        32 ~G~nGsGKSTLl~~i~G~   49 (237)
T TIGR00968        32 LGPSGSGKSTLLRIIAGL   49 (237)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]

Probab=90.33  E-value=0.14  Score=58.93  Aligned_cols=18  Identities=39%  Similarity=0.484  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+||||++|.|++-
T Consensus       361 VG~sGsGKSTl~~LL~r~  378 (567)
T COG1132         361 VGPSGSGKSTLIKLLLRL  378 (567)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999984

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=90.32  E-value=0.16  Score=51.78  Aligned_cols=18  Identities=33%  Similarity=0.492  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        34 ~G~nGsGKSTLl~~l~G~   51 (242)
T TIGR03411        34 IGPNGAGKTTMMDVITGK   51 (242)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999996

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.30  E-value=0.14  Score=53.67  Aligned_cols=18  Identities=33%  Similarity=0.418  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus        53 ~G~nGsGKSTLl~~l~Gl   70 (276)
T PRK14271         53 MGPTGSGKTTFLRTLNRM   70 (276)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999984

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=90.29  E-value=0.14  Score=53.92  Aligned_cols=19  Identities=37%  Similarity=0.473  Sum_probs=17.9

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|++|.|||||+++|++-.
T Consensus        36 vG~nGsGKSTLl~~L~gl~   54 (275)
T cd03289          36 LGRTGSGKSTLLSAFLRLL   54 (275)
T ss_pred             ECCCCCCHHHHHHHHhhhc
Confidence            9999999999999999964

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=90.26  E-value=0.14  Score=50.32  Aligned_cols=18  Identities=28%  Similarity=0.405  Sum_probs=16.9

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+.
T Consensus         8 ~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          8 MGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999775

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.24  E-value=0.16  Score=53.23  Aligned_cols=18  Identities=44%  Similarity=0.431  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        39 ~G~nGsGKSTLl~~i~Gl   56 (280)
T PRK13649         39 IGHTGSGKSTIMQLLNGL   56 (280)
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=90.22  E-value=0.13  Score=55.62  Aligned_cols=18  Identities=33%  Similarity=0.318  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||+++|.+-
T Consensus        48 vG~sGsGKSTL~~~l~Gl   65 (330)
T PRK09473         48 VGESGSGKSQTAFALMGL   65 (330)
T ss_pred             ECCCCchHHHHHHHHHcC
Confidence            999999999999999985

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.21  E-value=0.14  Score=54.05  Aligned_cols=19  Identities=26%  Similarity=0.368  Sum_probs=17.7

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|++|+|||||++.|.+.-
T Consensus        71 ~G~nGsGKSTLl~~l~Gl~   89 (285)
T PRK14254         71 IGPSGCGKSTFLRCINRMN   89 (285)
T ss_pred             ECCCCCCHHHHHHHHhccC
Confidence            9999999999999999863

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=90.19  E-value=0.14  Score=53.60  Aligned_cols=18  Identities=33%  Similarity=0.392  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.|.
T Consensus        56 ~G~nGsGKSTLl~~i~Gl   73 (271)
T PRK14238         56 IGPSGCGKSTYIKTLNRM   73 (271)
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999995

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=90.13  E-value=0.16  Score=50.73  Aligned_cols=25  Identities=32%  Similarity=0.497  Sum_probs=21.4

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcC
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.-|. .|.||+||||+++.|+...
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhc
Confidence            355555 9999999999999999986

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	650
2qag_B	427	Crystal Structure Of Human Septin Trimer 267 Length		1e-66
2qag_B	427	Crystal Structure Of Human Septin Trimer 267 Length		1e-15
2qag_B	427	Crystal Structure Of Human Septin Trimer 267 Length		1e-12
2qag_C	418	Crystal Structure Of Human Septin Trimer 267 Length		5e-32
2qag_C	418	Crystal Structure Of Human Septin Trimer 267 Length		7e-07
2qag_C	418	Crystal Structure Of Human Septin Trimer 267 Length		3e-06
3t5d_A	274	Crystal Structure Of Septin 7 In Complex With Gdp L		1e-31
3t5d_A	274	Crystal Structure Of Septin 7 In Complex With Gdp L		4e-07
3t5d_A	274	Crystal Structure Of Septin 7 In Complex With Gdp L		3e-06
3tw4_A	271	Crystal Structure Of Human Septin 7 Gtpase Domain L		1e-31
3tw4_A	271	Crystal Structure Of Human Septin 7 Gtpase Domain L		4e-07
3tw4_A	271	Crystal Structure Of Human Septin 7 Gtpase Domain L		3e-06
2qag_A	361	Crystal Structure Of Human Septin Trimer 267 Length		5e-30
2qag_A	361	Crystal Structure Of Human Septin Trimer 267 Length		6e-05
3ftq_A	274	Crystal Structure Of Septin 2 In Complex With Gppnh		7e-30
3ftq_A	274	Crystal Structure Of Septin 2 In Complex With Gppnh		8e-05
2qnr_A	301	Human Septin 2 In Complex With Gdp Length = 301		1e-29
2qnr_A	301	Human Septin 2 In Complex With Gdp Length = 301		4e-04
2qa5_A	315	Crystal Structure Of Sept2 G-Domain Length = 315		4e-29
2qa5_A	315	Crystal Structure Of Sept2 G-Domain Length = 315		4e-04
3sop_A	270	Crystal Structure Of Human Septin 3 Gtpase Domain L		1e-26
3sop_A	270	Crystal Structure Of Human Septin 3 Gtpase Domain L		2e-07
3sop_A	270	Crystal Structure Of Human Septin 3 Gtpase Domain L		8e-06

>pdb|2QAG|B Chain B, Crystal Structure Of Human Septin Trimer 267 Length = 427

Iteration: 1
 Score =  251 bits (640), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 121/180 (67%), Positives = 144/180 (80%), Gaps = 15/180 (8%)
Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------------- 160
           ETGLGKSTLMD+LFNT FE  P+ H+ P V+L+++TY+LQE+NV+LK             
Sbjct: 50  ETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQI 109
Query: 161 --EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC 218
             EDS+K IV++ID QFEAYLQEELKI+R L+TYHD+RIHVCLYFI PTGH LKSLDLV 
Sbjct: 110 NKEDSYKPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDLVT 169
Query: 219 MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAM 278
           MKKLDSKVNIIPIIAKAD ISKSEL KFK  I +EL SNGV IY+FPTDDE+++++N  M
Sbjct: 170 MKKLDSKVNIIPIIAKADAISKSELTKFKIKITSELVSNGVQIYQFPTDDESVAEINGTM 229

>pdb|2QAG|B Chain B, Crystal Structure Of Human Septin Trimer 267 Length = 427

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 34/44 (77%), Positives = 40/44 (90%)
Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEE 443
           ++ENE HCDFVKLREMLIR NMED+RE+TH RHYELYR+ +LEE
Sbjct: 262 QVENEAHCDFVKLREMLIRVNMEDLREQTHTRHYELYRRCKLEE 305

>pdb|2QAG|B Chain B, Crystal Structure Of Human Septin Trimer 267 Length = 427

Iteration: 1
 Score = 71.6 bits (174), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 38/51 (74%), Positives = 39/51 (76%)
Query: 599 PLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLPS 649
           P    LKSLDLV MKKLDSKVNIIPIIAKAD ISKSEL KFK+  T  L S
Sbjct: 157 PTGHSLKSLDLVTMKKLDSKVNIIPIIAKADAISKSELTKFKIKITSELVS 207

>pdb|2QAG|C Chain C, Crystal Structure Of Human Septin Trimer 267 Length = 418

Iteration: 1
 Score =  135 bits (341), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 78/179 (43%), Positives = 109/179 (60%), Gaps = 28/179 (15%)
Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKE------------ 161
           E+GLGKSTL++SLF T   S   P   PS ++K  T +++++ V +KE            
Sbjct: 39  ESGLGKSTLINSLFLTDLYSPEYPG--PSHRIKK-TVQVEQSKVLIKEGGVQLLLTIVDT 95
Query: 162 ----------DSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGL 211
                     + ++ ++DYID++FE YL  E ++ R      DNR+  CLYFI P+GHGL
Sbjct: 96  PGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRR--QMPDNRVQCCLYFIAPSGHGL 153
Query: 212 KSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP-TDDE 269
           K LD+  MK+L  KVNIIP+IAKADT++  E Q+FK  IM E+  + + IYEFP TDDE
Sbjct: 154 KPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDE 212

>pdb|2QAG|C Chain C, Crystal Structure Of Human Septin Trimer 267 Length = 418

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRL 441
           E+EN  HCDF  LR MLIRT+M+D+++ T+  HYE YR ++L
Sbjct: 254 EVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKL 295

>pdb|2QAG|C Chain C, Crystal Structure Of Human Septin Trimer 267 Length = 418

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 27/58 (46%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 583 RIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           ++P  R++C       P    LK LD+  MK+L  KVNIIP+IAKADT++  E Q+FK
Sbjct: 133 QMPDNRVQCCL-YFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFK 189

>pdb|3T5D|A Chain A, Crystal Structure Of Septin 7 In Complex With Gdp Length = 274

Iteration: 1
 Score =  134 bits (338), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 78/179 (43%), Positives = 109/179 (60%), Gaps = 28/179 (15%)
Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKE------------ 161
           E+GLGKSTL++SLF T   S   P   PS ++K  T +++++ V +KE            
Sbjct: 16  ESGLGKSTLINSLFLTDLYSPEYPG--PSHRIKK-TVQVEQSKVLIKEGGVQLLLTIVDT 72
Query: 162 ----------DSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGL 211
                     + ++ ++DYID++FE YL  E ++ R      DNR+  CLYFI P+GHGL
Sbjct: 73  PGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNR--RQMPDNRVQCCLYFIAPSGHGL 130
Query: 212 KSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP-TDDE 269
           K LD+  MK+L  KVNIIP+IAKADT++  E Q+FK  IM E+  + + IYEFP TDDE
Sbjct: 131 KPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDE 189

>pdb|3T5D|A Chain A, Crystal Structure Of Septin 7 In Complex With Gdp Length = 274

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRL 441
           E+EN  HCDF  LR MLIRT+M+D+++ T+  HYE YR ++L
Sbjct: 231 EVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKL 272

>pdb|3T5D|A Chain A, Crystal Structure Of Septin 7 In Complex With Gdp Length = 274

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 27/58 (46%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 583 RIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           ++P  R++C       P    LK LD+  MK+L  KVNIIP+IAKADT++  E Q+FK
Sbjct: 110 QMPDNRVQCCLYFI-APSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFK 166

>pdb|3TW4|A Chain A, Crystal Structure Of Human Septin 7 Gtpase Domain Length = 271

Iteration: 1
 Score =  134 bits (337), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 78/179 (43%), Positives = 109/179 (60%), Gaps = 28/179 (15%)
Query: 114 ETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLKE------------ 161
           E+GLGKSTL++SLF T   S   P   PS ++K  T +++++ V +KE            
Sbjct: 11  ESGLGKSTLINSLFLTDLYSPEYPG--PSHRIKK-TVQVEQSKVLIKEGGVQLLLTIVDT 67
Query: 162 ----------DSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGL 211
                     + ++ ++DYID++FE YL  E ++ R      DNR+  CLYFI P+GHGL
Sbjct: 68  PGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNR--RQMPDNRVQCCLYFIAPSGHGL 125
Query: 212 KSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP-TDDE 269
           K LD+  MK+L  KVNIIP+IAKADT++  E Q+FK  IM E+  + + IYEFP TDDE
Sbjct: 126 KPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDE 184

>pdb|3TW4|A Chain A, Crystal Structure Of Human Septin 7 Gtpase Domain Length = 271

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRL 441
           E+EN  HCDF  LR MLIRT+M+D+++ T+  HYE YR ++L
Sbjct: 226 EVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKL 267

>pdb|3TW4|A Chain A, Crystal Structure Of Human Septin 7 Gtpase Domain Length = 271

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 27/58 (46%), Positives = 37/58 (63%), Gaps = 1/58 (1%)
Query: 583 RIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           ++P  R++C       P    LK LD+  MK+L  KVNIIP+IAKADT++  E Q+FK
Sbjct: 105 QMPDNRVQCCLYFI-APSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFK 161

>pdb|2QAG|A Chain A, Crystal Structure Of Human Septin Trimer 267 Length = 361

Iteration: 1
 Score =  129 bits (324), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 76/182 (41%), Positives = 106/182 (58%), Gaps = 27/182 (14%)
Query: 114 ETGLGKSTLMDSLFNTS-FESTPSPHSLP----SVKLKAHTYELQENNVKLK-------- 160
           E+GLGKSTL++SLF T  +     P +      +V+++A T E++E  VKL+        
Sbjct: 45  ESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPG 104
Query: 161 -------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYH--DNRIHVCLYFICPTGHGL 211
                   D FK+I+ YID QFE YL +E      LN  H  DNR+H C YFI P GHGL
Sbjct: 105 YGDAINCRDCFKTIISYIDEQFERYLHDE----SGLNRRHIIDNRVHCCFYFISPFGHGL 160
Query: 212 KSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETM 271
           K LD+  MK + +KVNI+P+IAKADT++  E ++ K  I+ E+  + + IY  P D E+ 
Sbjct: 161 KPLDVAFMKAIHNKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLP-DAESD 219
Query: 272 SD 273
            D
Sbjct: 220 ED 221

>pdb|2QAG|A Chain A, Crystal Structure Of Human Septin Trimer 267 Length = 361

Iteration: 1
 Score = 46.2 bits (108), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 20/42 (47%), Positives = 29/42 (69%)
Query: 599 PLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           P    LK LD+  MK + +KVNI+P+IAKADT++  E ++ K
Sbjct: 155 PFGHGLKPLDVAFMKAIHNKVNIVPVIAKADTLTLKERERLK 196

>pdb|3FTQ|A Chain A, Crystal Structure Of Septin 2 In Complex With Gppnhp And Mg2+ Length = 274

Iteration: 1
 Score =  129 bits (323), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 73/174 (41%), Positives = 102/174 (58%), Gaps = 26/174 (14%)
Query: 114 ETGLGKSTLMDSLFNTS-FESTPSPHSLP----SVKLKAHTYELQENNVKLK-------- 160
           E+GLGKSTL++SLF T  +     P +      +V+++A T E++E  VKL+        
Sbjct: 13  ESGLGKSTLINSLFLTDLYPERIIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPG 72
Query: 161 -------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYH--DNRIHVCLYFICPTGHGL 211
                   D FK+I+ YID QFE YL +E      LN  H  DNR+H C YFI P GHGL
Sbjct: 73  YGDAINCRDCFKTIISYIDEQFERYLHDE----SGLNRRHIIDNRVHCCFYFISPFGHGL 128
Query: 212 KSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP 265
           K LD+  MK + +KVNI+P+IAKADT++  E ++ K  I+ E+  + + IY  P
Sbjct: 129 KPLDVAFMKAIHNKVNIVPVIAKADTLTLKERERLKKRILDEIEEHSIKIYHLP 182

>pdb|3FTQ|A Chain A, Crystal Structure Of Septin 2 In Complex With Gppnhp And Mg2+ Length = 274

Iteration: 1
 Score = 45.8 bits (107), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/42 (47%), Positives = 29/42 (69%)
Query: 599 PLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           P    LK LD+  MK + +KVNI+P+IAKADT++  E ++ K
Sbjct: 123 PFGHGLKPLDVAFMKAIHNKVNIVPVIAKADTLTLKERERLK 164

>pdb|2QNR|A Chain A, Human Septin 2 In Complex With Gdp Length = 301

Iteration: 1
 Score =  127 bits (320), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 75/182 (41%), Positives = 104/182 (57%), Gaps = 27/182 (14%)
Query: 114 ETGLGKSTLMDSLFNTSFE-----STPSPHSLPSVKLKAHTYELQENNVKLK-------- 160
           E+GLGKSTL++SLF T        S  +     +V+++A T E++E  VKL+        
Sbjct: 26  ESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPG 85
Query: 161 -------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYH--DNRIHVCLYFICPTGHGL 211
                   D FK+I+ YID QFE YL +E      LN  H  DNR+H C YFI P GHGL
Sbjct: 86  YGDAINCRDCFKTIISYIDEQFERYLHDE----SGLNRRHIIDNRVHCCFYFISPFGHGL 141
Query: 212 KSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETM 271
           K LD+   K + +KVNI+P+IAKADT++  E ++ K  I+ E+  + + IY  P D E+ 
Sbjct: 142 KPLDVAFXKAIHNKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLP-DAESD 200
Query: 272 SD 273
            D
Sbjct: 201 ED 202

>pdb|2QNR|A Chain A, Human Septin 2 In Complex With Gdp Length = 301

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 28/42 (66%)
Query: 599 PLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           P    LK LD+   K + +KVNI+P+IAKADT++  E ++ K
Sbjct: 136 PFGHGLKPLDVAFXKAIHNKVNIVPVIAKADTLTLKERERLK 177

>pdb|2QA5|A Chain A, Crystal Structure Of Sept2 G-Domain Length = 315

Iteration: 1
 Score =  126 bits (317), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 75/182 (41%), Positives = 105/182 (57%), Gaps = 27/182 (14%)
Query: 114 ETGLGKSTLMDSLFNTS-FESTPSPHSLP----SVKLKAHTYELQENNVKLK-------- 160
           E+GLGKSTL++SLF T  +     P +      +V+++A T E++E  VKL+        
Sbjct: 45  ESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPG 104
Query: 161 -------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYH--DNRIHVCLYFICPTGHGL 211
                   D FK+I+ YID QFE YL +E      LN  H  DNR+H C YFI P GHGL
Sbjct: 105 YGDAINCRDCFKTIISYIDEQFERYLHDE----SGLNRRHIIDNRVHCCFYFISPFGHGL 160
Query: 212 KSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETM 271
           K LD+   K + +KVNI+P+IAKADT++  E ++ K  I+ E+  + + IY  P D E+ 
Sbjct: 161 KPLDVAFXKAIHNKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLP-DAESD 219
Query: 272 SD 273
            D
Sbjct: 220 ED 221

>pdb|2QA5|A Chain A, Crystal Structure Of Sept2 G-Domain Length = 315

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 28/42 (66%)
Query: 599 PLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           P    LK LD+   K + +KVNI+P+IAKADT++  E ++ K
Sbjct: 155 PFGHGLKPLDVAFXKAIHNKVNIVPVIAKADTLTLKERERLK 196

>pdb|3SOP|A Chain A, Crystal Structure Of Human Septin 3 Gtpase Domain Length = 270

Iteration: 1
 Score =  117 bits (294), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 70/180 (38%), Positives = 101/180 (56%), Gaps = 21/180 (11%)
Query: 114 ETGLGKSTLMDSLFNTSFESTPS----PHSLP-SVKLKAHTYELQENNVKLK-------- 160
           ++GLGKSTL+++LF +      S       +P +V++KA  + ++E  VK+K        
Sbjct: 10  QSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPG 69
Query: 161 -------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKS 213
                  E+ ++ I  YI+ Q+E +L+EE+ I R      D R+H CLYFI PTGH L+ 
Sbjct: 70  FGDQINNENCWEPIEKYINEQYEKFLKEEVNIARK-KRIPDTRVHCCLYFISPTGHSLRP 128
Query: 214 LDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSD 273
           LDL  MK L   VNIIP+IAKADT++  E  +FK  +  EL  NG+  Y     DE + D
Sbjct: 129 LDLEFMKHLSKVVNIIPVIAKADTMTLEEKSEFKQRVRKELEVNGIEFYPQKEFDEDLED 188

>pdb|3SOP|A Chain A, Crystal Structure Of Human Septin 3 Gtpase Domain Length = 270

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/42 (54%), Positives = 32/42 (76%)
Query: 400 ELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRL 441
           E+EN  HC+F  LR+ +IRT+++D++E TH  HYE YR KRL
Sbjct: 229 EVENLNHCEFALLRDFVIRTHLQDLKEVTHNIHYETYRAKRL 270

>pdb|3SOP|A Chain A, Crystal Structure Of Human Septin 3 Gtpase Domain Length = 270

Iteration: 1
 Score = 49.3 bits (116), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 28/58 (48%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 583 RIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFK 640
           RIP TR+ C       P    L+ LDL  MK L   VNIIP+IAKADT++  E  +FK
Sbjct: 106 RIPDTRVHCCLYFIS-PTGHSLRPLDLEFMKHLSKVVNIIPVIAKADTMTLEEKSEFK 162

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	650
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	100.0
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	100.0
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	100.0
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.98
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.97
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.96
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.65
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.58
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.56
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.53
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.48
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.32
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.28
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.05
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.96
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.9
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	98.76
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	98.73
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	98.7
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	98.69
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.6
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.56
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	98.45
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	98.44
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.43
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.4
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.37
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	98.37
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	98.36
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	98.36
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	98.35
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	98.35
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.34
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	98.34
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.33
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	98.33
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	98.33
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	98.32
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.31
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	98.29
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	98.29
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	98.28
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	98.26
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	98.26
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	98.25
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	98.25
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	98.24
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	98.24
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.24
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	98.23
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	98.22
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	98.22
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.22
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	98.22
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.22
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	98.19
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.19
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	98.19
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	98.18
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	98.18
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.17
2ged_A	193	SR-beta, signal recognition particle receptor beta	98.17
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	98.17
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.17
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	98.16
1nrj_B	218	SR-beta, signal recognition particle receptor beta	98.16
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	98.16
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	98.16
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.16
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	98.15
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.15
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	98.15
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	98.14
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.14
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	98.14
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	98.13
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	98.13
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	98.12
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	98.11
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	98.11
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	98.11
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	98.1
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	98.1
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	98.1
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	98.1
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.09
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	98.09
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.08
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	98.08
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	98.08
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.06
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.05
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.05
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	98.04
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	98.03
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	98.02
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.02
3llu_A	196	RAS-related GTP-binding protein C; structural geno	98.02
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.02
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	98.02
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.01
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.01
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	97.99
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	97.99
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	97.99
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	97.99
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	97.99
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	97.98
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	97.98
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	97.98
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	97.98
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	97.97
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	97.97
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	97.96
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	97.96
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.95
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	97.94
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	97.94
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	97.93
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	97.93
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	97.92
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.92
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	97.92
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	97.91
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	97.9
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.88
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	97.87
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	97.85
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	97.85
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	97.84
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	97.83
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	97.83
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	97.81
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	97.8
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	97.8
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	97.8
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	97.79
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	97.78
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	97.76
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	97.76
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	97.76
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	97.74
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	97.73
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	97.72
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	97.71
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	97.7
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.69
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	97.69
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.87
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	97.68
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	97.67
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	97.67
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	97.66
2wji_A	165	Ferrous iron transport protein B homolog; membrane	97.64
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.63
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	97.63
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	97.6
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	97.59
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	97.58
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	97.58
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.57
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	97.57
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.56
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.54
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	97.52
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.5
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	97.5
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.46
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.35
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.31
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	97.3
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	97.27
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	97.23
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	97.22
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	97.2
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	97.19
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	97.18
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	97.13
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	97.12
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.1
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	97.08
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	96.97
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	96.96
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	96.94
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	96.94
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	96.9
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	96.88
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	96.83
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	96.79
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	96.77
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	96.71
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	96.68
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	96.67
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	96.6
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	96.58
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	96.5
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	96.48
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	96.33
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	96.31
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	96.29
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.27
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	96.07
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	96.06
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	96.06
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.95
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	95.54
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.26
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	95.2
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.98
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	94.93
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	94.84
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.76
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	94.28
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.25
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.02
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	93.97
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	93.96
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	93.87
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	93.86
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	93.68
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	93.6
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	93.57
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	93.52
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	93.4
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.36
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	93.36
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	93.26
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	93.19
1g6h_A	257	High-affinity branched-chain amino acid transport	93.05
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	93.02
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.02
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	93.02
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	92.99
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	92.87
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	92.84
1sgw_A	214	Putative ABC transporter; structural genomics, P p	92.79
1ji0_A	240	ABC transporter; ATP binding protein, structural g	92.72
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	92.7
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	92.67
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	92.62
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	92.58
1b0u_A	262	Histidine permease; ABC transporter, transport pro	92.56
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	92.49
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	92.47
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	92.44
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	92.43
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	92.3
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	92.23
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.2
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	92.15
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	92.05
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	91.99
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	91.94
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.93
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	91.84
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	91.8
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	91.76
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	91.75
2ghi_A	260	Transport protein; multidrug resistance protein, M	91.7
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	91.69
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	91.61
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	91.52
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.5
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	91.26
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	91.24
1nrj_B	218	SR-beta, signal recognition particle receptor beta	91.2
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	91.15
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	91.11
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	90.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	90.86
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	90.86
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	90.7
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	90.57
2hf9_A	226	Probable hydrogenase nickel incorporation protein	90.48
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	90.37
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	90.33
2eyu_A	261	Twitching motility protein PILT; pilus retraction	90.33
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	90.21
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	90.21
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	90.17
2ged_A	193	SR-beta, signal recognition particle receptor beta	90.11
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	89.97
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	89.95
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	89.93
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	89.93
4a74_A	231	DNA repair and recombination protein RADA; hydrola	89.92
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	89.88
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	89.84
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	89.83
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	89.78
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	89.63
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	89.53
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	89.32
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	89.26
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	89.2
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	89.14
3kta_A	182	Chromosome segregation protein SMC; structural mai	89.07
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	88.93
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	88.93
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	88.87
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	88.85
2ewv_A	372	Twitching motility protein PILT; pilus retraction	88.7
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	88.63
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	88.59
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	88.57
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	88.52
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	88.48
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	88.47
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	88.42
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	88.37
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	88.28
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	88.23
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	88.18
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	88.14
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	87.97
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	87.84
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	87.84
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	87.73
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	87.63
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	87.56
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	87.52
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	87.45
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	87.16
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	86.9
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	86.78
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	86.65
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	86.34
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	86.2
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	86.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	85.8
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	85.79
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	85.72
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	85.72
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	85.71
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	85.69
1e69_A	322	Chromosome segregation SMC protein; structural mai	85.63
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	85.6
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	85.5
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	85.41
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	85.27
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	85.25
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	85.23
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	85.14
3llu_A	196	RAS-related GTP-binding protein C; structural geno	85.11
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	85.06
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	85.02
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	84.95
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	84.92
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	84.92
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	84.9
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	84.8
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	84.68
1p9r_A	418	General secretion pathway protein E; bacterial typ	84.68
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	84.56
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	84.41
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	84.21
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	84.2
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	84.19
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	84.11
2fh5_B	214	SR-beta, signal recognition particle receptor beta	84.09
2og2_A	359	Putative signal recognition particle receptor; nuc	84.01
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	83.85
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	83.77
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	83.6
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	83.42
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	83.25
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	83.18
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	83.04
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	82.88
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	82.82
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	82.75
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	82.7
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	82.62
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	82.47
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	82.38
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	82.21
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	82.15
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	82.12
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	82.07
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	81.8
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	81.79
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	81.73
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	81.56
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	81.52
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	81.39
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	81.34
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	81.27
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	81.12
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	81.01
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	80.98
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	80.96
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	80.92
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	80.54
2cvh_A	220	DNA repair and recombination protein RADB; filamen	80.47
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	80.46
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	80.36
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	80.34
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	80.32
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	80.27
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	80.26
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	80.07

>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=100.00  E-value=9.2e-36  Score=325.44  Aligned_cols=266  Identities=61%  Similarity=0.964  Sum_probs=185.0

Q ss_pred             ccCCCCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCCCC--CCCCcEEEEEEEEEeeCCcee--e
Q psy8479          87 WVNTRTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTPSP--HSLPSVKLKAHTYELQENNVK--L  159 (650)
Q Consensus        87 ~vG~~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s~--~~~~T~~I~~~~~~l~e~g~~--L  159 (650)
                      .++++..|-+-....++  +|..|+   ||+||+|||||||+|++..+......  .++.+.  ....+.+++.++.  +
T Consensus        22 ~~~y~~~~L~~vsl~i~--~Gei~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~--~~i~~v~Q~~~l~~~l   97 (427)
T 2qag_B           22 HVGFDSLPDQLVNKSVS--QGFCFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQL--QSNTYDLQESNVRLKL   97 (427)
T ss_dssp             CC-CC--CHHHHHHSCC---CCEEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEE--EEEEEEEEC--CEEEE
T ss_pred             EEEECCeecCCCceEec--CCCeeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceE--eeEEEEeecCcccccc
Confidence            56666666333444455  898865   99999999999999999865433222  222222  2223333443321  1


Q ss_pred             ------------c-chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCC
Q psy8479         160 ------------K-EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKV  226 (650)
Q Consensus       160 ------------~-~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~v  226 (650)
                                  . ..+|.+|++||..+|..||.++..+.|.+..+.|.|||||+|||.|++|++++.|+++|++|+..+
T Consensus        98 tv~D~~~~g~~~~~~~~~~~i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Dieilk~L~~~~  177 (427)
T 2qag_B           98 TIVSTVGFGDQINKEDSYKPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDLVTMKKLDSKV  177 (427)
T ss_dssp             EEEEEECCCC-CCHHHHSHHHHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHHHHHHHTCSCS
T ss_pred             chhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHHHHHHHHhhCC
Confidence                        1 358999999999999999999888887654678999999999999999999999999999999999


Q ss_pred             CeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCCCchhHHHHHHHhhhccCCCCCccccccccCcccccCCCCC
Q psy8479         227 NIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTDDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSS  306 (650)
Q Consensus       227 nvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~d~~~~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~st~~~s  306 (650)
                      |||||++|+|+||+.|+..+++.|++.|..+||.||.|+.++++..+.+..++..  +|         ||| |||     
T Consensus       178 ~vI~Vi~KtD~Lt~~E~~~l~~~I~~~L~~~gi~I~~is~~d~~~~~~~~~~~~~--~P---------Fav-vgs-----  240 (427)
T 2qag_B          178 NIIPIIAKADAISKSELTKFKIKITSELVSNGVQIYQFPTDDESVAEINGTMNAH--LP---------FAV-IGS-----  240 (427)
T ss_dssp             EEEEEESCGGGSCHHHHHHHHHHHHHHHBTTBCCCCCCC-----CCSHHHHHTTC---C---------CBC-CC------
T ss_pred             CEEEEEcchhccchHHHHHHHHHHHHHHHHcCCcEEecCCCchhHHHHHhhhcCC--CC---------eEE-ECC-----
Confidence            9999999999999999999999999999999999999997766555566666654  99         999 898     


Q ss_pred             CCCcccccccccccccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         307 PPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  386 (650)
Q Consensus       307 ~~~~~~~nil~~~~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeeeeeeee  386 (650)
                                 ...+.++|+.|+++.|+|       |.                                          
T Consensus       241 -----------~~~~~~~g~~vrgR~ypW-------G~------------------------------------------  260 (427)
T 2qag_B          241 -----------TEELKIGNKMMRARQYPW-------GT------------------------------------------  260 (427)
T ss_dssp             ------------------CCCC-----CC-------CC------------------------------------------
T ss_pred             -----------CCeeeeCCcEEEEecCCC-------ce------------------------------------------
Confidence                       344566899999999999       54                                          


Q ss_pred             hhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhhh
Q psy8479         387 EEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES  445 (650)
Q Consensus       387 eeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~~  445 (650)
                                  -+.+...|+||..|+.+++++|++++++.++..|||.||..++....
T Consensus       261 ------------~even~~h~DF~~Lr~~l~~t~~~dL~~~T~~~~YE~yR~~~L~~~~  307 (427)
T 2qag_B          261 ------------VQVENEAHCDFVKLREMLIRVNMEDLREQTHTRHYELYRRCKLEEMG  307 (427)
T ss_dssp             ------------CC-----CCSSHHHHHHHHHTSTTHHHHHHHHHTTHHHHHHHHHHHC
T ss_pred             ------------EEeCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence                        33445569999999999999999999999999999999999997643

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=100.00  E-value=4.9e-34  Score=293.56  Aligned_cols=247  Identities=41%  Similarity=0.716  Sum_probs=187.7

Q ss_pred             CCCceee---cCCCCCChhhHhhhhhCcCCCCCC----CCCCCCcEEEEEEEEEeeCCce--eec-------------ch
Q psy8479         105 IPGKAYK---PCETGLGKSTLMDSLFNTSFESTP----SPHSLPSVKLKAHTYELQENNV--KLK-------------ED  162 (650)
Q Consensus       105 k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~----s~~~~~T~~I~~~~~~l~e~g~--~L~-------------~~  162 (650)
                      |+|+.|+   ||.+|+|||||||+||+.+.....    +.+..+|+.+....+.+..+|.  .+.             ..
T Consensus         4 ~~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~   83 (274)
T 3t5d_A            4 GSGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSN   83 (274)
T ss_dssp             ---CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTT
T ss_pred             cCccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchh
Confidence            3799999   999999999999999998765532    2223445555555555555442  222             46


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHH
Q psy8479         163 SFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       163 ~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~E  242 (650)
                      +|.+|++||++||+.||.++..+.|.  .+.|.|+|||||||.++++++++.|+++|++|...+|+|||++|+|.++..+
T Consensus        84 ~~~~i~~~i~~~~~~~l~~~~~~~r~--~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~~~pvi~V~nK~D~~~~~e  161 (274)
T 3t5d_A           84 CWQPVIDYIDSKFEDYLNAESRVNRR--QMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEE  161 (274)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHSSCCC--SCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTTTSCEEEEESSGGGSCHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccc--cccCCceeEEEEEecCCCCCCCHHHHHHHHHHhccCCEEEEEeccCCCCHHH
Confidence            89999999999999999999999998  6899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHCCCcEEeCCC-CchhHHHHHHHhhhccCCCCCccccccccCcccccCCCCCCCCcccccccccccc
Q psy8479         243 LQKFKTNIMTELTSNGVHIYEFPT-DDETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKV  321 (650)
Q Consensus       243 l~~~K~~I~~~L~~~~I~if~f~~-d~~~~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~st~~~s~~~~~~~nil~~~~~  321 (650)
                      +..+++.|++.+..++|.+|.|+. +++...++...+...  +|         |++ |+|                ...+
T Consensus       162 ~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~--~p---------~~v-v~s----------------~~~~  213 (274)
T 3t5d_A          162 CQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR--LP---------LAV-VGS----------------NTII  213 (274)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHT--CS---------EEC-CCC----------------CCC-
T ss_pred             HHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcC--CC---------cEE-EEe----------------eeEE
Confidence            999999999999999999999984 334455566666655  89         999 888                3345


Q ss_pred             cCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhHHHHHhhhh
Q psy8479         322 PGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKEL  401 (650)
Q Consensus       322 ~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeeeeeeeeeeeeeeeeeeeedE~  401 (650)
                      +..|..++++.|+|       +.                                                      -+.
T Consensus       214 ~~~~~~~~~r~y~w-------g~------------------------------------------------------~~v  232 (274)
T 3t5d_A          214 EVNGKRVRGRQYPW-------GV------------------------------------------------------AEV  232 (274)
T ss_dssp             -------CEEECSS-------CE------------------------------------------------------EES
T ss_pred             eeCCeEEEeeeccc-------ce------------------------------------------------------EEe
Confidence            66788899999999       43                                                      334


Q ss_pred             ccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhh
Q psy8479         402 ENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLE  442 (650)
Q Consensus       402 e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~  442 (650)
                      +...++||..|+..++++|++++++.++..|||.||++++.
T Consensus       233 e~~~~~df~~lr~~l~~~~~~~l~~~t~~~~ye~yr~~~l~  273 (274)
T 3t5d_A          233 ENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLA  273 (274)
T ss_dssp             SCTTTCSHHHHHHTTTTTTHHHHHHHHHHTHHHHHHHHHHH
T ss_pred             cCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45569999999999999999999999999999999998875

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=100.00  E-value=3.3e-34  Score=296.30  Aligned_cols=245  Identities=39%  Similarity=0.652  Sum_probs=187.3

Q ss_pred             ceee---cCCCCCChhhHhhhhhCcCCCCCCC-----CCCCCcEEEEEEEEEeeCCce--------------eec-chhH
Q psy8479         108 KAYK---PCETGLGKSTLMDSLFNTSFESTPS-----PHSLPSVKLKAHTYELQENNV--------------KLK-EDSF  164 (650)
Q Consensus       108 ~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s-----~~~~~T~~I~~~~~~l~e~g~--------------~L~-~~~w  164 (650)
                      |+||   ||+||+|||||||+|++.......+     ....++.......+.+++.++              .+. ..+|
T Consensus         1 f~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~   80 (270)
T 3sop_A            1 FDFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCW   80 (270)
T ss_dssp             CEEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHH
Confidence            4566   9999999999999999975433210     011111111111222222221              111 5689


Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHH
Q psy8479         165 KSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQ  244 (650)
Q Consensus       165 ~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~  244 (650)
                      +.+..|+..++..++.++....+. +.+.+.|+|||||||.|.+|+|.++|+++|++|...+|+||||+|+|+||++|+.
T Consensus        81 ~~i~~~~~~~~~~~~~~~LS~G~~-qrv~iaRal~~lllldep~~gL~~lD~~~l~~L~~~~~vI~Vi~K~D~lt~~e~~  159 (270)
T 3sop_A           81 EPIEKYINEQYEKFLKEEVNIARK-KRIPDTRVHCCLYFISPTGHSLRPLDLEFMKHLSKVVNIIPVIAKADTMTLEEKS  159 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHHSCTTCC-SSCCCCSCCEEEEEECCCSSSCCHHHHHHHHHHHTTSEEEEEETTGGGSCHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHhcCcccc-hhhhhheeeeeeEEEecCCCcCCHHHHHHHHHHHhcCcEEEEEeccccCCHHHHH
Confidence            999999999999999998877776 3788999999999999999999999999999999889999999999999999999


Q ss_pred             HHHHHHHHHHHHCCCcEEeCCCCch--hHHHHHHHhhhccCCCCCccccccccCcccccCCCCCCCCccccccccccccc
Q psy8479         245 KFKTNIMTELTSNGVHIYEFPTDDE--TMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTSPSSPPHFHSLNILAMQKVP  322 (650)
Q Consensus       245 ~~K~~I~~~L~~~~I~if~f~~d~~--~~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~st~~~s~~~~~~~nil~~~~~~  322 (650)
                      .+|+.|++.|..++|.+|+|+..++  +....+..+. .+++|         ||| |||                ...+.
T Consensus       160 ~~k~~i~~~l~~~~i~i~~~~~~~~~~~~~~~~~~~~-~~~~p---------fav-v~s----------------~~~~~  212 (270)
T 3sop_A          160 EFKQRVRKELEVNGIEFYPQKEFDEDLEDKTENDKIR-QESMP---------FAV-VGS----------------DKEYQ  212 (270)
T ss_dssp             HHHHHHHHHHHHTTCCCSSCSCC---CHHHHHHHHHH-HTTCS---------EEC-CCC----------------CCEEE
T ss_pred             HHHHHHHHHHHHcCccccCCCCCCcchHHHHHHHHHH-hcCCC---------eEE-Eec----------------ceEEE
Confidence            9999999999999999999874221  1112222322 23499         999 898                44456


Q ss_pred             CCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhHHHHHhhhhc
Q psy8479         323 GSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE  402 (650)
Q Consensus       323 ~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeeeeeeeeeeeeeeeeeeeedE~e  402 (650)
                      .+|+.|.++.|+|       |.                                                      -+.+
T Consensus       213 ~~g~~~~~r~y~w-------g~------------------------------------------------------~~v~  231 (270)
T 3sop_A          213 VNGKRVLGRKTPW-------GI------------------------------------------------------IEVE  231 (270)
T ss_dssp             ETTEEEEEECCCC--------C------------------------------------------------------EESS
T ss_pred             eCCcEEEEeecCc-------eE------------------------------------------------------EEeC
Confidence            6899999999999       55                                                      3445


Q ss_pred             cCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhh
Q psy8479         403 NEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRL  441 (650)
Q Consensus       403 ~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~  441 (650)
                      ...|+||..|+.+++++|++++++.++..|||.||..++
T Consensus       232 n~~h~df~~lr~~l~~~~~~~l~~~t~~~~ye~~r~~~l  270 (270)
T 3sop_A          232 NLNHCEFALLRDFVIRTHLQDLKEVTHNIHYETYRAKRL  270 (270)
T ss_dssp             CTTTCSHHHHHHHHHTTTHHHHHHHHHHTHHHHHHHHHC
T ss_pred             CcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            567999999999999999999999999999999998764

>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=99.98  E-value=1.1e-32  Score=295.81  Aligned_cols=268  Identities=40%  Similarity=0.678  Sum_probs=196.0

Q ss_pred             CccCccCCCCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCC-----CCCCCCcEEEEEEEEEeeC
Q psy8479          83 FSRCWVNTRTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTP-----SPHSLPSVKLKAHTYELQE  154 (650)
Q Consensus        83 ~~~~~vG~~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~-----s~~~~~T~~I~~~~~~l~e  154 (650)
                      ...++||+.+||.|+.++.++  +|+.|+   ||.+|+|||||||+||+.......     +....+|+.+....+.+..
T Consensus        13 ~~~~~v~~~~l~~~~~~k~~~--~~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~   90 (361)
T 2qag_A           13 ETPGYVGFANLPNQVHRKSVK--KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEE   90 (361)
T ss_dssp             --------CCHHHHHHTHHHH--HCCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC---
T ss_pred             CCCceEEeccchHHhCCeeec--CCCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeec
Confidence            446899999999999999888  899998   999999999999999987554321     1223356666555555554


Q ss_pred             Cce--eec-------------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHH
Q psy8479         155 NNV--KLK-------------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCM  219 (650)
Q Consensus       155 ~g~--~L~-------------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~m  219 (650)
                      ++.  .|.             ..+|.+|..||++||+.|+.++..+.|.  .+.|.|||||+|+|.++++++.++|+.+|
T Consensus        91 ~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~--~~~d~rv~~~vy~I~~~~~~l~~~d~~~~  168 (361)
T 2qag_A           91 RGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRR--HIIDNRVHCCFYFISPFGHGLKPLDVAFM  168 (361)
T ss_dssp             -CEEEEEEEEC--------------CCTHHHHHHHHHHHHHHHTCSCCC---CCCCCCCEEEEEECSSSSSCCHHHHHHH
T ss_pred             CCcccceEEEEeccccccCccHHHHHHHHHHHHHHHHHHHHHhhhhccc--cccCCceEEEEEEEecCCCCcchhHHHHH
Confidence            443  222             2689999999999999999999988886  68999999999999999999999999999


Q ss_pred             HHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCC----CchhHHHHHHHhhhccCCCCCcccccccc
Q psy8479         220 KKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPT----DDETMSDVNAAMTIFSSIPCDRSLIHTIF  295 (650)
Q Consensus       220 k~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~----d~~~~~~~~~~~~~~~~~P~~~~~~~t~~  295 (650)
                      +.|+..+|+|||++|+|.++..++..++..+.+.+..+++.+|.++.    +++.+..+...+...  +|         |
T Consensus       169 ~~l~~~~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~~e~~~~l~~~i~~~--ip---------~  237 (361)
T 2qag_A          169 KAIHNKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAESDEDEDFKEQTRLLKAS--IP---------F  237 (361)
T ss_dssp             HHTCS-SCEEEEEECCSSSCHHHHHHHHHHHHHHTTCC-CCSCCCC---------CHHHHHHHHHT--CS---------C
T ss_pred             HHhccCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCcchhHHHHHHHHHhc--CC---------C
Confidence            99999999999999999999999999999999999999999998874    223344556666655  89         9


Q ss_pred             CcccccCCCCCCCCcccccccccccccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         296 PPCLRSTSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  375 (650)
Q Consensus       296 ~~c~~st~~~s~~~~~~~nil~~~~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeE  375 (650)
                      ++ ++|                ...+...|+.+.++.|+|       +.                               
T Consensus       238 ~v-v~s----------------~~~~~~~g~~~~gr~ypw-------g~-------------------------------  262 (361)
T 2qag_A          238 SV-VGS----------------NQLIEAKGKKVRGRLYPW-------GV-------------------------------  262 (361)
T ss_dssp             EE-CCC----------------SEEC------CEEECCSS-------CC-------------------------------
T ss_pred             CE-eCC----------------CCccccCCeEEEEEecCC-------ce-------------------------------
Confidence            99 888                334556788899999999       54                               


Q ss_pred             hhhhhhhhhhhhhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhh
Q psy8479         376 EEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE  444 (650)
Q Consensus       376 eeEeeeeeeeeeeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~  444 (650)
                                             -+.+...|+||..|+.+++ +|++++++.++..|||.||..++...
T Consensus       263 -----------------------~~ven~~h~df~~Lr~~l~-~~~~dl~~~t~~~~ye~yr~~~l~~~  307 (361)
T 2qag_A          263 -----------------------VEVENPEHNDFLKLRTMLI-THMQDLQEVTQDLHYENFRSERLKRG  307 (361)
T ss_dssp             -----------------------EESSCC-CCTHHHHHHHHH-HCCGGGTHHHHTTTHHHHHTTTC---
T ss_pred             -----------------------EecCCCccCcHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence                                   3344556999999999999 99999999999999999999888653

>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=99.97  E-value=1.2e-31  Score=292.92  Aligned_cols=267  Identities=39%  Similarity=0.685  Sum_probs=184.0

Q ss_pred             cCccCCCCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCCCC----CCCCcEEEEEEEEEeeCCce
Q psy8479          85 RCWVNTRTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTPSP----HSLPSVKLKAHTYELQENNV  157 (650)
Q Consensus        85 ~~~vG~~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s~----~~~~T~~I~~~~~~l~e~g~  157 (650)
                      .+.+++.+|+.++.++.+.  +|+.|+   ||+||+|||||||+|++.........    ...+|..+....+.+++.++
T Consensus         9 ~~~l~~~~l~~~y~~~~vl--~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~   86 (418)
T 2qag_C            9 EGYVGFANLPNQVYRKSVK--RGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGV   86 (418)
T ss_dssp             ------CCCCCCTTTTTCC---CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------
T ss_pred             cCcEEEEecceeECCEEEe--cCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCc
Confidence            3579999999998877666  899998   99999999999999999765322110    11223333222333333332


Q ss_pred             e--ec-------------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHh
Q psy8479         158 K--LK-------------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKL  222 (650)
Q Consensus       158 ~--L~-------------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L  222 (650)
                      .  +.             ..+|..|+.||+.+|..|+.++..+.|.  .+.|.|+||||||+.|++++|.+.|+.+|+.|
T Consensus        87 ~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRa--l~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L  164 (418)
T 2qag_C           87 QLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRR--QMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRL  164 (418)
T ss_dssp             CEEEEEEECC-----------CHHHHHHHHHHHHHHTTTSCC-CCC--CCCCC-CCEEEEECCC-CCSCCHHHHHHHHHH
T ss_pred             ccceeeeechhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHH--hccCCCeeEEEEEecCcccCCCHHHHHHHHHH
Confidence            1  11             3579999999999999999888888887  57899999999999999999999999999999


Q ss_pred             ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCCC-chhHHHHHHHhhhccCCCCCccccccccCccccc
Q psy8479         223 DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTD-DETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRS  301 (650)
Q Consensus       223 ~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~d-~~~~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~s  301 (650)
                      ...+|+|||++|+|++++.++..+++.|++.+..++|.+|.|+.. ..+..++...+...  +|         |+| ++|
T Consensus       165 ~~~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~--iP---------fav-v~s  232 (418)
T 2qag_C          165 HEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR--LP---------LAV-VGS  232 (418)
T ss_dssp             TTTSEEEEEEESTTSSCHHHHHHHHHHHHHHHHHHTCCCCCCC-------------------CC---------EEE-CC-
T ss_pred             hccCcEEEEEEcccCccHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhh--CC---------cce-eec
Confidence            999999999999999999999999999999999999999999843 23333344444444  89         999 787


Q ss_pred             CCCCCCCCcccccccccccccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         302 TSPSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  381 (650)
Q Consensus       302 t~~~s~~~~~~~nil~~~~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeee  381 (650)
                                      ...+..+|+.++++.|+|       +.                                     
T Consensus       233 ----------------~~~~~~~g~~vr~R~y~w-------g~-------------------------------------  252 (418)
T 2qag_C          233 ----------------NTIIEVNGKRVRGRQYPW-------GV-------------------------------------  252 (418)
T ss_dssp             ----------------------------CEECSS-------CE-------------------------------------
T ss_pred             ----------------ceeEecCCceeecccccc-------eE-------------------------------------
Confidence                            344556788899999999       54                                     


Q ss_pred             hhhhhhhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhh
Q psy8479         382 EEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE  444 (650)
Q Consensus       382 eeeeeeeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~  444 (650)
                                       -+.+...|.+|..|+.+++++|++++++.++..|||.||..++...
T Consensus       253 -----------------i~Ven~~h~df~~Lr~~Li~~~~~dl~~~T~~~~Ye~yR~~~l~~~  298 (418)
T 2qag_C          253 -----------------AEVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAAV  298 (418)
T ss_dssp             -----------------ECC--CCSSTTTHHHHHHHTTSHHHHHHHHHHHTHHHHHHHHCC--
T ss_pred             -----------------EEecchhhCCHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhc
Confidence                             3445667999999999999999999999999999999999988654

>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=99.96  E-value=9.4e-30  Score=266.48  Aligned_cols=261  Identities=41%  Similarity=0.690  Sum_probs=180.5

Q ss_pred             CCCCcccccccccCCCCceee---cCCCCCChhhHhhhhhCcCCCCCCC-----CCCCCcEEEEEEEEEeeCCce--eec
Q psy8479          91 RTPPPNFLEKSWNFIPGKAYK---PCETGLGKSTLMDSLFNTSFESTPS-----PHSLPSVKLKAHTYELQENNV--KLK  160 (650)
Q Consensus        91 ~~lp~Q~~rk~~~~k~g~~Fn---VG~SGvGKSTlINtLf~~~~~~~~s-----~~~~~T~~I~~~~~~l~e~g~--~L~  160 (650)
                      ++|+.|+.++.+.  +++.|+   ||++|+|||||||+|++........     ....+|..+....+.+++.++  .|.
T Consensus         2 ~~l~~~~~~~~~l--~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~lt   79 (301)
T 2qnr_A            2 SNLPNQVHRKSVK--KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLT   79 (301)
T ss_dssp             ------------------CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEE
T ss_pred             CCCcceECCEEEE--cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcc
Confidence            4678888887777  899998   9999999999999999874332211     011123222222333443332  111


Q ss_pred             -------------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCC
Q psy8479         161 -------------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVN  227 (650)
Q Consensus       161 -------------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vn  227 (650)
                                   ..+|..++.||.+++..|+.+.+...|.  .+.|.|+|||||++.|++++|.+.++++|+.+...+|
T Consensus        80 v~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rq--rv~~ara~~ll~ldePt~~~Ld~~~~~~l~~l~~~~~  157 (301)
T 2qnr_A           80 VVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRR--HIIDNRVHCCFYFISPFGHGLKPLDVAFMKAIHNKVN  157 (301)
T ss_dssp             EEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCT--TCCCCCCCEEEEEECSSSSSCCHHHHHHHHHHTTTSC
T ss_pred             hhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhh--hhhhhhhhheeeeecCcccCCCHHHHHHHHHHHhcCC
Confidence                         1578999999999999999999888775  6889999999999999999999999999999998899


Q ss_pred             eeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCCC----chhHHHHHHHhhhccCCCCCccccccccCcccccCC
Q psy8479         228 IIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPTD----DETMSDVNAAMTIFSSIPCDRSLIHTIFPPCLRSTS  303 (650)
Q Consensus       228 vIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~d----~~~~~~~~~~~~~~~~~P~~~~~~~t~~~~c~~st~  303 (650)
                      +++|++|+|.++..++..+++.+++.+..+++.+|.++..    ++.+..+...+...  +|         ||+ |||  
T Consensus       158 iilV~~K~Dl~~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~~v~e~f~~l~~~i~~~--~p---------~av-igs--  223 (301)
T 2qnr_A          158 IVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAESDEDEDFKEQTRLLKAS--IP---------FSV-VGS--  223 (301)
T ss_dssp             EEEEECCGGGSCHHHHHHHHHHHHHHHHHTTCCCCCCC---------CHHHHHHHHTT--CS---------EEC-CCC--
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCeEEecCCccccccHHHHHHHHHhhcC--CC---------ceE-ECC--
Confidence            9999999999999999999999999999999999998742    23334455555544  89         999 898  


Q ss_pred             CCCCCCcccccccccccccCCCCccccCCccccCcccCCCCCcchhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh
Q psy8479         304 PSSPPHFHSLNILAMQKVPGSNPTIDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE  383 (650)
Q Consensus       304 ~~s~~~~~~~nil~~~~~~~~~~ti~~~~~~~~~~~g~~~leeeee~eeeeeeeeeeeeeeeeeedeeeeeEeeEeeeee  383 (650)
                                    ...+..+|+.++++.|+|       +.                                       
T Consensus       224 --------------~~~~~~~g~~~~~r~y~w-------g~---------------------------------------  243 (301)
T 2qnr_A          224 --------------NQLIEAKGKKVRGRLYPW-------GV---------------------------------------  243 (301)
T ss_dssp             --------------CCBCC-----CBEEEETT-------EE---------------------------------------
T ss_pred             --------------CceEecCCcEEeeEcCCC-------ce---------------------------------------
Confidence                          344566788899999999       54                                       


Q ss_pred             hhhhhhhhhHHHHHhhhhccCCCchhHHHHHHHHhchhhhhhhhhhhhhHHHHHHHhhhhhh
Q psy8479         384 EEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEES  445 (650)
Q Consensus       384 eeeeeeeeeeeeeeedE~e~~~~~df~~l~~~~~~~~~~~~~~~~~~~~~e~dr~~~~~~~~  445 (650)
                                     .+.+...|+||..|+.+++ +|++++++.++..|||.||.+++.+..
T Consensus       244 ---------------~~v~n~~h~df~~lr~~l~-~~~~~l~~~t~~~~ye~~r~~~l~~~~  289 (301)
T 2qnr_A          244 ---------------VEVENPEHNDFLKLRTMLI-THMQDLQEVTQDLHYENFRSERLKRGG  289 (301)
T ss_dssp             ---------------EETTCTTTCSHHHHHHHHH-HTHHHHHHHHHHTHHHHHHHHHHHC--
T ss_pred             ---------------EeeCCCccCcHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence                           4455667999999999999 999999999999999999999997654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.65  E-value=1.8e-17  Score=170.09  Aligned_cols=115  Identities=30%  Similarity=0.395  Sum_probs=99.5

Q ss_pred             cCccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHH
Q psy8479         531 DATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLV  610 (650)
Q Consensus       531 ~~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~  610 (650)
                      .++..+.|+||||||||+++++..+| .++.+||++||..+ ...+.+.++..+.|+|+|||||| +.|++|++++.|++
T Consensus        60 ~~~~~~~l~liDTpG~~d~~~~~~~~-~~i~~~i~~~~~~~-l~~~~~~~r~~~~d~r~~~~l~~-i~~~~~~~~~~d~~  136 (274)
T 3t5d_A           60 EGGVQLLLTIVDTPGFGDAVDNSNCW-QPVIDYIDSKFEDY-LNAESRVNRRQMPDNRVQCCLYF-IAPSGHGLKPLDIE  136 (274)
T ss_dssp             C--CCEEEEEEECCCCSCCSCCTTTT-HHHHHHHHHHHHHH-HHHHHSSCCCSCCCCCCCEEEEE-ECSCCSSCCHHHHH
T ss_pred             cCCeEEEEEEEECCCccccccchhhH-HHHHHHHHHHHHHH-HHhhcccccccccCCceeEEEEE-ecCCCCCCCHHHHH
Confidence            35677899999999999999999999 79999999988432 22223455568999999999999 88999999999999


Q ss_pred             HHHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         611 CMKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       611 ~mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      +|+.|+..+++|||++|+|+++..++..+|+.|++.+.
T Consensus       137 ~l~~l~~~~pvi~V~nK~D~~~~~e~~~~~~~i~~~l~  174 (274)
T 3t5d_A          137 FMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQ  174 (274)
T ss_dssp             HHHHHTTTSCEEEEESSGGGSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCCEEEEEeccCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999988763

>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=99.58  E-value=2.7e-16  Score=171.98  Aligned_cols=114  Identities=39%  Similarity=0.369  Sum_probs=89.9

Q ss_pred             ccccccccccCCCCCcccccccccccccccccccccCCCCCCC-CCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         533 TTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPP-ARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       533 ~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~-~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      +....||++||||||..+++..|| .+|.+||++|+..+.... ....+...++|+|||||+|| |.|++|+|+++|+++
T Consensus        92 ~l~~~ltv~D~~~~g~~~~~~~~~-~~i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~f-I~d~~~~l~~~Diei  169 (427)
T 2qag_B           92 NVRLKLTIVSTVGFGDQINKEDSY-KPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYF-IAPTGHSLKSLDLVT  169 (427)
T ss_dssp             -CEEEEEEEEEECCCC-CCHHHHS-HHHHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEE-ECCCC---CHHHHHH
T ss_pred             ccccccchhhhhhhhhccccchhh-hHHHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEE-EeCCCCCCCHHHHHH
Confidence            444589999999999999988899 799999998774311111 11122247899999999999 889999999999999


Q ss_pred             HHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         612 MKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       612 mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      |+.|+..+||||||+|+|+||++|+..||+.|++.|.
T Consensus       170 lk~L~~~~~vI~Vi~KtD~Lt~~E~~~l~~~I~~~L~  206 (427)
T 2qag_B          170 MKKLDSKVNIIPIIAKADAISKSELTKFKIKITSELV  206 (427)
T ss_dssp             HHHTCSCSEEEEEESCGGGSCHHHHHHHHHHHHHHHB
T ss_pred             HHHHhhCCCEEEEEcchhccchHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999998775

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.56  E-value=6.1e-16  Score=159.60  Aligned_cols=115  Identities=29%  Similarity=0.357  Sum_probs=93.2

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      .+....||++|+||||..+++..+| ..+..|+..++........+.....++.+.|+|||||| +.|++|+|.++|+++
T Consensus        56 ~~~~~~ltv~d~~~~g~~~~~~~~~-~~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lll-ldep~~gL~~lD~~~  133 (270)
T 3sop_A           56 GGVKMKLTVIDTPGFGDQINNENCW-EPIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYF-ISPTGHSLRPLDLEF  133 (270)
T ss_dssp             ---CCEEEEECCCC--CCSBCTTCS-HHHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEE-ECCCSSSCCHHHHHH
T ss_pred             CCCcCCceEEechhhhhhcccHHHH-HHHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEE-EecCCCcCCHHHHHH
Confidence            3566789999999999999999899 68899998766332111222233358899999999999 667789999999999


Q ss_pred             HHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         612 MKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       612 mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      |++|+..+||||||+|+|+||.+|++.+|+.|++.|.
T Consensus       134 l~~L~~~~~vI~Vi~K~D~lt~~e~~~~k~~i~~~l~  170 (270)
T 3sop_A          134 MKHLSKVVNIIPVIAKADTMTLEEKSEFKQRVRKELE  170 (270)
T ss_dssp             HHHHHTTSEEEEEETTGGGSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCcEEEEEeccccCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999998775

>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=99.53  E-value=1.9e-15  Score=161.92  Aligned_cols=114  Identities=25%  Similarity=0.327  Sum_probs=82.4

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      .+..+.|+||||||+|+.+++..+| ..+..||++||..+ +..+..+.+..+.|+|||||+|+ |.|+++++.++|+++
T Consensus        91 ~~~~~~l~i~DTpG~gd~~~~~e~~-~~i~~~i~~~~~~y-l~~~~~~~r~~~~d~rv~~~vy~-I~~~~~~l~~~d~~~  167 (361)
T 2qag_A           91 RGVKLRLTVVDTPGYGDAINCRDCF-KTIISYIDEQFERY-LHDESGLNRRHIIDNRVHCCFYF-ISPFGHGLKPLDVAF  167 (361)
T ss_dssp             -CEEEEEEEEC---------------CCTHHHHHHHHHHH-HHHHTCSCCC-CCCCCCCEEEEE-ECSSSSSCCHHHHHH
T ss_pred             CCcccceEEEEeccccccCccHHHH-HHHHHHHHHHHHHH-HHHhhhhccccccCCceEEEEEE-EecCCCCcchhHHHH
Confidence            4567899999999999999998899 69999998877322 12222344458999999999999 889999999999999


Q ss_pred             HHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         612 MKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       612 mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      |+.|+..+|+|||++|+|+++..++..+|..|++.+.
T Consensus       168 ~~~l~~~~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~  204 (361)
T 2qag_A          168 MKAIHNKVNIVPVIAKADTLTLKERERLKKRILDEIE  204 (361)
T ss_dssp             HHHTCS-SCEEEEEECCSSSCHHHHHHHHHHHHHHTT
T ss_pred             HHHhccCCCEEEEEECCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999988765

>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=99.48  E-value=1.4e-14  Score=158.39  Aligned_cols=114  Identities=30%  Similarity=0.391  Sum_probs=84.5

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      .+..+.||||||||||..+++..+| ..+.+||++++..+ +..+....+..+.|.|+|||||| |.||+|+|.++|+.+
T Consensus        84 ~~~~~~Ltv~Dt~g~~~~~~~~~~~-~~i~~~i~~~~~~~-l~qr~~IaRal~~d~~~~vlL~l-dePt~~~L~~~d~~~  160 (418)
T 2qag_C           84 GGVQLLLTIVDTPGFGDAVDNSNCW-QPVIDYIDSKFEDY-LNAESRVNRRQMPDNRVQCCLYF-IAPSGHGLKPLDIEF  160 (418)
T ss_dssp             ---CEEEEEEECC-----------C-HHHHHHHHHHHHHH-TTTSCC-CCCCCCCC-CCEEEEE-CCC-CCSCCHHHHHH
T ss_pred             CCcccceeeeechhhhhhccchhhH-HHHHHHHHHHHHHH-HHHHHHHHHHhccCCCeeEEEEE-ecCcccCCCHHHHHH
Confidence            3556789999999999998888899 68999999877432 22233455568899999999999 999999999999999


Q ss_pred             HHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         612 MKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       612 mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      |+.|+..+|||||++|+|++++.++..||+.|++.+.
T Consensus       161 lk~L~~~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~  197 (418)
T 2qag_C          161 MKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQ  197 (418)
T ss_dssp             HHHHTTTSEEEEEEESTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccCcEEEEEEcccCccHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999988753

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.32  E-value=2.3e-12  Score=131.57  Aligned_cols=155  Identities=18%  Similarity=0.165  Sum_probs=93.8

Q ss_pred             ccCccCCCCCCcccccc-------cccCCCCc-eee---cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEe
Q psy8479          84 SRCWVNTRTPPPNFLEK-------SWNFIPGK-AYK---PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYEL  152 (650)
Q Consensus        84 ~~~~vG~~~lp~Q~~rk-------~~~~k~g~-~Fn---VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l  152 (650)
                      ..+++|+.++|.|..++       ..+  ++. .|+   +|.+|+|||||||+|++..+... +..++.|....  .+.+
T Consensus         8 ~~~~~g~~~l~~~~~~~l~~~~~~~~~--~~~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~-~~~~~~t~~~~--~~~~   82 (270)
T 1h65_A            8 VREWSGINTFAPATQTKLLELLGNLKQ--EDVNSLTILVMGKGGVGKSSTVNSIIGERVVSI-SPFQSEGPRPV--MVSR   82 (270)
T ss_dssp             CEECGGGGGSCHHHHHHHHHHHHHHHH--TTCCEEEEEEEESTTSSHHHHHHHHHTSCCSCC-CSSSCCCSSCE--EEEE
T ss_pred             hhhhcchhhccHHHHHHHHHHHHHHhh--cCCCCeEEEEECCCCCCHHHHHHHHhCCCcccc-cCCCCcceeeE--EEEE
Confidence            46799999999995544       333  232 445   99999999999999999875432 22222221111  1222


Q ss_pred             eCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC-
Q psy8479         153 QENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK-  225 (650)
Q Consensus       153 ~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~-  225 (650)
                      ...++.+.     + .....+    ..++...+      .+   .+.+.++|+|||++..+.+++...+..+++.|... 
T Consensus        83 ~~~~~~l~iiDTpG~~~~~~~----~~~~~~~i------~~---~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~  149 (270)
T 1h65_A           83 SRAGFTLNIIDTPGLIEGGYI----NDMALNII------KS---FLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSF  149 (270)
T ss_dssp             EETTEEEEEEECCCSEETTEE----CHHHHHHH------HH---HTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHH
T ss_pred             eeCCeEEEEEECCCCCCCccc----hHHHHHHH------HH---HhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHh
Confidence            22333222     0 000000    00111111      11   12356899999999888788999999999988642 


Q ss_pred             -----CCeeeeeecccCCCHH--HHHHHHHHHHHHHHH
Q psy8479         226 -----VNIIPIIAKADTISKS--ELQKFKTNIMTELTS  256 (650)
Q Consensus       226 -----vnvIPVItKAD~Lt~~--El~~~K~~I~~~L~~  256 (650)
                           +|+|+|+||+|...+.  ++..+++.+...|..
T Consensus       150 ~~~~~~~iivV~nK~Dl~~~~~~~~~~~~~~~~~~l~~  187 (270)
T 1h65_A          150 GKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQ  187 (270)
T ss_dssp             CGGGGGGEEEEEECCSCCCGGGCCHHHHHHHHHHHHHH
T ss_pred             CcccccCEEEEEECcccCCcCCCCHHHHHHHHHHHHHH
Confidence                 5999999999988765  456666555555443

>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=99.28  E-value=6e-13  Score=139.03  Aligned_cols=114  Identities=25%  Similarity=0.322  Sum_probs=82.2

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      .+..+.||||||||||+.+++...| ..+..||..+++. +........+..+.+.|+|||||| +.|++++|.++++++
T Consensus        72 ~~~~~~ltv~Dt~g~~~~~~~~e~~-~~l~~~l~~~~~~-~~~~~sgg~rqrv~~ara~~ll~l-dePt~~~Ld~~~~~~  148 (301)
T 2qnr_A           72 RGVKLRLTVVDTPGYGDAINCRDCF-KTIISYIDEQFER-YLHDESGLNRRHIIDNRVHCCFYF-ISPFGHGLKPLDVAF  148 (301)
T ss_dssp             --CCEEEEEEEEC-----------C-TTHHHHHHHHHHH-HHHHHTSSCCTTCCCCCCCEEEEE-ECSSSSSCCHHHHHH
T ss_pred             CCcccCcchhhhhhhhhhcCcHHHH-HHHHHHHHHHHHH-HHHHhCHHhhhhhhhhhhhheeee-ecCcccCCCHHHHHH
Confidence            4567899999999999988776677 5777766654421 111122334457899999999999 999999999999999


Q ss_pred             HHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhcc
Q psy8479         612 MKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVLP  648 (650)
Q Consensus       612 mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l~  648 (650)
                      |++++..+++++|++|+|+++..++..+|+.|++.+.
T Consensus       149 l~~l~~~~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~  185 (301)
T 2qnr_A          149 MKAIHNKVNIVPVIAKADTLTLKERERLKKRILDEIE  185 (301)
T ss_dssp             HHHHTTTSCEEEEECCGGGSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCEEEEEEeCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999989988877643

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.05  E-value=1.1e-09  Score=106.73  Aligned_cols=145  Identities=16%  Similarity=0.170  Sum_probs=93.0

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEE-eeCCceeec---c----hhHHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYE-LQENNVKLK---E----DSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~-l~e~g~~L~---~----~~w~~Ii~yI~~qf~~y  178 (650)
                      -+.+ +|.+|+|||||||+|++.......+..++.|..+....+. ..+..+.|.   +    .........+......|
T Consensus        31 ~i~v-~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~  109 (223)
T 4dhe_A           31 EIAF-AGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSY  109 (223)
T ss_dssp             EEEE-EESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHH
T ss_pred             EEEE-EcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHH
Confidence            3455 9999999999999999987544445555555544322221 111122222   1    01111111112222344


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHH-
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTS-  256 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~-  256 (650)
                      +..     .       ..+|+++|++..+ +++...+..++++|.. .+++|.|++|+|.+...++......+.+.+.. 
T Consensus       110 ~~~-----~-------~~~d~vi~v~d~~-~~~~~~~~~~~~~l~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~  176 (223)
T 4dhe_A          110 LQT-----R-------PQLCGMILMMDAR-RPLTELDRRMIEWFAPTGKPIHSLLTKCDKLTRQESINALRATQKSLDAY  176 (223)
T ss_dssp             HHH-----C-------TTEEEEEEEEETT-SCCCHHHHHHHHHHGGGCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHH
T ss_pred             Hhc-----C-------cCcCEEEEEEeCC-CCCCHHHHHHHHHHHhcCCCEEEEEeccccCChhhHHHHHHHHHHHHHhh
Confidence            433     1       1367889988865 5788999999999985 67999999999999999988888878777766 


Q ss_pred             ------CCCcEEeCC
Q psy8479         257 ------NGVHIYEFP  265 (650)
Q Consensus       257 ------~~I~if~f~  265 (650)
                            .++.+|...
T Consensus       177 ~~~~~~~~~~~~~~S  191 (223)
T 4dhe_A          177 RDAGYAGKLTVQLFS  191 (223)
T ss_dssp             HHHTCCSCEEEEEEB
T ss_pred             hhcccCCCCeEEEee
Confidence                  456677665

>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=98.96  E-value=4.2e-09  Score=100.13  Aligned_cols=141  Identities=18%  Similarity=0.210  Sum_probs=82.1

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-----hhHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-----DSFKSIVDYIDNQFEAYL  179 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-----~~w~~Ii~yI~~qf~~yL  179 (650)
                      +.+ +|.+|+|||||||+|++..+....+..++.|..+....  + +..+.+.   +     ........ .......|+
T Consensus        26 i~v-~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~--~-~~~~~l~Dt~G~~~~~~~~~~~~~-~~~~~~~~~  100 (195)
T 1svi_A           26 IAL-AGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYI--I-NDELHFVDVPGYGFAKVSKSEREA-WGRMIETYI  100 (195)
T ss_dssp             EEE-EEBTTSSHHHHHHHHHTC-------------CCEEEEE--E-TTTEEEEECCCBCCCSSCHHHHHH-HHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEE--E-CCcEEEEECCCCCccccCHHHHHH-HHHHHHHHH
Confidence            344 99999999999999999875555455555554443222  1 2222222   1     00000000 011112222


Q ss_pred             HHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHH-C
Q psy8479         180 QEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTS-N  257 (650)
Q Consensus       180 ~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~-~  257 (650)
                      ..            -..+|+++|++..+ +++...++.+++++.. .++++.|++|+|.+...++......+++.+.. .
T Consensus       101 ~~------------~~~~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~  167 (195)
T 1svi_A          101 TT------------REELKAVVQIVDLR-HAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDP  167 (195)
T ss_dssp             HH------------CTTEEEEEEEEETT-SCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCT
T ss_pred             hh------------hhcCCEEEEEEECC-CCCCHHHHHHHHHHHHcCCCEEEEEECcccCChHHHHHHHHHHHHHHcccC
Confidence            21            02468899998865 5688888888899874 67999999999999988887777777776764 4


Q ss_pred             CCcEEeCCC
Q psy8479         258 GVHIYEFPT  266 (650)
Q Consensus       258 ~I~if~f~~  266 (650)
                      ++.+|....
T Consensus       168 ~~~~~~~Sa  176 (195)
T 1svi_A          168 EDELILFSS  176 (195)
T ss_dssp             TSEEEECCT
T ss_pred             CCceEEEEc
Confidence            677877753

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.90  E-value=1.2e-08  Score=96.40  Aligned_cols=137  Identities=16%  Similarity=0.189  Sum_probs=88.8

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEE-----EeeCCceeec------chhHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTY-----ELQENNVKLK------EDSFKSIVDYIDNQFE  176 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~-----~l~e~g~~L~------~~~w~~Ii~yI~~qf~  176 (650)
                      +.+ +|.+|+|||||||.|++.. ....+..++.|..+.....     .++-.|+...      ...|..+.       .
T Consensus        26 i~v-~G~~~~GKSsli~~l~~~~-~~~~~~~~~~t~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~-------~   96 (195)
T 3pqc_A           26 VAF-VGRSNVGKSSLLNALFNRK-IAFVSKTPGKTRSINFYLVNSKYYFVDLPGYGYAKVSKKERMLWKRLV-------E   96 (195)
T ss_dssp             EEE-EEBTTSSHHHHHHHHHTSC-CSCCCSSCCCCCCEEEEEETTTEEEEECCCBSSSCCCHHHHHHHHHHH-------H
T ss_pred             EEE-ECCCCCCHHHHHHHHHcCc-cccccCCCCCccCeEEEEECCcEEEEECCCCccccCChhhHHHHHHHH-------H
Confidence            445 9999999999999999987 3333344444443322111     1222222111      11122222       2


Q ss_pred             HHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         177 AYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       177 ~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      .|+..            -..+++++|++..+ .+....+..+++++.. .++++.|++|+|.+...++......+++.+.
T Consensus        97 ~~~~~------------~~~~~~vi~v~d~~-~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~  163 (195)
T 3pqc_A           97 DYFKN------------RWSLQMVFLLVDGR-IPPQDSDLMMVEWMKSLNIPFTIVLTKMDKVKMSERAKKLEEHRKVFS  163 (195)
T ss_dssp             HHHHH------------CTTEEEEEEEEETT-SCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHH
T ss_pred             HHHhc------------CcCceEEEEEecCC-CCCCHHHHHHHHHHHHcCCCEEEEEEChhcCChHHHHHHHHHHHHHHh
Confidence            22221            03468888888764 5778888888888885 6799999999999998888888888887777


Q ss_pred             H-CCCcEEeCCC
Q psy8479         256 S-NGVHIYEFPT  266 (650)
Q Consensus       256 ~-~~I~if~f~~  266 (650)
                      . .++.+|....
T Consensus       164 ~~~~~~~~~~Sa  175 (195)
T 3pqc_A          164 KYGEYTIIPTSS  175 (195)
T ss_dssp             SSCCSCEEECCT
T ss_pred             hcCCCceEEEec
Confidence            6 4478887763

>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=98.76  E-value=2e-08  Score=100.11  Aligned_cols=142  Identities=12%  Similarity=0.126  Sum_probs=72.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHH--HHH-HHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFK--SIV-DYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~--~Ii-~yI~~qf~~yL~eE~~i~R  187 (650)
                      ||.+|+|||||||+|++...........+.|.......+.+.+..+.|. ...+.  ... .-+...+..++.      +
T Consensus        35 vG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~------~  108 (239)
T 3lxx_A           35 VGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELVVVDTPGIFDTEVPNAETSKEIIRCIL------L  108 (239)
T ss_dssp             ECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETTEEEEEEECCSCC-----CHHHHHHHHHHHH------H
T ss_pred             ECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCCceEEEEECCCccCCCCCHHHHHHHHHHHHH------h
Confidence            9999999999999999987744321111122211111222222222222 11100  000 000011111111      1


Q ss_pred             cccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc------CCCeeeeeecccCCCHHHHHHHH----HHHHHHHHHC
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS------KVNIIPIIAKADTISKSELQKFK----TNIMTELTSN  257 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~------~vnvIPVItKAD~Lt~~El~~~K----~~I~~~L~~~  257 (650)
                           .-..+|++||+++.+  ++...+..+++++..      ..++|.|+||+|.+...++..+.    ..+++.++..
T Consensus       109 -----~~~~~~~~l~v~d~~--~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~  181 (239)
T 3lxx_A          109 -----TSPGPHALLLVVPLG--RYTEEEHKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIF  181 (239)
T ss_dssp             -----TTTCCSEEEEEEETT--CCSSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------CHHHHHHHHHH
T ss_pred             -----cCCCCcEEEEEeeCC--CCCHHHHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHc
Confidence                 113578999999864  566778888877742      34899999999999877666433    2455566667


Q ss_pred             CCcEEeCCC
Q psy8479         258 GVHIYEFPT  266 (650)
Q Consensus       258 ~I~if~f~~  266 (650)
                      +..++.|..
T Consensus       182 ~~~~~~~~~  190 (239)
T 3lxx_A          182 GDRYCALNN  190 (239)
T ss_dssp             SSSEEECCT
T ss_pred             CCEEEEEEC
Confidence            777777754

>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=98.73  E-value=6.7e-08  Score=100.85  Aligned_cols=151  Identities=17%  Similarity=0.190  Sum_probs=86.9

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEE---------EeeCCceeecchhHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTY---------ELQENNVKLKEDSFKSIVDYIDNQFEAYL  179 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~---------~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL  179 (650)
                      ++ +|++|+|||||+|+|++.++... +..++.|.......+         .++..|+. ....|..+-.++......|+
T Consensus        14 ~i-vG~~nvGKSTLin~l~g~~~~i~-s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~-~~~~~~~l~~~~~~~~~~~l   90 (308)
T 3iev_A           14 AI-VGKPNVGKSTLLNNLLGTKVSII-SPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIY-EPKKSDVLGHSMVEIAKQSL   90 (308)
T ss_dssp             EE-ECSTTSSHHHHHHHHHTSCCSCC-CSSSCCCCSCEEEEEEETTTEEEEEEECCCCC-CCCTTCHHHHHHHHHHHHHH
T ss_pred             EE-ECCCCCcHHHHHHHHhCCCcccc-CCCCCceeeEEEEEEecCCCCeEEEEECcCCC-ccccchhHHHHHHHHHHHHh
Confidence            44 99999999999999999876532 222222221110011         11222211 01234444444444433333


Q ss_pred             HHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHH-HHHhcc-CCCeeeeeecccCC-CHHHHHHHHHHHHHHHHH
Q psy8479         180 QEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVC-MKKLDS-KVNIIPIIAKADTI-SKSELQKFKTNIMTELTS  256 (650)
Q Consensus       180 ~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~-mk~L~~-~vnvIPVItKAD~L-t~~El~~~K~~I~~~L~~  256 (650)
                      .               .+|+++|++.++ ++....+..+ ++.|.. .+++|.|++|+|.+ ....+....+.+.+.+. 
T Consensus        91 ~---------------~aD~il~VvD~~-~~~~~~~~~~~~~~l~~~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~-  153 (308)
T 3iev_A           91 E---------------EADVILFMIDAT-EGWRPRDEEIYQNFIKPLNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHP-  153 (308)
T ss_dssp             H---------------HCSEEEEEEETT-TBSCHHHHHHHHHHTGGGCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCT-
T ss_pred             h---------------cCCEEEEEEeCC-CCCCchhHHHHHHHHHhcCCCEEEEEECccCCCCHHHHHHHHHHHHHhcc-
Confidence            2               257899999875 5677778777 888875 67999999999998 66665555555544432 


Q ss_pred             CCCcEEeCCC-CchhHHHHHHHhh
Q psy8479         257 NGVHIYEFPT-DDETMSDVNAAMT  279 (650)
Q Consensus       257 ~~I~if~f~~-d~~~~~~~~~~~~  279 (650)
                      ....+|.... ......++...+.
T Consensus       154 ~~~~i~~vSA~~g~gv~~L~~~l~  177 (308)
T 3iev_A          154 ELTEIVPISALKGANLDELVKTIL  177 (308)
T ss_dssp             TCCCEEECBTTTTBSHHHHHHHHH
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHH
Confidence            2256776653 2233444443333

>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=98.70  E-value=7.4e-08  Score=100.52  Aligned_cols=112  Identities=19%  Similarity=0.272  Sum_probs=66.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-------chhHHHHHHHHHHHHHHHHHHHHh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-------EDSFKSIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-------~~~w~~Ii~yI~~qf~~yL~eE~~  184 (650)
                      ||++|+|||||+|+|++.++... +..++.|....  ...+..++..+.       ...-..+-.++......|      
T Consensus        13 vG~~nvGKSTLln~l~g~~~~iv-s~~~~tTr~~i--~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~------   83 (301)
T 1wf3_A           13 VGKPNVGKSTLLNNLLGVKVAPI-SPRPQTTRKRL--RGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEA------   83 (301)
T ss_dssp             ECSTTSSHHHHHHHHHTSCCSCC-CSSSCCCCSCE--EEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHH------
T ss_pred             ECCCCCCHHHHHHHHhCCceeee-cCCCCceeEEE--EEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHH------
Confidence            99999999999999999876432 22222221100  000111222222       011112222222221111      


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc---CCCeeeeeecccCCCHHH
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS---KVNIIPIIAKADTISKSE  242 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~---~vnvIPVItKAD~Lt~~E  242 (650)
                             +  ..+|+++|++..+ +++...|..+++.|..   .+|+|+|++|+|.....+
T Consensus        84 -------l--~~ad~il~VvD~~-~~~~~~~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~~  134 (301)
T 1wf3_A           84 -------L--ADVNAVVWVVDLR-HPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPE  134 (301)
T ss_dssp             -------T--SSCSEEEEEEETT-SCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSSHH
T ss_pred             -------H--hcCCEEEEEEECC-CCCChHHHHHHHHHHhhcCCCCEEEEEECcccCCchH
Confidence                   1  1368999999976 4588888888888875   689999999999987655

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=98.69  E-value=3.4e-08  Score=100.29  Aligned_cols=113  Identities=16%  Similarity=0.154  Sum_probs=65.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|.+|+|||||||+|++...... +..++.|.......+.+.+..+.|.    ...+..+.       +.|+..   +.+
T Consensus        42 vG~~g~GKSSLin~l~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~l~liDTpG~~~~~~~~-------~~~~~~---i~~  110 (262)
T 3def_A           42 LGKGGVGKSSTVNSLIGEQVVRV-SPFQAEGLRPVMVSRTMGGFTINIIDTPGLVEAGYVN-------HQALEL---IKG  110 (262)
T ss_dssp             EECTTSSHHHHHHHHHTSCCSCC-CSSCC-CCCCEEEEEEETTEEEEEEECCCSEETTEEC-------HHHHHH---HHH
T ss_pred             ECCCCCCHHHHHHHHhCCCCccc-CCCCCcceeeEEEEEEECCeeEEEEECCCCCCcccch-------HHHHHH---HHH
Confidence            99999999999999999875332 2222222222111222222122221    00111110       011110   111


Q ss_pred             cccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC------CCeeeeeecccCC
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK------VNIIPIIAKADTI  238 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~------vnvIPVItKAD~L  238 (650)
                      .   +...++|++||++..+..++...+..+++.|...      .++|+|++|+|..
T Consensus       111 ~---l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~  164 (262)
T 3def_A          111 F---LVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFS  164 (262)
T ss_dssp             H---TTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCC
T ss_pred             H---HhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccC
Confidence            1   2356899999998877777888888888888752      2899999999985

>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=98.56  E-value=4.6e-07  Score=87.23  Aligned_cols=131  Identities=15%  Similarity=0.227  Sum_probs=71.6

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-----------hhHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-----------DSFKSIVDY  170 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-----------~~w~~Ii~y  170 (650)
                      +|..+. +|.+|+|||||||.|++.......+..++.|..+.  .+.+.+ ++.+.   .           ..|...+  
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~--~~~~~~-~~~l~Dt~G~~~~~~~~~~~~~~~~~~--   99 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLIN--LFEVAD-GKRLVDLPGYGYAEVPEEMKRKWQRAL--   99 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCCC-------------CCEE--EEEEET-TEEEEECCCCC------CCHHHHHHHH--
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeE--EEEecC-CEEEEECcCCcccccCHHHHHHHHHHH--
Confidence            565555 99999999999999999764443344444444322  122222 33332   1           1233222  


Q ss_pred             HHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHH
Q psy8479         171 IDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTN  249 (650)
Q Consensus       171 I~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~  249 (650)
                           ..|++.    .+        ..+++++++..+ ++....+.++++++.. ..+++.|.+|+|.++..+.+.....
T Consensus       100 -----~~~~~~----~~--------~~~~~~~v~d~~-~~~~~~~~~~~~~~~~~~~~~~~v~nK~D~~s~~~~~~~~~~  161 (210)
T 1pui_A          100 -----GEYLEK----RQ--------SLQGLVVLMDIR-HPLKDLDQQMIEWAVDSNIAVLVLLTKADKLASGARKAQLNM  161 (210)
T ss_dssp             -----HHHHHH----CT--------TEEEEEEEEETT-SCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             -----HHHHHh----hh--------cccEEEEEEECC-CCCchhHHHHHHHHHHcCCCeEEEEecccCCCchhHHHHHHH
Confidence                 233322    11        235566666543 4566667677777763 5688999999999998776654555


Q ss_pred             HHHHHHHCCC
Q psy8479         250 IMTELTSNGV  259 (650)
Q Consensus       250 I~~~L~~~~I  259 (650)
                      ++..+...++
T Consensus       162 ~~~~~~~~~~  171 (210)
T 1pui_A          162 VREAVLAFNG  171 (210)
T ss_dssp             HHHHHGGGCS
T ss_pred             HHHHHHhcCC
Confidence            6666665543

>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=98.45  E-value=1.6e-07  Score=90.14  Aligned_cols=130  Identities=16%  Similarity=0.181  Sum_probs=62.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.+..  ...+.+.+..+.+.      ...+..+.       ..|+.     
T Consensus        34 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-------~~~~~-----   99 (199)
T 2p5s_A           34 AGDAAVGKSSFLMRLCKNEFRENISATLGVDFQ--MKTLIVDGERTVLQLWDTAGQERFRSIA-------KSYFR-----   99 (199)
T ss_dssp             ESSTTSSHHHHHHHHHHCCCC----------CE--EEEEEETTEEEEEEEEECTTCTTCHHHH-------HHHHH-----
T ss_pred             ECcCCCCHHHHHHHHHhCCCCccCCCCccceeE--EEEEEECCEEEEEEEEECCCCcchhhhH-------HHHHh-----
Confidence            999999999999999987654432222222221  12233333333332      12233222       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhc-cCCCeeeeeecccCCCHHHHH---H-HHHHHHHHHHHC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLD-SKVNIIPIIAKADTISKSELQ---K-FKTNIMTELTSN  257 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~~El~---~-~K~~I~~~L~~~  257 (650)
                                ..++++|++..+.. .+..+.  +..++... ..+++|.|++|+|........   . ............
T Consensus       100 ----------~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~  169 (199)
T 2p5s_A          100 ----------KADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTY  169 (199)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHH
T ss_pred             ----------hCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHc
Confidence                      14678888876531 122221  22223222 367999999999986332110   0 111222333445


Q ss_pred             CCcEEeCC
Q psy8479         258 GVHIYEFP  265 (650)
Q Consensus       258 ~I~if~f~  265 (650)
                      ++.+|...
T Consensus       170 ~~~~~~~S  177 (199)
T 2p5s_A          170 GALFCETS  177 (199)
T ss_dssp             TCEEEECC
T ss_pred             CCeEEEee
Confidence            77777765

>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=98.44  E-value=5.1e-07  Score=83.71  Aligned_cols=128  Identities=19%  Similarity=0.211  Sum_probs=69.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.+...  ..+.+.+.++.+.      ...+..+.       ..|+.     
T Consensus        21 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------~~~~~-----   86 (179)
T 1z0f_A           21 IGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGT--RIIEVSGQKIKLQIWDTAGQERFRAVT-------RSYYR-----   86 (179)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEE--EEEEETTEEEEEEEEECTTGGGTCHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEE--EEEEECCeEEEEEEEECCCChHhhhhH-------HHHhc-----
Confidence            9999999999999999887654333333322222  2233333333332      12222222       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchH-HH---HHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDL-VC---MKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI-~~---mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..|+++|++..+.. ....++ .+   ++.+. ...+++.|++|+|.....+.  ....+.+.+...++.
T Consensus        87 ----------~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  153 (179)
T 1z0f_A           87 ----------GAAGALMVYDITRR-STYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDV--TYEEAKQFAEENGLL  153 (179)
T ss_dssp             ----------TCSEEEEEEETTCH-HHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCS--CHHHHHHHHHHTTCE
T ss_pred             ----------cCCEEEEEEeCcCH-HHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccccc--CHHHHHHHHHHcCCE
Confidence                      24788999886532 111111 22   22222 46789999999998643221  122334445567888


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      +|....
T Consensus       154 ~~~~Sa  159 (179)
T 1z0f_A          154 FLEASA  159 (179)
T ss_dssp             EEECCT
T ss_pred             EEEEeC
Confidence            887753

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.43  E-value=1.4e-09  Score=116.82  Aligned_cols=145  Identities=16%  Similarity=0.175  Sum_probs=83.8

Q ss_pred             cCCCCCCcccccccccCCCCceeecCCCCCChhhHhhhhhCcC----CCCCCCCCCCCcEEEEEEEEEeeCCceeec---
Q psy8479          88 VNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTS----FESTPSPHSLPSVKLKAHTYELQENNVKLK---  160 (650)
Q Consensus        88 vG~~~lp~Q~~rk~~~~k~g~~FnVG~SGvGKSTlINtLf~~~----~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---  160 (650)
                      .|+..|-+.+.+....  +-+.+ ||.+|+|||||||+|++..    .....+..++.|.....  +.+.. ++.+.   
T Consensus       147 ~gi~~L~~~I~~~~~~--~~i~~-vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~--~~~~~-~~~liDtP  220 (369)
T 3ec1_A          147 IGMAKVMEAINRYREG--GDVYV-VGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIE--IPLES-GATLYDTP  220 (369)
T ss_dssp             BTHHHHHHHHHHHHTT--SCEEE-ECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEE--EECST-TCEEEECC
T ss_pred             CCHHHHHHHHHhhccc--CcEEE-EcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeEE--EEeCC-CeEEEeCC
Confidence            3444444444332222  34556 9999999999999999971    12223445555655432  22222 23322   


Q ss_pred             ch-hHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCC----CCCCcchHHHHHHhc-cCCCeeeeeec
Q psy8479         161 ED-SFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTG----HGLKSLDLVCMKKLD-SKVNIIPIIAK  234 (650)
Q Consensus       161 ~~-~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~----h~Lk~lDI~~mk~L~-~~vnvIPVItK  234 (650)
                      +. ....+..++..++         +..   .+.+.++|+++|++.|..    .+|..+|     .|. .++++++|++|
T Consensus       221 G~~~~~~~~~~l~~~~---------l~~---~~~~~~i~~~~~~l~~~~~~~~g~l~~l~-----~l~~~~~~~~~v~~k  283 (369)
T 3ec1_A          221 GIINHHQMAHFVDARD---------LKI---ITPKREIHPRVYQLNEGQTLFFGGLARLD-----YIKGGRRSFVCYMAN  283 (369)
T ss_dssp             SCCCCSSGGGGSCTTT---------HHH---HSCSSCCCCEEEEECTTEEEEETTTEEEE-----EEESSSEEEEEEECT
T ss_pred             CcCcHHHHHHHHhHHH---------HHH---HhcccccCceEEEEcCCceEEECCEEEEE-----EccCCCceEEEEecC
Confidence            10 0011111111111         111   246788999999999841    1444433     454 35799999999


Q ss_pred             ccCCCHHHHHHHHHHHHHHHH
Q psy8479         235 ADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       235 AD~Lt~~El~~~K~~I~~~L~  255 (650)
                      +|++...++......+.+.+.
T Consensus       284 ~d~~~~~~~~~~~~~~~~~~g  304 (369)
T 3ec1_A          284 ELTVHRTKLEKADSLYANQLG  304 (369)
T ss_dssp             TSCEEEEEGGGHHHHHHHHBT
T ss_pred             CcccccccHHHHHHHHHHhcC
Confidence            999999888888887776653

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.40  E-value=3.8e-09  Score=113.42  Aligned_cols=132  Identities=15%  Similarity=0.147  Sum_probs=74.9

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCC-----CCCCCCCCcEEEEEEEEEeeCCceeec---ch-hHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFES-----TPSPHSLPSVKLKAHTYELQENNVKLK---ED-SFKSIVDYIDNQFEA  177 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~-----~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~-~w~~Ii~yI~~qf~~  177 (650)
                      -+.+ ||.+|+|||||||+|++.....     ..+..++.|....  .+.+.. ++.+.   +. ....+..|+.     
T Consensus       162 ~i~~-vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~--~~~~~~-~~~liDtPG~~~~~~~~~~l~-----  232 (368)
T 3h2y_A          162 DVYV-VGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLI--DIPLDE-ESSLYDTPGIINHHQMAHYVG-----  232 (368)
T ss_dssp             CEEE-EEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEE--EEESSS-SCEEEECCCBCCTTSGGGGSC-----
T ss_pred             eEEE-ecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceE--EEEecC-CeEEEeCCCcCcHHHHHHHhh-----
Confidence            4556 9999999999999999974322     2344455555443  222322 23332   10 0011121111     


Q ss_pred             HHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         178 YLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       178 yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                         .+ .+..   .+...++|+++|++.|... +-.-++..+..|. .++++++|++|+|++...++......+.+.+.
T Consensus       233 ---~~-~l~~---~~~~~~i~~~~~~l~~~~~-~~~g~l~~~d~l~~~~~~~~~v~nk~d~~~~~~~~~~~~~~~~~~g  303 (368)
T 3h2y_A          233 ---KQ-SLKL---ITPTKEIKPMVFQLNEEQT-LFFSGLARFDYVSGGRRAFTCHFSNRLTIHRTKLEKADELYKNHAG  303 (368)
T ss_dssp             ---HH-HHHH---HSCSSCCCCEEEEECTTEE-EEETTTEEEEEEESSSEEEEEEECTTSCEEEEEHHHHHHHHHHHBT
T ss_pred             ---HH-HHHH---hccccccCceEEEEcCCCE-EEEcceEEEEEecCCCceEEEEecCccccccccHHHHHHHHHHHhC
Confidence               11 1111   2456789999999998421 1111222244455 36799999999999999988888877776554

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.37  E-value=2.4e-07  Score=84.59  Aligned_cols=115  Identities=17%  Similarity=0.127  Sum_probs=61.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-hhHHHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-DSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +.+ +|.+|+|||||||.|++..... ....++.|.......+.+.+..+.+.   + .....+...+...+..|+    
T Consensus         4 i~v-~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~----   77 (161)
T 2dyk_A            4 VVI-VGRPNVGKSSLFNRLLKKRSAV-VADVPGVTRDLKEGVVETDRGRFLLVDTGGLWSGDKWEKKIQEKVDRAL----   77 (161)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHHCCC------------CCEEEEEEETTEEEEEEECGGGCSSSSCCHHHHHHHHHHT----
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCeee-ccCCCCceecceEEEEEeCCceEEEEECCCCCCccchHHHHHHHHHHHH----
Confidence            345 9999999999999999876432 12222222222222233322222222   1 110001111111111111    


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISK  240 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~  240 (650)
                                 ...|+++|++..+ .++...+..+++++.. ..+++.|++|+|....
T Consensus        78 -----------~~~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  123 (161)
T 2dyk_A           78 -----------EDAEVVLFAVDGR-AELTQADYEVAEYLRRKGKPVILVATKVDDPKH  123 (161)
T ss_dssp             -----------TTCSEEEEEEESS-SCCCHHHHHHHHHHHHHTCCEEEEEECCCSGGG
T ss_pred             -----------HhCCEEEEEEECC-CcccHhHHHHHHHHHhcCCCEEEEEECcccccc
Confidence                       1357899999875 4577777777888774 7899999999998765

>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=98.37  E-value=7.5e-07  Score=83.07  Aligned_cols=140  Identities=14%  Similarity=0.181  Sum_probs=73.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.+...  ..+.+.+.++.+.      ...+..+.       ..|+      
T Consensus        18 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   82 (181)
T 2efe_B           18 LGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFS--QTLAVNDATVKFEIWDTAGQERYHSLA-------PMYY------   82 (181)
T ss_dssp             ECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEE--EEEEETTEEEEEEEEECCCSGGGGGGT-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEE--EEEEECCEEEEEEEEeCCCChhhhhhh-------HHHh------
Confidence            9999999999999999876654332333322222  2233333233322      12222221       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                               ...|+++|++..+...--.....++..+.    ..++++.|++|+|.....+.  ....+.+.+..+++.+
T Consensus        83 ---------~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~  151 (181)
T 2efe_B           83 ---------RGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKV--TAEDAQTYAQENGLFF  151 (181)
T ss_dssp             ---------TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCS--CHHHHHHHHHHTTCEE
T ss_pred             ---------ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccC--CHHHHHHHHHHcCCEE
Confidence                     12468888888653211111123333333    26689999999998754321  1223344455678888


Q ss_pred             EeCCC-CchhHHHHHHH
Q psy8479         262 YEFPT-DDETMSDVNAA  277 (650)
Q Consensus       262 f~f~~-d~~~~~~~~~~  277 (650)
                      |.... ......++...
T Consensus       152 ~~~Sa~~g~gi~~l~~~  168 (181)
T 2efe_B          152 METSAKTATNVKEIFYE  168 (181)
T ss_dssp             EECCSSSCTTHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHH
Confidence            87763 22334444333

>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=98.36  E-value=4.2e-07  Score=83.41  Aligned_cols=130  Identities=18%  Similarity=0.247  Sum_probs=68.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+.....+..+.  ......+.+.+.++.+.      ...|..+.       ..|+      
T Consensus         9 ~G~~~~GKssli~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~-------~~~~------   73 (170)
T 1ek0_A            9 LGEAAVGKSSIVLRFVSNDFAENKEPTIGA--AFLTQRVTINEHTVKFEIWDTAGQERFASLA-------PXYY------   73 (170)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCTTCCCCSSE--EEEEEEEEETTEEEEEEEEEECCSGGGGGGH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCCccce--eEEEEEEEECCEEEEEEEEECCCChhhhhhh-------hhhh------
Confidence            999999999999999987755433333332  22222334433333332      22333322       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh----ccCCCeeeeeecccCCCHHHHHH-HHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL----DSKVNIIPIIAKADTISKSELQK-FKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L----~~~vnvIPVItKAD~Lt~~El~~-~K~~I~~~L~~~~I  259 (650)
                       +        ..|+++|++..+.. .+..+. .++..+    ...++++.|++|+|.+...+... ......+.....++
T Consensus        74 -~--------~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~  143 (170)
T 1ek0_A           74 -R--------NAQAALVVYDVTKPQSFIKAR-HWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGL  143 (170)
T ss_dssp             -T--------TCSEEEEEEETTCHHHHHHHH-HHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTC
T ss_pred             -c--------cCcEEEEEEecCChHHHHHHH-HHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCC
Confidence             1        24688888886532 122211 122222    24678999999999875411111 11122223344577


Q ss_pred             cEEeCCC
Q psy8479         260 HIYEFPT  266 (650)
Q Consensus       260 ~if~f~~  266 (650)
                      .+|....
T Consensus       144 ~~~~~Sa  150 (170)
T 1ek0_A          144 LFFETSA  150 (170)
T ss_dssp             EEEECCT
T ss_pred             EEEEEeC
Confidence            8887763

>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=98.36  E-value=5.3e-07  Score=86.02  Aligned_cols=127  Identities=20%  Similarity=0.190  Sum_probs=68.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.+...  ..+.+.+.++.+.      ...+..+.       ..|+      
T Consensus        29 vG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   93 (192)
T 2fg5_A           29 LGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMT--KTVPCGNELHKFLIWDTAGQERFHSLA-------PMYY------   93 (192)
T ss_dssp             EECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEE--EEEECSSSEEEEEEEEECCSGGGGGGT-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEE--EEEEeCCEEEEEEEEcCCCchhhHhhh-------HHhh------
Confidence            9999999999999999887554433344333222  2333333333333      12222222       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +        ..++++|++..+... +..+ ..++..+.    ..++++.|++|+|.....+.  ....+.+.+...++.
T Consensus        94 -~--------~~d~iilV~d~~~~~s~~~~-~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v--~~~~~~~~~~~~~~~  161 (192)
T 2fg5_A           94 -R--------GSAAAVIVYDITKQDSFYTL-KKWVKELKEHGPENIVMAIAGNKCDLSDIREV--PLKDAKEYAESIGAI  161 (192)
T ss_dssp             -T--------TCSEEEEEEETTCTHHHHHH-HHHHHHHHHHSCTTCEEEEEEECGGGGGGCCS--CHHHHHHHHHTTTCE
T ss_pred             -c--------cCCEEEEEEeCCCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECccccccccc--CHHHHHHHHHHcCCE
Confidence             1        246888888765321 1111 22333332    36799999999998642211  112334444566788


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       162 ~~~~S  166 (192)
T 2fg5_A          162 VVETS  166 (192)
T ss_dssp             EEECB
T ss_pred             EEEEe
Confidence            88765

>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=98.35  E-value=6.9e-07  Score=84.70  Aligned_cols=129  Identities=15%  Similarity=0.266  Sum_probs=69.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHH-HHHHHHHHHHHHHHHHHHh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFK-SIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~-~Ii~yI~~qf~~yL~eE~~  184 (650)
                      +|.+|+|||||||.|++..+........+.+  +....+.+.+..+.+.      ...|. .+.       ..|+     
T Consensus        26 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~-------~~~~-----   91 (189)
T 1z06_A           26 IGDSNVGKTCLTYRFCAGRFPDRTEATIGVD--FRERAVDIDGERIKIQLWDTAGQERFRKSMV-------QHYY-----   91 (189)
T ss_dssp             ECCTTSSHHHHHHHHHHSSCCSSCCCCCSCC--EEEEEEEETTEEEEEEEEECCCSHHHHTTTH-------HHHH-----
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCCcceE--EEEEEEEECCEEEEEEEEECCCchhhhhhhh-------HHHh-----
Confidence            9999999999999999876654333332222  2222334433333333      11121 111       1111     


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCC----CCCcchHHHHHHh-ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGH----GLKSLDLVCMKKL-DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h----~Lk~lDI~~mk~L-~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                                ...|+++|++..+..    .+......+++.+ ....++|.|++|+|.....+..  ...+.......++
T Consensus        92 ----------~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~--~~~~~~~~~~~~~  159 (189)
T 1z06_A           92 ----------RNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVP--TDLAQKFADTHSM  159 (189)
T ss_dssp             ----------TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSC--HHHHHHHHHHTTC
T ss_pred             ----------cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeC--HHHHHHHHHHcCC
Confidence                      135789999986531    2232223333444 3467999999999986432211  1122233345678


Q ss_pred             cEEeCCC
Q psy8479         260 HIYEFPT  266 (650)
Q Consensus       260 ~if~f~~  266 (650)
                      .+|....
T Consensus       160 ~~~~~Sa  166 (189)
T 1z06_A          160 PLFETSA  166 (189)
T ss_dssp             CEEECCS
T ss_pred             EEEEEeC
Confidence            8887753

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=98.35  E-value=7.7e-07  Score=84.45  Aligned_cols=129  Identities=14%  Similarity=0.199  Sum_probs=71.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCC-CCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFES-TPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQ  180 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~-~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~  180 (650)
                      +.+ +|.+|+|||||||.|++..+.. ....+.+    +....+  ...++.+.      ...+..+.            
T Consensus        20 i~v-~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~----~~~~~~--~~~~~~~~i~Dt~G~~~~~~~~------------   80 (199)
T 4bas_A           20 VVM-CGLDNSGKTTIINQVKPAQSSSKHITATVG----YNVETF--EKGRVAFTVFDMGGAKKFRGLW------------   80 (199)
T ss_dssp             EEE-ECCTTSCHHHHHHHHSCCC----CCCCCSS----EEEEEE--EETTEEEEEEEECCSGGGGGGG------------
T ss_pred             EEE-ECCCCCCHHHHHHHHhcCCCcccccccccc----eeEEEE--EeCCEEEEEEECCCCHhHHHHH------------
Confidence            344 9999999999999999987655 2222222    222222  23333333      11222211            


Q ss_pred             HHHhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhcc-----------CCCeeeeeecccCCCHHHHHHHHH
Q psy8479         181 EELKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLDS-----------KVNIIPIIAKADTISKSELQKFKT  248 (650)
Q Consensus       181 eE~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~~-----------~vnvIPVItKAD~Lt~~El~~~K~  248 (650)
                            ..  .+  ...|+++|++..+.. .+..++..+...+..           .+++|.|++|+|.........+.+
T Consensus        81 ------~~--~~--~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~  150 (199)
T 4bas_A           81 ------ET--YY--DNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVE  150 (199)
T ss_dssp             ------GG--GC--TTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHH
T ss_pred             ------HH--HH--hcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHH
Confidence                  11  11  246789999987632 244554444445443           789999999999987633333333


Q ss_pred             HHH-HHH-HHCCCcEEeCC
Q psy8479         249 NIM-TEL-TSNGVHIYEFP  265 (650)
Q Consensus       249 ~I~-~~L-~~~~I~if~f~  265 (650)
                      .+. ..+ ...++.+|...
T Consensus       151 ~~~~~~~~~~~~~~~~~~S  169 (199)
T 4bas_A          151 ILDLTTLMGDHPFVIFASN  169 (199)
T ss_dssp             HHTHHHHHTTSCEEEEECB
T ss_pred             HhcchhhccCCeeEEEEee
Confidence            322 112 45677777665

>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=98.34  E-value=1.4e-06  Score=87.59  Aligned_cols=42  Identities=19%  Similarity=0.133  Sum_probs=33.4

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc------CCCeeeeee-cccCCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS------KVNIIPIIA-KADTIS  239 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~------~vnvIPVIt-KAD~Lt  239 (650)
                      ..|+++|++..+.  +...+..++++|..      ..++|.|++ |+|...
T Consensus       105 ~~d~il~V~d~~~--~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~  153 (260)
T 2xtp_A          105 GPHVLLLVTQLGR--YTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNG  153 (260)
T ss_dssp             CCSEEEEEEETTC--CCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTT
T ss_pred             CCcEEEEEEeCCC--CCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCC
Confidence            4689999999863  78888877777764      468889999 999874

>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=98.34  E-value=1.1e-06  Score=86.36  Aligned_cols=69  Identities=20%  Similarity=0.200  Sum_probs=43.0

Q ss_pred             eEEEEEEcCCCC-CCC-cchHHHHHHhcc---CCCeeeeeecccCCCHHHHHHHHH-HHHHHHHHCC--CcEEeCCC
Q psy8479         198 HVCLYFICPTGH-GLK-SLDLVCMKKLDS---KVNIIPIIAKADTISKSELQKFKT-NIMTELTSNG--VHIYEFPT  266 (650)
Q Consensus       198 H~cLYfI~ps~h-~Lk-~lDI~~mk~L~~---~vnvIPVItKAD~Lt~~El~~~K~-~I~~~L~~~~--I~if~f~~  266 (650)
                      ++++|++..+.. .+. ..++.+++.+..   .+++|.|++|+|.+...++..... .+...+...+  +.+|.+..
T Consensus       110 d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA  186 (228)
T 2qu8_A          110 GVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFST  186 (228)
T ss_dssp             EEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCT
T ss_pred             cEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEEec
Confidence            689999887642 222 234567777765   679999999999987655433222 3333334455  77887753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.33  E-value=1.6e-06  Score=97.82  Aligned_cols=56  Identities=14%  Similarity=0.206  Sum_probs=47.5

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIM  251 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~  251 (650)
                      ++|+++|++.++..++...+..+++.|.. ..++++|++|+|.++..++......++
T Consensus       188 ~aD~il~VvDa~~~~~~~~~~~~l~~l~~~~~pvilVlNK~Dl~~~~el~~~~~~l~  244 (550)
T 2qpt_A          188 RVDLIILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVETQQLMRVYGALM  244 (550)
T ss_dssp             HCSEEEEEEETTSCCCCHHHHHHHHHTTTCGGGEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             hCCEEEEEEeCCcCCCCHHHHHHHHHHHhcCCCEEEEEECCCccCHHHHHHHHHHhh
Confidence            46899999998776788888999999985 469999999999999988877766664

>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=98.33  E-value=1.1e-06  Score=80.08  Aligned_cols=128  Identities=17%  Similarity=0.201  Sum_probs=67.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+   ......+.+.+..+.+.      ...|..+.       ..|+.     
T Consensus         9 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~-------~~~~~-----   73 (167)
T 1kao_A            9 LGSGGVGKSALTVQFVTGTFIEKYDPTIE---DFYRKEIEVDSSPSVLEILDTAGTEQFASMR-------DLYIK-----   73 (167)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCSCCCTTCC---EEEEEEEEETTEEEEEEEEECCCTTCCHHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHcCCCcccCCCCcc---eeEEEEEEECCEEEEEEEEECCCchhhHHHH-------HHHhc-----
Confidence            99999999999999998765443222221   11122333433333232      22333332       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC----CCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH----GLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h----~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..|++++++..+..    .+......+++.+. ...+++.|++|+|.....+..  ...+.......++.
T Consensus        74 ----------~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  141 (167)
T 1kao_A           74 ----------NGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVS--SSEGRALAEEWGCP  141 (167)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSC--HHHHHHHHHHHTSC
T ss_pred             ----------cCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCC--HHHHHHHHHHhCCC
Confidence                      12567777765431    12333334444444 467999999999986543221  11222233345777


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      +|....
T Consensus       142 ~~~~Sa  147 (167)
T 1kao_A          142 FMETSA  147 (167)
T ss_dssp             EEEECT
T ss_pred             EEEecC
Confidence            877654

>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=98.33  E-value=6.2e-07  Score=81.87  Aligned_cols=127  Identities=16%  Similarity=0.189  Sum_probs=64.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+......+.+.+  . ...+.+.+..+.+.      ...+..+.       ..|+.     
T Consensus        10 ~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~--~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~-------~~~~~-----   74 (168)
T 1u8z_A           10 VGSGGVGKSALTLQFMYDEFVEDYEPTKADS--Y-RKKVVLDGEEVQIDILDTAGQEDYAAIR-------DNYFR-----   74 (168)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCSCCCTTCCEE--E-EEEEEETTEEEEEEEEECCC---CHHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHhCccCCCCCCCcceE--E-EEEEEECCEEEEEEEEECCCcchhHHHH-------HHHhh-----
Confidence            9999999999999999877543322222111  1 11233333333332      11222222       22221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..+++++++..+.. .+..+.   ..+++... ...+++.|++|+|.....+.  ....+...+...++.
T Consensus        75 ----------~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  142 (168)
T 1u8z_A           75 ----------SGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV--SVEEAKNRADQWNVN  142 (168)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCS--CHHHHHHHHHHHTCE
T ss_pred             ----------cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCcc--CHHHHHHHHHHcCCe
Confidence                      13577777775421 111111   12222222 26799999999998653221  112233444556778


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       143 ~~~~S  147 (168)
T 1u8z_A          143 YVETS  147 (168)
T ss_dssp             EEECC
T ss_pred             EEEeC
Confidence            88775

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=98.32  E-value=2.9e-06  Score=88.33  Aligned_cols=141  Identities=14%  Similarity=0.223  Sum_probs=77.4

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      .+ +|.+|+|||||+|.|++... ...+..++.|+.+....+.+.+ ++.+.   ..+..   .|.    +.|+..   +
T Consensus         7 ~l-vG~~~vGKSSLi~~l~~~~~-~~~~~~~~~Ti~~~~~~~~~~~-~~~l~i~Dt~G~~---~~~----~~~~~~---~   73 (307)
T 3r7w_A            7 LL-MGRSGSGKSSMRSIIFSNYS-AFDTRRLGATIDVEHSHLRFLG-NMTLNLWDCGGQD---VFM----ENYFTK---Q   73 (307)
T ss_dssp             EE-ECCTTSSHHHHHHHHHSCCC-TGGGGGCCCCCSEEEEEEEETT-TEEEEEEEECCSH---HHH----HHHHTT---T
T ss_pred             EE-ECCCCCCHHHHHHHHHhCCC-CccccCcCCccceEEEEEEeCC-ceEEEEEECCCcH---HHh----hhhhhh---H
Confidence            44 99999999999999998632 2223345556655544444432 44443   11111   111    111111   0


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHh---ccCCCeeeeeecccCCCHHHHH----HHHHHHHHHHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKL---DSKVNIIPIIAKADTISKSELQ----KFKTNIMTELT  255 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L---~~~vnvIPVItKAD~Lt~~El~----~~K~~I~~~L~  255 (650)
                      .+.  .+  ...++++|++..+.. .+..+.  ...++.+   ...++++.|++|+|....++..    .....+.+...
T Consensus        74 ~~~--~~--~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~  149 (307)
T 3r7w_A           74 KDH--IF--QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSS  149 (307)
T ss_dssp             HHH--HH--TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHH--Hh--ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHH
Confidence            010  01  135789999987532 112221  1223333   2378999999999999866655    34455555556


Q ss_pred             HCC---CcEEeCCC
Q psy8479         256 SNG---VHIYEFPT  266 (650)
Q Consensus       256 ~~~---I~if~f~~  266 (650)
                      ..+   +.+|....
T Consensus       150 ~~g~~~~~~~~tSa  163 (307)
T 3r7w_A          150 EFGFPNLIGFPTSI  163 (307)
T ss_dssp             TTTCCSCEEEECCT
T ss_pred             HcCCCCeEEEEeee
Confidence            665   67776653

>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=98.31  E-value=1e-06  Score=81.14  Aligned_cols=125  Identities=16%  Similarity=0.225  Sum_probs=69.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+... .    +|..+....+.+.  ++.+.      ...+..+.                 
T Consensus        13 ~G~~~~GKssl~~~l~~~~~~~~-~----~t~~~~~~~~~~~--~~~~~~~Dt~G~~~~~~~~-----------------   68 (171)
T 1upt_A           13 LGLDGAGKTTILYRLQVGEVVTT-I----PTIGFNVETVTYK--NLKFQVWDLGGLTSIRPYW-----------------   68 (171)
T ss_dssp             ECSTTSSHHHHHHHHHHSSCCCC-C----CCSSEEEEEEEET--TEEEEEEEECCCGGGGGGG-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCc-C----CcCccceEEEEEC--CEEEEEEECCCChhhhHHH-----------------
Confidence            99999999999999998765322 1    1222322333333  33332      11222211                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHH-HHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIM-TELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~-~~L~~~~I  259 (650)
                       +.  .+  ...|+++|++..+.. .+...+..+...+.    ...+++.|++|+|.....+...+.+.+. ..+...++
T Consensus        69 -~~--~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  143 (171)
T 1upt_A           69 -RC--YY--SNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKW  143 (171)
T ss_dssp             -GG--GC--TTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCE
T ss_pred             -HH--Hh--ccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCce
Confidence             11  11  246789999987542 35555555555544    3679999999999986533333333221 11223455


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       144 ~~~~~S  149 (171)
T 1upt_A          144 QIFKTS  149 (171)
T ss_dssp             EEEECC
T ss_pred             EEEECc
Confidence            666665

>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=98.29  E-value=1e-06  Score=82.28  Aligned_cols=128  Identities=15%  Similarity=0.182  Sum_probs=67.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.  .+ ...+.+.+..+.+.      ...+..+.       ..|+.     
T Consensus        24 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~--~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------~~~~~-----   88 (187)
T 2a9k_A           24 VGSGGVGKSALTLQFMYDEFVEDYEPTKAD--SY-RKKVVLDGEEVQIDILDTAGQEDYAAIR-------DNYFR-----   88 (187)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCSCCTTCCE--EE-EEEEEETTEEEEEEEEECCCTTCCHHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHhhCCCCCcCCCccce--EE-EEEEEECCEEEEEEEEECCCCcccHHHH-------HHHhc-----
Confidence            999999999999999987754332222111  11 11233333323332      22333332       22221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-C---CCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-G---LKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~---Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..|++++++..+.. .   +......+++... ..++++.|++|+|.....+.  ....+++.+...++.
T Consensus        89 ----------~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  156 (187)
T 2a9k_A           89 ----------SGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV--SVEEAKNRAEQWNVN  156 (187)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCS--CHHHHHHHHHHTTCE
T ss_pred             ----------cCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCcc--CHHHHHHHHHHcCCe
Confidence                      13577777775421 1   1111122233332 26799999999998643221  122344455667888


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      +|....
T Consensus       157 ~~~~Sa  162 (187)
T 2a9k_A          157 YVETSA  162 (187)
T ss_dssp             EEECCT
T ss_pred             EEEeCC
Confidence            887753

>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=98.29  E-value=1.2e-06  Score=80.56  Aligned_cols=128  Identities=18%  Similarity=0.194  Sum_probs=67.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+........+.+.  ....+.+...++.+.      ...+..+.       ..|+      
T Consensus        12 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~-------~~~~------   76 (170)
T 1z0j_A           12 LGDTGVGKSSIMWRFVEDSFDPNINPTIGASF--MTKTVQYQNELHKFLIWDTAGLERFRALA-------PMYY------   76 (170)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEE--EEEEEEETTEEEEEEEEEECCSGGGGGGT-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHHcCCCCCCCCCceeEEE--EEEEEEECCeEEEEEEEcCCCchhhhccc-------HhhC------
Confidence            99999999999999999876544333333322  222333333333332      12222221       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                               ...|+++|++..+... +..+ ..++..|.    ..++++.|++|+|.....+..  ...+.......++.
T Consensus        77 ---------~~~~~~i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~  144 (170)
T 1z0j_A           77 ---------RGSAAAIIVYDITKEETFSTL-KNWVRELRQHGPPSIVVAIAGNKCDLTDVREVM--ERDAKDYADSIHAI  144 (170)
T ss_dssp             ---------TTCSEEEEEEETTCHHHHHHH-HHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSC--HHHHHHHHHHTTCE
T ss_pred             ---------cCCCEEEEEEECcCHHHHHHH-HHHHHHHHHhCCCCCcEEEEEECCccccccccC--HHHHHHHHHHcCCE
Confidence                     1236888888765321 1111 22333333    345788888999987532211  11223333456778


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      +|....
T Consensus       145 ~~~~Sa  150 (170)
T 1z0j_A          145 FVETSA  150 (170)
T ss_dssp             EEECBT
T ss_pred             EEEEeC
Confidence            887653

>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=98.28  E-value=8.6e-07  Score=81.61  Aligned_cols=130  Identities=13%  Similarity=0.140  Sum_probs=66.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|.+|+|||||||.|++..+......+.+.+  +....+.+.+..+.+.   .....           .|-    .+.+.
T Consensus        12 ~G~~~~GKssli~~l~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~l~i~Dt~G~~-----------~~~----~~~~~   74 (170)
T 1z08_A           12 LGEGCVGKTSLVLRYCENKFNDKHITTLGAS--FLTKKLNIGGKRVNLAIWDTAGQE-----------RFH----ALGPI   74 (170)
T ss_dssp             ECCTTSCHHHHHHHHHHCCCCSSCCCCCSCE--EEEEEEESSSCEEEEEEEECCCC----------------------CC
T ss_pred             ECcCCCCHHHHHHHHHcCCCCcCCCCccceE--EEEEEEEECCEEEEEEEEECCCcH-----------hhh----hhHHH
Confidence            9999999999999999876554333333322  2222334443333333   11100           000    00111


Q ss_pred             ccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh----ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEe
Q psy8479         189 LNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL----DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYE  263 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L----~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~  263 (650)
                        .+  ...|+++|++..+.. .+..+. .+++.+    ...++++.|++|+|.....+..  ...+.+.....++.+|.
T Consensus        75 --~~--~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~  147 (170)
T 1z08_A           75 --YY--RDSNGAILVYDITDEDSFQKVK-NWVKELRKMLGNEICLCIVGNKIDLEKERHVS--IQEAESYAESVGAKHYH  147 (170)
T ss_dssp             --SS--TTCSEEEEEEETTCHHHHHHHH-HHHHHHHHHHGGGSEEEEEEECGGGGGGCCSC--HHHHHHHHHHTTCEEEE
T ss_pred             --Hh--ccCCEEEEEEECcCHHHHHHHH-HHHHHHHHhcCCCCeEEEEEECcccccccccC--HHHHHHHHHHcCCeEEE
Confidence              11  245788888876532 111111 222222    2467999999999986532211  12233344456777776


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       148 ~S  149 (170)
T 1z08_A          148 TS  149 (170)
T ss_dssp             EB
T ss_pred             ec
Confidence            64

>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=98.26  E-value=1.6e-06  Score=80.26  Aligned_cols=128  Identities=19%  Similarity=0.292  Sum_probs=67.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....  +..+..+....+.+.+..+.+.      ...+..+.       ..|+.     
T Consensus        20 ~G~~~~GKssli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~-------~~~~~-----   85 (179)
T 2y8e_A           20 LGEQSVGKTSLITRFMYDSFDNTYQ--ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLI-------PSYIR-----   85 (179)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCSSCC--CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGS-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCC--CceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHH-------HHHhc-----
Confidence            9999999999999999876543322  2223333333344443333332      12233222       11211     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh----ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL----DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L----~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..|+++|++..+.. .+..+. .++..+    ...++++.|++|+|.....+..  ...+...+...++.
T Consensus        86 ----------~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  152 (179)
T 2y8e_A           86 ----------DSTVAVVVYDITNTNSFHQTS-KWIDDVRTERGSDVIIMLVGNKTDLSDKRQVS--TEEGERKAKELNVM  152 (179)
T ss_dssp             ----------TCSEEEEEEETTCHHHHHTHH-HHHHHHHHHHTTSSEEEEEEECGGGGGGCCSC--HHHHHHHHHHHTCE
T ss_pred             ----------CCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCcEEEEEECCcccccCcCC--HHHHHHHHHHcCCe
Confidence                      24688888886531 122221 222222    2467999999999986532211  11223334455778


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      ++....
T Consensus       153 ~~~~Sa  158 (179)
T 2y8e_A          153 FIETSA  158 (179)
T ss_dssp             EEEEBT
T ss_pred             EEEEeC
Confidence            877653

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=98.26  E-value=1.3e-06  Score=80.15  Aligned_cols=126  Identities=15%  Similarity=0.190  Sum_probs=63.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+......+.+.+..   ..+.+....+.+.      ...+..+.       ..|+.     
T Consensus         9 ~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~---~~~~~~~~~~~~~~~Dt~G~~~~~~~~-------~~~~~-----   73 (172)
T 2erx_A            9 FGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR---QVISCDKSICTLQITDTTGSHQFPAMQ-------RLSIS-----   73 (172)
T ss_dssp             ECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE---EEEEETTEEEEEEEEECCSCSSCHHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE---EEEEECCEEEEEEEEECCCchhhHHHH-------HHhcc-----
Confidence            999999999999999987654332222221111   1122222222222      12233322       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD------SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~  258 (650)
                                ..|++++++..+... +..+ ..++..+.      ...+++.|++|+|.....+...  ..........+
T Consensus        74 ----------~~~~~i~v~d~~~~~~~~~~-~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~--~~~~~~~~~~~  140 (172)
T 2erx_A           74 ----------KGHAFILVYSITSRQSLEEL-KPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQS--SEAEALARTWK  140 (172)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHTT-HHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCH--HHHHHHHHHHT
T ss_pred             ----------cCCEEEEEEECcCHHHHHHH-HHHHHHHHHHhCCCCCCCEEEEEEccccccccccCH--HHHHHHHHHhC
Confidence                      136788888765321 2222 22222232      3579999999999865432211  11122233446


Q ss_pred             CcEEeCC
Q psy8479         259 VHIYEFP  265 (650)
Q Consensus       259 I~if~f~  265 (650)
                      +.+|...
T Consensus       141 ~~~~~~S  147 (172)
T 2erx_A          141 CAFMETS  147 (172)
T ss_dssp             CEEEECB
T ss_pred             CeEEEec
Confidence            7777665

>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=98.25  E-value=1.3e-06  Score=83.62  Aligned_cols=127  Identities=12%  Similarity=0.176  Sum_probs=67.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+  ..+....+.+.+.++.+.      ...+..+.                 
T Consensus        14 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------------   74 (203)
T 1zbd_A           14 IGNSSVGKTSFLFRYADDSFTPAFVSTVG--IDFKVKTIYRNDKRIKLQIWDTAGLERYRTIT-----------------   74 (203)
T ss_dssp             ECSTTSSHHHHHHHHHTCCCCSCCCCCCS--EEEEEEEEEETTEEEEEEEEEECCSGGGHHHH-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCcCCccc--eeEEEEEEEECCeEEEEEEEECCCchhhcchH-----------------
Confidence            99999999999999999876543222222  222222333333333333      12222221                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +.  .+  ...|+++|++..+.. .+..+ ..++..+.    ...+++.|++|+|.....+..  ...+.......++.
T Consensus        75 -~~--~~--~~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  146 (203)
T 1zbd_A           75 -TA--YY--RGAMGFILMYDITNEESFNAV-QDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVS--SERGRQLADHLGFE  146 (203)
T ss_dssp             -HT--TG--GGCSEEEEEEETTCHHHHHHH-HHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSC--HHHHHHHHHHHTCE
T ss_pred             -HH--hh--cCCCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccCcccccC--HHHHHHHHHHCCCe
Confidence             11  11  235788888886532 11111 12233332    367999999999986532211  11222233445778


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       147 ~~~~S  151 (203)
T 1zbd_A          147 FFEAS  151 (203)
T ss_dssp             EEECB
T ss_pred             EEEEE
Confidence            88765

>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=98.25  E-value=1.9e-06  Score=78.90  Aligned_cols=139  Identities=17%  Similarity=0.193  Sum_probs=71.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.  .+....+.+...++.+.      ...+..+.       ..|+      
T Consensus        12 ~G~~~~GKssli~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~-------~~~~------   76 (170)
T 1r2q_A           12 LGESAVGKSSLVLRFVKGQFHEFQESTIGA--AFLTQTVCLDDTTVKFEIWDTAGQERYHSLA-------PMYY------   76 (170)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCTTCCCCSSE--EEEEEEEEETTEEEEEEEEEECCSGGGGGGH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCccce--EEEEEEEEECCEEEEEEEEeCCCcHHhhhhh-------HHhc------
Confidence            999999999999999987654432222222  22222333333333332      12222222       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                               ...|+++|++..+.. .+..++ .++..+.    ..++++.|.+|+|.....+.  ....+.+.....++.
T Consensus        77 ---------~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  144 (170)
T 1r2q_A           77 ---------RGAQAAIVVYDITNEESFARAK-NWVKELQRQASPNIVIALSGNKADLANKRAV--DFQEAQSYADDNSLL  144 (170)
T ss_dssp             ---------TTCSEEEEEEETTCHHHHHHHH-HHHHHHHHHSCTTCEEEEEEECGGGGGGCCS--CHHHHHHHHHHTTCE
T ss_pred             ---------cCCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCcEEEEEECccCcccccc--CHHHHHHHHHHcCCe
Confidence                     124688888876532 122222 2222222    35678888899998643211  112233344557888


Q ss_pred             EEeCCC-CchhHHHHHHH
Q psy8479         261 IYEFPT-DDETMSDVNAA  277 (650)
Q Consensus       261 if~f~~-d~~~~~~~~~~  277 (650)
                      +|.... ......++...
T Consensus       145 ~~~~Sa~~g~gi~~l~~~  162 (170)
T 1r2q_A          145 FMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             EEECCTTTCTTHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHH
Confidence            887763 22334444333

>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=98.24  E-value=5.1e-07  Score=85.62  Aligned_cols=128  Identities=13%  Similarity=0.177  Sum_probs=66.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.+...  ..+.+.+.++.+.      ...+..+.                 
T Consensus        28 vG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------------   88 (189)
T 2gf9_A           28 IGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKV--KTVYRHDKRIKLQIWDTAGQERYRTIT-----------------   88 (189)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEE--EEEEETTEEEEEEEEECCSCCSSCCSG-----------------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEE--EEEEECCeEEEEEEEeCCCcHHHhhhH-----------------
Confidence            9999999999999999887654333333332222  2233333233332      11111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +.  .+  ...++++|++..+.. .+..+ ..++..+.    ...+++.|++|+|.....+..  ...+.+.....++.
T Consensus        89 -~~--~~--~~~d~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  160 (189)
T 2gf9_A           89 -TA--YY--RGAMGFLLMYDIANQESFAAV-QDWATQIKTYSWDNAQVILVGNKCDLEDERVVP--AEDGRRLADDLGFE  160 (189)
T ss_dssp             -GG--GG--TTCSEEEEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC--HHHHHHHHHHHTCE
T ss_pred             -HH--hc--cCCCEEEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccccccCCC--HHHHHHHHHHcCCe
Confidence             11  11  235788888886532 11111 12333333    367999999999986532211  11223333445777


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      +|....
T Consensus       161 ~~~~Sa  166 (189)
T 2gf9_A          161 FFEASA  166 (189)
T ss_dssp             EEECBT
T ss_pred             EEEEEC
Confidence            887653

>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=98.24  E-value=6.7e-07  Score=82.03  Aligned_cols=127  Identities=13%  Similarity=0.232  Sum_probs=65.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+......+.+...  ....+.+.+..+.+.      ...+..+.       ..|+      
T Consensus        11 ~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~--~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------~~~~------   75 (168)
T 1z2a_A           11 VGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDF--LERQIQVNDEDVRLMLWDTAGQEEFDAIT-------KAYY------   75 (168)
T ss_dssp             ECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSE--EEEEEEETTEEEEEEEECCTTGGGTTCCC-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHHcCCCCCCCCCceEEEE--EEEEEEECCEEEEEEEEcCCCcHhHHHHH-------HHHh------
Confidence            99999999999999998765433222222222  112233333223332      11121111       0111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc---cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD---SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                               ...|++++++..+... +..+. .++..+.   ...+++.|++|+|.....+.  ....+...+...++.+
T Consensus        76 ---------~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~  143 (168)
T 1z2a_A           76 ---------RGAQACVLVFSTTDRESFEAIS-SWREKVVAEVGDIPTALVQNKIDLLDDSCI--KNEEAEGLAKRLKLRF  143 (168)
T ss_dssp             ---------TTCCEEEEEEETTCHHHHHTHH-HHHHHHHHHHCSCCEEEEEECGGGGGGCSS--CHHHHHHHHHHHTCEE
T ss_pred             ---------cCCCEEEEEEECcCHHHHHHHH-HHHHHHHHhCCCCCEEEEEECcccCccccc--CHHHHHHHHHHcCCeE
Confidence                     1357888888765321 22221 1233332   47899999999998653221  0112233334457778


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       144 ~~~S  147 (168)
T 1z2a_A          144 YRTS  147 (168)
T ss_dssp             EECB
T ss_pred             EEEe
Confidence            7765

>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=98.24  E-value=2.1e-07  Score=94.69  Aligned_cols=109  Identities=14%  Similarity=0.102  Sum_probs=66.9

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---------c-----hhHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---------E-----DSFKSIVDYID  172 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---------~-----~~w~~Ii~yI~  172 (650)
                      -+.+ +|.+|+|||||+|+|++...  ..+..++.|+......+.+.+..+.+.         .     ..+..+.    
T Consensus         3 kI~l-vG~~n~GKSTL~n~L~g~~~--~v~~~pg~Tv~~~~~~~~~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~----   75 (256)
T 3iby_A            3 HALL-IGNPNCGKTTLFNALTNANQ--RVGNWPGVTVEKKTGEFLLGEHLIEITDLPGVYSLVANAEGISQDEQIA----   75 (256)
T ss_dssp             EEEE-EESTTSSHHHHHHHHHTTSE--EEEECTTSSSEEEEEEEEETTEEEEEEECCCCSSCC------CHHHHHH----
T ss_pred             EEEE-ECCCCCCHHHHHHHHHCCCC--CccCCCCceEEEEEEEEEECCeEEEEEeCCCcccccccccCCCHHHHHH----
Confidence            3566 99999999999999999753  233345556554444444333333332         1     1111121    


Q ss_pred             HHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         173 NQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       173 ~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                         ..|+..             .+.|+++|++..+.   .+..+.+..+|.. ..|+|.|++|+|.....
T Consensus        76 ---~~~~~~-------------~~~d~vi~VvDas~---~~~~~~l~~~l~~~~~pvilv~NK~Dl~~~~  126 (256)
T 3iby_A           76 ---AQSVID-------------LEYDCIINVIDACH---LERHLYLTSQLFELGKPVVVALNMMDIAEHR  126 (256)
T ss_dssp             ---HHHHHH-------------SCCSEEEEEEEGGG---HHHHHHHHHHHTTSCSCEEEEEECHHHHHHT
T ss_pred             ---HHHHhh-------------CCCCEEEEEeeCCC---chhHHHHHHHHHHcCCCEEEEEEChhcCCcC
Confidence               122211             24689999998764   3445667777765 67999999999976443

>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=98.23  E-value=1.4e-06  Score=80.87  Aligned_cols=127  Identities=17%  Similarity=0.254  Sum_probs=63.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....++.+  ..+....+.+.+..+.+.      ...+..+.                 
T Consensus        13 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-----------------   73 (177)
T 1wms_A           13 LGDGGVGKSSLMNRYVTNKFDTQLFHTIG--VEFLNKDLEVDGHFVTMQIWDTAGQERFRSLR-----------------   73 (177)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCC----CCS--EEEEEEEEEETTEEEEEEEEECCCCGGGHHHH-----------------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCcee--eeEEEEEEEECCEEEEEEEEeCCCchhhhhhH-----------------
Confidence            99999999999999998765433222222  223223333433323332      12222221                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh----c----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHH-
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL----D----SKVNIIPIIAKADTISKSELQKFKTNIMTELT-  255 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L----~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~-  255 (650)
                       ..  .+  ...|++++++..+.. .+..+. .++..+    .    ..++++.|++|+|......   ....+.+.+. 
T Consensus        74 -~~--~~--~~~~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~---~~~~~~~~~~~  144 (177)
T 1wms_A           74 -TP--FY--RGSDCCLLTFSVDDSQSFQNLS-NWKKEFIYYADVKEPESFPFVILGNKIDISERQV---STEEAQAWCRD  144 (177)
T ss_dssp             -GG--GG--TTCSEEEEEEETTCHHHHHTHH-HHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSS---CHHHHHHHHHH
T ss_pred             -HH--HH--hcCCEEEEEEECcCHHHHHHHH-HHHHHHHHHccccccCCCcEEEEEECCccccccc---CHHHHHHHHHh
Confidence             11  11  124677787765431 112111 122222    1    4569999999999862111   1112222333 


Q ss_pred             HCCCcEEeCCC
Q psy8479         256 SNGVHIYEFPT  266 (650)
Q Consensus       256 ~~~I~if~f~~  266 (650)
                      ..++.+|....
T Consensus       145 ~~~~~~~~~Sa  155 (177)
T 1wms_A          145 NGDYPYFETSA  155 (177)
T ss_dssp             TTCCCEEECCT
T ss_pred             cCCceEEEEeC
Confidence            45677887753

>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=98.22  E-value=1.8e-06  Score=80.30  Aligned_cols=129  Identities=16%  Similarity=0.293  Sum_probs=64.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+... ...+..+..+....+.+.+..+.+.      ...|..+.                 
T Consensus        16 ~G~~~~GKssli~~l~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~-----------------   77 (180)
T 2g6b_A           16 VGDSGVGKTCLLVRFKDGAFLAG-TFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVT-----------------   77 (180)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCC-CCCCCCSCEEEEEEEEETTEEEEEEEEECCCC------------------------
T ss_pred             ECcCCCCHHHHHHHHHhCCCCCC-CcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHH-----------------
Confidence            99999999999999998776432 1112222222222333333323332      11122111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       +.  .+  ...|+++|++..+.. .+..+.  +..+..+. ..++++.|++|+|.....+..  ...+.......++.+
T Consensus        78 -~~--~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~  150 (180)
T 2g6b_A           78 -HA--YY--RDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVK--REDGEKLAKEYGLPF  150 (180)
T ss_dssp             --C--CG--GGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSC--HHHHHHHHHHHTCCE
T ss_pred             -HH--Hc--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccC--HHHHHHHHHHcCCeE
Confidence             11  11  235789999886532 111111  22223322 467999999999987532111  111222233457778


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       151 ~~~S  154 (180)
T 2g6b_A          151 METS  154 (180)
T ss_dssp             EECC
T ss_pred             EEEe
Confidence            7765

>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=98.22  E-value=1.3e-06  Score=79.28  Aligned_cols=125  Identities=14%  Similarity=0.203  Sum_probs=62.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+........+.  .+ ...+.+.+..+.+.      ...|..+.       ..|+.     
T Consensus         9 ~G~~~~GKssl~~~l~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~-------~~~~~-----   73 (166)
T 2ce2_X            9 VGAGGVGKSALTIQLIQNHFVDECDPTIED--SY-RKQVVIDGETCLLDILDTAGQEEYSAMR-------DQYMR-----   73 (166)
T ss_dssp             EESTTSSHHHHHHHHHHSSCCSCCCTTCCE--EE-EEEEEETTEEEEEEEEECCCCSSCCHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHhCcCccccCCccce--EE-EEEEEECCEEEEEEEEECCCchhhhHHH-------HHhhc-----
Confidence            999999999999999987654332222211  11 11222332223222      22333333       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                                ..|++++++..+.. .+..+ ..++..+.     ...+++.|++|+|.......   ...+.+.....++
T Consensus        74 ----------~~~~~i~v~d~~~~~~~~~~-~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~~~---~~~~~~~~~~~~~  139 (166)
T 2ce2_X           74 ----------TGEGFLCVFAINNTKSFEDI-HQYREQIKRVKDSDDVPMVLVGNKSDLAARTVE---SRQAQDLARSYGI  139 (166)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHHH-HHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSC---HHHHHHHHHHHTC
T ss_pred             ----------cCCEEEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCcEEEEEEchhhhhcccC---HHHHHHHHHHcCC
Confidence                      13567777765421 11111 12222222     26799999999998763211   1122233344577


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       140 ~~~~~S  145 (166)
T 2ce2_X          140 PYIETS  145 (166)
T ss_dssp             CEEEEC
T ss_pred             eEEEec
Confidence            777765

>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=98.22  E-value=2.2e-06  Score=88.39  Aligned_cols=45  Identities=24%  Similarity=0.345  Sum_probs=35.4

Q ss_pred             eeEEEEEEcCCCCCCCcch-HHHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         197 IHVCLYFICPTGHGLKSLD-LVCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lD-I~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                      .|+++|++.++..++...+ ..+++++.. ..++|.|++|+|.+...
T Consensus       168 ~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~~i~v~NK~Dl~~~~  214 (315)
T 1jwy_B          168 QNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLDLMDKG  214 (315)
T ss_dssp             TTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTTSSCSS
T ss_pred             CCeEEEEEEecCcchhhhHHHHHHHHhCCCCCcEEEEEcCcccCCcc
Confidence            4688899887666676555 488888874 67999999999998654

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=98.22  E-value=1.4e-06  Score=82.06  Aligned_cols=67  Identities=12%  Similarity=0.073  Sum_probs=38.4

Q ss_pred             eeeEEEEEEcCCCCC-CCcchHHHHHHhcc--CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCC
Q psy8479         196 RIHVCLYFICPTGHG-LKSLDLVCMKKLDS--KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPT  266 (650)
Q Consensus       196 RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~~--~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~  266 (650)
                      +.|+++|++..+... +..+. .++..+..  ..+++.|++|+| +...+  .....+.+.+...++.+|....
T Consensus       116 ~~d~~i~v~D~~~~~s~~~~~-~~~~~i~~~~~~piilv~NK~D-~~~~~--~~~~~~~~~~~~~~~~~~~~Sa  185 (208)
T 3clv_A          116 GATCAIVVFDISNSNTLDRAK-TWVNQLKISSNYIIILVANKID-KNKFQ--VDILEVQKYAQDNNLLFIQTSA  185 (208)
T ss_dssp             TCSEEEEEEETTCHHHHHHHH-HHHHHHHHHSCCEEEEEEECTT-CC-CC--SCHHHHHHHHHHTTCEEEEECT
T ss_pred             CCCEEEEEEECCCHHHHHHHH-HHHHHHHhhCCCcEEEEEECCC-ccccc--CCHHHHHHHHHHcCCcEEEEec
Confidence            346899999875321 22211 23333432  379999999999 53211  1223445555667888887653

>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=98.22  E-value=7.9e-07  Score=84.35  Aligned_cols=128  Identities=11%  Similarity=0.150  Sum_probs=66.6

Q ss_pred             cCCCCCChhhHhhhhhCcCC-CCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSF-ESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~-~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      +|.+|+|||||||.|++... .....    +|..+....+.+.+..+.+.    ...+..+.                  
T Consensus        27 ~G~~~~GKSsli~~l~~~~~~~~~~~----~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~------------------   84 (190)
T 2h57_A           27 LGLDNSGKTTIINKLKPSNAQSQNIL----PTIGFSIEKFKSSSLSFTVFDMSGQGRYRNLW------------------   84 (190)
T ss_dssp             EECTTSSHHHHHHHTSCGGGCCSSCC----CCSSEEEEEEECSSCEEEEEEECCSTTTGGGG------------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCcC----CccceeEEEEEECCEEEEEEECCCCHHHHHHH------------------
Confidence            99999999999999998762 32222    22223333444443222222    12222221                  


Q ss_pred             hcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHHH-HHHHHCC
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD------SKVNIIPIIAKADTISKSELQKFKTNIM-TELTSNG  258 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I~-~~L~~~~  258 (650)
                      +.  .+  ...|+++|++..+.. .+..+...+...+.      ...++|.|++|+|..........++.+. ..+...+
T Consensus        85 ~~--~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  160 (190)
T 2h57_A           85 EH--YY--KEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQLLCLENIKDKP  160 (190)
T ss_dssp             GG--GG--GGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSC
T ss_pred             HH--HH--hcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCHHHHHHHhChhhccCCc
Confidence            11  11  235789999986532 23443333333332      3579999999999976422222222221 1112235


Q ss_pred             CcEEeCC
Q psy8479         259 VHIYEFP  265 (650)
Q Consensus       259 I~if~f~  265 (650)
                      +.+|...
T Consensus       161 ~~~~~~S  167 (190)
T 2h57_A          161 WHICASD  167 (190)
T ss_dssp             EEEEECB
T ss_pred             eEEEEcc
Confidence            5666654

>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=98.19  E-value=3.5e-06  Score=78.95  Aligned_cols=128  Identities=13%  Similarity=0.213  Sum_probs=66.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEE-EEEEEeeCC---------ceeec------chhHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLK-AHTYELQEN---------NVKLK------EDSFKSIVDYIDNQF  175 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~-~~~~~l~e~---------g~~L~------~~~w~~Ii~yI~~qf  175 (650)
                      +|.+|+|||||||.|++..+......+.+  ..+. ...+.+.+.         .+.+.      ...+..+.       
T Consensus        17 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------   87 (195)
T 3bc1_A           17 LGDSGVGKTSVLYQYTDGKFNSKFITTVG--IDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLT-------   87 (195)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCSCCCCCS--EEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHH-------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCcCcccccc--eeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHH-------
Confidence            99999999999999998765433222222  2222 122333322         22322      12232221       


Q ss_pred             HHHHHHHHhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHH
Q psy8479         176 EAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTN  249 (650)
Q Consensus       176 ~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~  249 (650)
                      ..|             +  ...|+++|++..+.. .+..+ ..++..+.     ...+++.|++|+|.....+.  ....
T Consensus        88 ~~~-------------~--~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~  149 (195)
T 3bc1_A           88 TAF-------------F--RDAMGFLLLFDLTNEQSFLNV-RNWISQLQMHAYSENPDIVLCGNKSDLEDQRAV--KEEE  149 (195)
T ss_dssp             HHT-------------T--TTCSEEEEEEETTCHHHHHTH-HHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCS--CHHH
T ss_pred             HHH-------------H--cCCCEEEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccccccccc--CHHH
Confidence            011             1  135789999886532 11111 23333333     46799999999998642211  1112


Q ss_pred             HHHHHHHCCCcEEeCCC
Q psy8479         250 IMTELTSNGVHIYEFPT  266 (650)
Q Consensus       250 I~~~L~~~~I~if~f~~  266 (650)
                      +.+.....++.+|....
T Consensus       150 ~~~~~~~~~~~~~~~Sa  166 (195)
T 3bc1_A          150 ARELAEKYGIPYFETSA  166 (195)
T ss_dssp             HHHHHHHHTCCEEECCT
T ss_pred             HHHHHHHcCCCEEEEEC
Confidence            23333445778887753

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.19  E-value=1.9e-06  Score=94.12  Aligned_cols=116  Identities=16%  Similarity=0.164  Sum_probs=62.6

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHH----HHHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFK----SIVDYIDNQFEAYLQE  181 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~----~Ii~yI~~qf~~yL~e  181 (650)
                      -+.+ ||++|||||||+|.|++.... ..+..++-|.......+.+.+..+.|. ...+.    .+...+..+...|+.+
T Consensus         5 ~V~i-vG~~nvGKStL~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~   82 (436)
T 2hjg_A            5 VVAI-VGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDE   82 (436)
T ss_dssp             EEEE-ECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHH
T ss_pred             EEEE-ECCCCCCHHHHHHHHhCCCce-eecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHh
Confidence            3566 999999999999999997643 233445544433222222222222222 11221    1222223333333321


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCH
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISK  240 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~  240 (650)
                                     .|+++|++..+ .++...|..+.+.|.. ..++|.|++|+|....
T Consensus        83 ---------------ad~il~vvD~~-~~~~~~d~~~~~~l~~~~~pvilv~NK~D~~~~  126 (436)
T 2hjg_A           83 ---------------ADVIIFMVNGR-EGVTAADEEVAKILYRTKKPVVLAVNKLDNTEM  126 (436)
T ss_dssp             ---------------CSEEEEEEETT-TCSCHHHHHHHHHHTTCCSCEEEEEECCCC---
T ss_pred             ---------------CCEEEEEEeCC-CCCCHHHHHHHHHHHHcCCCEEEEEECccCccc
Confidence                           36888888754 6788899988888874 6699999999998643

>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=98.19  E-value=3.9e-06  Score=78.55  Aligned_cols=127  Identities=16%  Similarity=0.177  Sum_probs=63.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+......+.   .......+.+.+..+.+.      ...|..+.       ..|+..    
T Consensus        10 ~G~~~~GKSsli~~l~~~~~~~~~~~t~---~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~~~----   75 (189)
T 4dsu_A           10 VGADGVGKSALTIQLIQNHFVDEYDPTI---EDSYRKQVVIDGETCLLDILDTAGQEEYSAMR-------DQYMRT----   75 (189)
T ss_dssp             ECCTTSSHHHHHHHHHHSSCCCCCCTTC---CEEEEEEEEETTEEEEEEEEECCCC---CTTH-------HHHHHH----
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCCc---hheEEEEEEECCcEEEEEEEECCCcHHHHHHH-------HHHHhc----
Confidence            9999999999999999877544322221   111112233333333332      12233222       122211    


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC----CCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH----GLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h----~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                 .|++++++..+..    .+......+.+... ..++++.|++|+|..........   +.......++.
T Consensus        76 -----------~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~---~~~~~~~~~~~  141 (189)
T 4dsu_A           76 -----------GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQ---AQDLARSYGIP  141 (189)
T ss_dssp             -----------CSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSSCHHH---HHHHHHHHTCC
T ss_pred             -----------CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcccccCHHH---HHHHHHHcCCe
Confidence                       3566777665431    11111122222222 36799999999998743222222   22223344678


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      +|....
T Consensus       142 ~~~~Sa  147 (189)
T 4dsu_A          142 FIETSA  147 (189)
T ss_dssp             EEECCT
T ss_pred             EEEEeC
Confidence            887753

>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=98.18  E-value=1e-06  Score=80.99  Aligned_cols=126  Identities=17%  Similarity=0.236  Sum_probs=62.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++.++.....++.+.+  +....+.+.+..+.+.      ...|..+.       ..|+      
T Consensus         9 ~G~~~~GKssli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~-------~~~~------   73 (170)
T 1g16_A            9 IGDSGVGKSCLLVRFVEDKFNPSFITTIGID--FKIKTVDINGKKVKLQIWDTAGQERFRTIT-------TAYY------   73 (170)
T ss_dssp             EESTTSSHHHHHHHHHHCCCCC-------CC--EEEEEEESSSCEEEEEEECCTTGGGTSCCC-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHHhCCCCCCCCCcccee--EEEEEEEECCEEEEEEEEeCCCChhhhhhH-------HHHh------
Confidence            9999999999999999876543322222222  2222334443333333      11121111       0111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                               ...|+++|++..+.. .+..+. .++..+.    ...+++.|++|+|.......   ...+.+.....++.
T Consensus        74 ---------~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~---~~~~~~~~~~~~~~  140 (170)
T 1g16_A           74 ---------RGAMGIILVYDITDERTFTNIK-QWFKTVNEHANDEAQLLLVGNKSDMETRVVT---ADQGEALAKELGIP  140 (170)
T ss_dssp             ---------TTEEEEEEEEETTCHHHHHTHH-HHHHHHHHHSCTTCEEEEEEECTTCTTCCSC---HHHHHHHHHHHTCC
T ss_pred             ---------ccCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCcEEEEEECccCCcCccC---HHHHHHHHHHcCCe
Confidence                     135788998886532 121211 2222222    36799999999997421111   11122223345677


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       141 ~~~~S  145 (170)
T 1g16_A          141 FIESS  145 (170)
T ss_dssp             EEECB
T ss_pred             EEEEE
Confidence            77765

>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=98.18  E-value=1.9e-06  Score=82.21  Aligned_cols=127  Identities=16%  Similarity=0.189  Sum_probs=65.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.+  . ...+.+.+..+.+.      ...|..+.       ..|+.     
T Consensus        20 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~--~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------~~~~~-----   84 (206)
T 2bov_A           20 VGSGGVGKSALTLQFMYDEFVEDYEPTKADS--Y-RKKVVLDGEEVQIDILDTAGQEDYAAIR-------DNYFR-----   84 (206)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCTTCCTTCCEE--E-EEEEEETTEEEEEEEEECCCTTCCHHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCccceE--E-EEEEEECCEEEEEEEEcCCChhhhHHHH-------HHHHh-----
Confidence            9999999999999999877543322222211  1 12233333333332      22333332       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..+++++++..+.. .+..+.   ..+++... ..+++|.|++|+|.....+.  ....+...+...++.
T Consensus        85 ----------~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  152 (206)
T 2bov_A           85 ----------SGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV--SVEEAKNRAEQWNVN  152 (206)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCS--CHHHHHHHHHHHTCE
T ss_pred             ----------hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccc--cHHHHHHHHHHhCCe
Confidence                      13567777765421 111111   12222222 36799999999998653221  112233344556777


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       153 ~~~~S  157 (206)
T 2bov_A          153 YVETS  157 (206)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            77665

>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=98.17  E-value=1.7e-06  Score=81.51  Aligned_cols=108  Identities=15%  Similarity=0.146  Sum_probs=58.5

Q ss_pred             Cceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHH
Q psy8479         107 GKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       107 g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+.+. +|.+|+|||||||.|++.. .....+    |..+....+.+.  ++.+.   ......        |       
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~----t~~~~~~~~~~~--~~~~~~~Dt~G~~~--------~-------   75 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGED-VDTISP----TLGFNIKTLEHR--GFKLNIWDVGGQKS--------L-------   75 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCC-CSSCCC----CSSEEEEEEEET--TEEEEEEEECCSHH--------H-------
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC-CCcccc----cCccceEEEEEC--CEEEEEEECCCCHh--------H-------
Confidence            33343 9999999999999999876 222222    222332333332  33332   111110        0       


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                      ....+.  .+  ...|+++|++..+.. .+..+...+...+.    ..++++.|++|+|....
T Consensus        76 ~~~~~~--~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (186)
T 1ksh_A           76 RSYWRN--YF--ESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA  134 (186)
T ss_dssp             HTTGGG--GC--TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHH--Hh--cCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCC
Confidence            011111  11  246789999986532 23333333333333    35799999999998764

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=98.17  E-value=6.6e-07  Score=84.80  Aligned_cols=60  Identities=13%  Similarity=0.226  Sum_probs=38.1

Q ss_pred             eeeEEEEEEcCC-CC-CCCcchHHHHHHh-------ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPT-GH-GLKSLDLVCMKKL-------DSKVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       196 RVH~cLYfI~ps-~h-~Lk~lDI~~mk~L-------~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      ..|+++|++..+ .. .+..+...+...+       ...++++.|++|+|..........++.+.+.|.
T Consensus       118 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~l~  186 (193)
T 2ged_A          118 FVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQ  186 (193)
T ss_dssp             GEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHH
T ss_pred             cCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHHHHHHHHH
Confidence            468999999876 11 1222222222222       136899999999999877666677776665554

>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=98.17  E-value=1.3e-06  Score=82.35  Aligned_cols=126  Identities=17%  Similarity=0.254  Sum_probs=67.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+  ..+....+.+.+.++.+.      ...+..+.       ..|+      
T Consensus        21 ~G~~~~GKssli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   85 (195)
T 1x3s_A           21 IGESGVGKSSLLLRFTDDTFDPELAATIG--VDFKVKTISVDGNKAKLAIWDTAGQERFRTLT-------PSYY------   85 (195)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCTTCCCCCS--EEEEEEEEEETTEEEEEEEEEECSSGGGCCSH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCccCCCccc--eEEEEEEEEECCeEEEEEEEeCCCchhhhhhh-------HHHh------
Confidence            99999999999999998765543222222  223223344443333333      12222222       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                               ...|+++|++..+.. .+..+. .++..+.     ..++++.|++|+|......   ....+.+.+...++
T Consensus        86 ---------~~~d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~---~~~~~~~~~~~~~~  152 (195)
T 1x3s_A           86 ---------RGAQGVILVYDVTRRDTFVKLD-NWLNELETYCTRNDIVNMLVGNKIDKENREV---DRNEGLKFARKHSM  152 (195)
T ss_dssp             ---------TTCCEEEEEEETTCHHHHHTHH-HHHHHHTTCCSCSCCEEEEEEECTTSSSCCS---CHHHHHHHHHHTTC
T ss_pred             ---------ccCCEEEEEEECcCHHHHHHHH-HHHHHHHHhcCcCCCcEEEEEECCcCccccc---CHHHHHHHHHHcCC
Confidence                     124788999886532 111221 2333333     2568999999999843210   11223334455678


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       153 ~~~~~S  158 (195)
T 1x3s_A          153 LFIEAS  158 (195)
T ss_dssp             EEEECC
T ss_pred             EEEEec
Confidence            888765

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.17  E-value=2.1e-06  Score=93.73  Aligned_cols=137  Identities=15%  Similarity=0.193  Sum_probs=75.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhH-------HHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSF-------KSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w-------~~Ii~yI~~qf~~yL~eE~  183 (650)
                      ||++|+|||||||+|++..... .+..++.|.......+.+.+..+.|. ....       ..+-.|-      .+....
T Consensus       181 vG~~nvGKSSLin~l~~~~~~~-~~~~~gtT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~------~~~~~~  253 (436)
T 2hjg_A          181 IGRPNVGKSSLVNAMLGEERVI-VSNVAGTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYS------VLRALK  253 (436)
T ss_dssp             ECSTTSSHHHHHHHHHTSTTEE-EC---------CCEEEEETTEEEEETTHHHHTCBTTBCCCCSHHH------HHHHHH
T ss_pred             EcCCCCCHHHHHHHHhCCCcee-ecCCCCceeeeeEEEEEECCeEEEEEECCCcCcCccccchHHHHH------HHHHHH
Confidence            9999999999999999876431 22233333333222333333333332 1110       0011110      010000


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHH--HHHHHHHHHHHHHH-CCC
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSE--LQKFKTNIMTELTS-NGV  259 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~E--l~~~K~~I~~~L~~-~~I  259 (650)
                      .+         .+.|+|++++..+ .+....|+.++..+. ...++|.|++|+|.+...+  ...+++.+.+.+.. .++
T Consensus       254 ~~---------~~ad~~llv~D~~-~~~s~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~  323 (436)
T 2hjg_A          254 AI---------DRSEVVAVVLDGE-EGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYA  323 (436)
T ss_dssp             HH---------HHCSEEEEEEETT-TCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTS
T ss_pred             HH---------HhCCEEEEEEcCC-cCCcHHHHHHHHHHHHcCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCC
Confidence            11         1246899999875 577788888887776 4679999999999986543  34455666666543 355


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .++...
T Consensus       324 ~~~~~S  329 (436)
T 2hjg_A          324 PILFMS  329 (436)
T ss_dssp             CEEECC
T ss_pred             CEEEEe
Confidence            666554

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=98.16  E-value=2.2e-06  Score=81.01  Aligned_cols=128  Identities=22%  Similarity=0.312  Sum_probs=69.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....  +..+..+....+.+.+..+.+.      ...+..+.       ..|+      
T Consensus        22 ~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   86 (196)
T 3tkl_A           22 IGDSGVGKSCLLLRFADDTYTESYI--STIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTIT-------SSYY------   86 (196)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCSCCC--CCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTH-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHHcCCCCCCCC--CcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhH-------HHHH------
Confidence            9999999999999999876544322  2233334333444443333332      22333322       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHh-ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKL-DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L-~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                               ...|+++|++..+.. .+..+.  +..+..+ ...+++|.|++|+|.....+...  ..+.......++.+
T Consensus        87 ---------~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~  155 (196)
T 3tkl_A           87 ---------RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDY--TTAKEFADSLGIPF  155 (196)
T ss_dssp             ---------TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCH--HHHHHHHHHTTCCE
T ss_pred             ---------hhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCH--HHHHHHHHHcCCcE
Confidence                     124688888876531 111111  2222222 23679999999999875432211  12233445567888


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       156 ~~~S  159 (196)
T 3tkl_A          156 LETS  159 (196)
T ss_dssp             EEEC
T ss_pred             EEEe
Confidence            8765

>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=98.16  E-value=4.3e-06  Score=80.98  Aligned_cols=118  Identities=16%  Similarity=0.216  Sum_probs=65.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|.+|+|||||||.|++..+.... ....+|+...     .....+.+.    ...+..+.       ..|+....    
T Consensus        18 ~G~~g~GKTsl~~~l~~~~~~~~~-~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~-------~~~~~~~~----   80 (218)
T 1nrj_B           18 AGPQNSGKTSLLTLLTTDSVRPTV-VSQEPLSAAD-----YDGSGVTLVDFPGHVKLRYKL-------SDYLKTRA----   80 (218)
T ss_dssp             ECSTTSSHHHHHHHHHHSSCCCBC-CCSSCEEETT-----GGGSSCEEEECCCCGGGTHHH-------HHHHHHHG----
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCee-eecCceEEEE-----eeCceEEEEECCCcHHHHHHH-------HHHHHhcc----
Confidence            999999999999999987643321 1111222110     011111111    12232222       33442211    


Q ss_pred             cccccCCceeeEEEEEEcCC-C-CCCCcchHHHHHHhc-------cCCCeeeeeecccCCCHHHHHHHHHHHHHH
Q psy8479         188 SLNTYHDNRIHVCLYFICPT-G-HGLKSLDLVCMKKLD-------SKVNIIPIIAKADTISKSELQKFKTNIMTE  253 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps-~-h~Lk~lDI~~mk~L~-------~~vnvIPVItKAD~Lt~~El~~~K~~I~~~  253 (650)
                             .+.|+++|++..+ . ..+......+...+.       ..++++.|++|+|.....+....+..+.+.
T Consensus        81 -------~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~  148 (218)
T 1nrj_B           81 -------KFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESE  148 (218)
T ss_dssp             -------GGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHH
T ss_pred             -------ccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHH
Confidence                   2468899999876 2 355555544444433       467999999999998765555544444433

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=98.16  E-value=7.5e-07  Score=82.70  Aligned_cols=127  Identities=19%  Similarity=0.313  Sum_probs=65.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c---hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E---DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~---~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+....  .+..+..+....+.+.+..+.+.   .   ..+..+.                 
T Consensus        15 ~G~~~~GKssl~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-----------------   75 (181)
T 3tw8_B           15 IGDSGVGKSSLLLRFADNTFSGSY--ITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTIT-----------------   75 (181)
T ss_dssp             ECCTTSCHHHHHHHHCSCC---CC--TTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCC-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCcc--CCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhH-----------------
Confidence            999999999999999987655322  22333334333444443333333   1   1111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       ..  .+  ...|+++|++..+.. .+..+. .++..+.   ..+++|.|++|+|........  ...........++.+
T Consensus        76 -~~--~~--~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~  147 (181)
T 3tw8_B           76 -ST--YY--RGTHGVIVVYDVTSAESFVNVK-RWLHEINQNCDDVCRILVGNKNDDPERKVVE--TEDAYKFAGQMGIQL  147 (181)
T ss_dssp             -GG--GG--TTCSEEEEEEETTCHHHHHHHH-HHHHHHHHHCTTSEEEEEEECTTCGGGCCSC--HHHHHHHHHHHTCCE
T ss_pred             -HH--Hh--ccCCEEEEEEECCCHHHHHHHH-HHHHHHHHhCCCCCEEEEEECCCCchhcccC--HHHHHHHHHHcCCeE
Confidence             00  11  235788888876531 111111 1233332   357999999999975432111  112233334456778


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       148 ~~~S  151 (181)
T 3tw8_B          148 FETS  151 (181)
T ss_dssp             EECB
T ss_pred             EEEE
Confidence            8765

>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=98.16  E-value=1.6e-06  Score=80.43  Aligned_cols=127  Identities=17%  Similarity=0.235  Sum_probs=64.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+......+.+.  .+. ..+.+.+..+.+.      ...|..+.       ..|+.     
T Consensus        15 ~G~~~~GKssli~~l~~~~~~~~~~~t~~~--~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~-------~~~~~-----   79 (181)
T 2fn4_A           15 VGGGGVGKSALTIQFIQSYFVSDYDPTIED--SYT-KICSVDGIPARLDILDTAGQEEFGAMR-------EQYMR-----   79 (181)
T ss_dssp             EECTTSSHHHHHHHHHHSSCCSSCCTTCCE--EEE-EEEEETTEEEEEEEEECCCTTTTSCCH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHhCcCccccCCCcCc--eEE-EEEEECCEEEEEEEEECCCchhhHHHH-------HHHHh-----
Confidence            999999999999999987554322222111  111 1223332223332      12232222       11221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..|++++++..+.. .+..+.   ..+++.+. ..++++.|++|+|.....++.  ...+.......++.
T Consensus        80 ----------~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~  147 (181)
T 2fn4_A           80 ----------AGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVP--RSEASAFGASHHVA  147 (181)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSC--HHHHHHHHHHTTCE
T ss_pred             ----------hCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccC--HHHHHHHHHHcCCe
Confidence                      13567777765431 222222   13333333 467999999999986532221  11222233456788


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       148 ~~~~S  152 (181)
T 2fn4_A          148 YFEAS  152 (181)
T ss_dssp             EEECB
T ss_pred             EEEec
Confidence            88765

>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=98.16  E-value=1.5e-06  Score=95.02  Aligned_cols=113  Identities=18%  Similarity=0.156  Sum_probs=61.8

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-ch-----hHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-ED-----SFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~-----~w~~Ii~yI~~qf~~yL~e  181 (650)
                      +.+ ||++|||||||+|.|++.... ..+..++-|.......+.+.+..+.|. ..     .+..+...+..|...|+  
T Consensus         4 v~i-vG~pnvGKStL~nrl~~~~~~-~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~--   79 (439)
T 1mky_A            4 VLI-VGRPNVGKSTLFNKLVKKKKA-IVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMI--   79 (439)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHC---------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHH--
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCCc-eecCCCCCccceeeEEEEECCeEEEEEECCCccccccchHHHHHHHHHHHHH--
Confidence            456 999999999999999997642 223334433322222222322222222 11     11222222233333333  


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCC
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTI  238 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~L  238 (650)
                           +        ..|++|+++..+ .++...|..+.++|.. ..++|.|++|+|..
T Consensus        80 -----~--------~ad~il~V~D~~-~~~~~~d~~i~~~l~~~~~p~ilv~NK~D~~  123 (439)
T 1mky_A           80 -----R--------EADLVLFVVDGK-RGITKEDESLADFLRKSTVDTILVANKAENL  123 (439)
T ss_dssp             -----T--------TCSEEEEEEETT-TCCCHHHHHHHHHHHHHTCCEEEEEESCCSH
T ss_pred             -----H--------hCCEEEEEEECC-CCCCHHHHHHHHHHHHcCCCEEEEEeCCCCc
Confidence                 1        146888888754 5788889888888874 67999999999975

>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=98.15  E-value=9.6e-07  Score=84.85  Aligned_cols=126  Identities=17%  Similarity=0.238  Sum_probs=64.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+........+.+  +....+.+.+..+.+.      ...|..+.       ..|+      
T Consensus        26 ~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------~~~~------   90 (213)
T 3cph_A           26 IGDSGVGKSCLLVRFVEDKFNPSFITTIGID--FKIKTVDINGKKVKLQLWDTAGQERFRTIT-------TAYY------   90 (213)
T ss_dssp             ECSTTSSHHHHHHHHHHCCCCCSSSCCCSCC--EEEEEEEETTEEEEEEEECCTTGGGGTCCC-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHHhCCCCcccCCcccce--EEEEEEEECCEEEEEEEEeCCCcHHHHHHH-------HHHh------
Confidence            9999999999999999876544322222222  2222333333223332      11222111       0111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                               ...|+++|++..+.. .+..+. .++..+.    ..+++|.|++|+|.......   ...+.......++.
T Consensus        91 ---------~~~d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~---~~~~~~~~~~~~~~  157 (213)
T 3cph_A           91 ---------RGAMGIILVYDVTDERTFTNIK-QWFKTVNEHANDEAQLLLVGNKSDMETRVVT---ADQGEALAKELGIP  157 (213)
T ss_dssp             ---------TTCSEEEEEEETTCHHHHHTHH-HHHHHHHHHTTTCSEEEEEEECTTCSSCCSC---HHHHHHHHHHHTCC
T ss_pred             ---------ccCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCCEEEEEECCCCcccccC---HHHHHHHHHHcCCE
Confidence                     135788888886532 122222 2333332    36799999999998422111   11122223344677


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       158 ~~~~S  162 (213)
T 3cph_A          158 FIESS  162 (213)
T ss_dssp             EEECB
T ss_pred             EEEEe
Confidence            87765

>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=98.15  E-value=7.6e-07  Score=91.28  Aligned_cols=150  Identities=14%  Similarity=0.164  Sum_probs=80.5

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHH--HHHHHHH-HHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIV--DYIDNQF-EAYLQ  180 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii--~yI~~qf-~~yL~  180 (650)
                      +.+ +|.+|+|||||+|+|++...  ..+..++.|+......+.+.+..+.+.    ...+..+.  ..+++++ ..|+.
T Consensus         6 I~l-vG~~n~GKSTLin~l~g~~~--~v~~~~g~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~   82 (274)
T 3i8s_A            6 IGL-IGNPNSGKTTLFNQLTGSRQ--RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYIL   82 (274)
T ss_dssp             EEE-EECTTSSHHHHHHHHHTTCE--EEEECTTSSSEEEEEEEECSSCEEEEEECCCCSCSCC----CCHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCc--ccCCCCCeeEEEEEEEEEeCCCceEEEECcCCCccccccccCCHHHHHHHHHHh
Confidence            445 99999999999999999863  234445555555444444443333332    11111100  0000010 11221


Q ss_pred             HHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         181 EELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       181 eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                                   ....++++|++..+.   .+..+.++.+|.. .+|+|.|++|+|......+......+.+.   .++
T Consensus        83 -------------~~~~d~ii~VvD~~~---~~~~~~~~~~l~~~~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~---lg~  143 (274)
T 3i8s_A           83 -------------SGDADLLINVVDASN---LERNLYLTLQLLELGIPCIVALNMLDIAEKQNIRIEIDALSAR---LGC  143 (274)
T ss_dssp             -------------HTCCSEEEEEEEGGG---HHHHHHHHHHHHHHTCCEEEEEECHHHHHHTTEEECHHHHHHH---HTS
T ss_pred             -------------hcCCCEEEEEecCCC---hHHHHHHHHHHHhcCCCEEEEEECccchhhhhHHHHHHHHHHh---cCC
Confidence                         123578999998753   2344556666654 78999999999986443322222223322   367


Q ss_pred             cEEeCCC-CchhHHHHHHHhh
Q psy8479         260 HIYEFPT-DDETMSDVNAAMT  279 (650)
Q Consensus       260 ~if~f~~-d~~~~~~~~~~~~  279 (650)
                      .++.... ......++...+.
T Consensus       144 ~~i~~SA~~g~gi~el~~~i~  164 (274)
T 3i8s_A          144 PVIPLVSTRGRGIEALKLAID  164 (274)
T ss_dssp             CEEECCCGGGHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHH
Confidence            7887764 2333444444443

>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=98.15  E-value=3.7e-06  Score=79.35  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||+|++..+..
T Consensus        27 vG~~~~GKSsli~~l~~~~~~~   48 (190)
T 3con_A           27 VGAGGVGKSALTIQLIQNHFVD   48 (190)
T ss_dssp             ECSTTSSHHHHHHHHHHSSCCS
T ss_pred             ECcCCCCHHHHHHHHHcCCCcc
Confidence            9999999999999999876543

>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=98.14  E-value=1.7e-06  Score=83.79  Aligned_cols=125  Identities=18%  Similarity=0.297  Sum_probs=65.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEE--EEEEEeeCC----------ceeec-----c-hhHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLK--AHTYELQEN----------NVKLK-----E-DSFKSIVDYIDN  173 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~--~~~~~l~e~----------g~~L~-----~-~~w~~Ii~yI~~  173 (650)
                      +|.+|+|||||||.|++..+...    ..+|+.+.  ...+.+...          .+.+.     . ..+..+.     
T Consensus        31 vG~~~~GKSsLi~~l~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~-----  101 (217)
T 2f7s_A           31 LGDSGVGKTTFLYRYTDNKFNPK----FITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLT-----  101 (217)
T ss_dssp             ESCTTSSHHHHHHHHHCSCCCCE----EEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHH-----
T ss_pred             ECcCCCCHHHHHHHHhcCCCCcC----CCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHH-----
Confidence            99999999999999998765321    12233222  223334433          23332     1 1111111     


Q ss_pred             HHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHH
Q psy8479         174 QFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFK  247 (650)
Q Consensus       174 qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K  247 (650)
                        ..|+               ...|+++|++..+.. .+..+ ..++..+.     ..+++|.|++|+|.....+..  .
T Consensus       102 --~~~~---------------~~~d~iilV~D~~~~~s~~~~-~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~--~  161 (217)
T 2f7s_A          102 --TAFF---------------RDAMGFLLMFDLTSQQSFLNV-RNWMSQLQANAYCENPDIVLIGNKADLPDQREVN--E  161 (217)
T ss_dssp             --HHHH---------------TTCCEEEEEEETTCHHHHHHH-HHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSC--H
T ss_pred             --HHHh---------------cCCCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCcCCCCEEEEEECCccccccccC--H
Confidence              1111               124788999886531 11111 12344443     356899999999986432211  1


Q ss_pred             HHHHHHHHHCCCcEEeCC
Q psy8479         248 TNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       248 ~~I~~~L~~~~I~if~f~  265 (650)
                      ..+.+.....++.+|...
T Consensus       162 ~~~~~~~~~~~~~~~~~S  179 (217)
T 2f7s_A          162 RQARELADKYGIPYFETS  179 (217)
T ss_dssp             HHHHHHHHHTTCCEEEEB
T ss_pred             HHHHHHHHHCCCcEEEEE
Confidence            223334455678888765

>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=98.14  E-value=1.7e-06  Score=94.97  Aligned_cols=113  Identities=17%  Similarity=0.156  Sum_probs=61.9

Q ss_pred             CCceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCc--eeec-chhHHH----HHHHHHHHHHHH
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENN--VKLK-EDSFKS----IVDYIDNQFEAY  178 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g--~~L~-~~~w~~----Ii~yI~~qf~~y  178 (650)
                      +-+.+ ||++|+|||||+|.|++..+. .....++-|.....  ..+...+  +.|. ...|..    +...+..+...|
T Consensus        24 ~~V~l-vG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~--~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~   99 (456)
T 4dcu_A           24 PVVAI-VGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIY--SSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIA   99 (456)
T ss_dssp             CEEEE-ECSSSSSHHHHHHHHEEEEEC------------CEE--EECTTCSSCCEEECCCC------CCHHHHHHHHHHH
T ss_pred             CEEEE-ECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEE--EEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhh
Confidence            34566 999999999999999997643 23334444433221  2222222  2222 222211    121222222222


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCC
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTI  238 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~L  238 (650)
                      +.               ..|++||++.. ..++...|..++++|.. ..++|.|++|+|..
T Consensus       100 ~~---------------~ad~il~VvD~-~~~~~~~d~~l~~~l~~~~~pvilV~NK~D~~  144 (456)
T 4dcu_A          100 MD---------------EADVIIFMVNG-REGVTAADEEVAKILYRTKKPVVLAVNKLDNT  144 (456)
T ss_dssp             HH---------------HCSEEEEEEES-SSCSCHHHHHHHHHHTTCCSCEEEEEECC---
T ss_pred             Hh---------------hCCEEEEEEeC-CCCCChHHHHHHHHHHHcCCCEEEEEECccch
Confidence            21               24688888874 46899999999999985 67999999999964

>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=98.14  E-value=3.2e-06  Score=78.88  Aligned_cols=105  Identities=14%  Similarity=0.226  Sum_probs=58.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+....   ..+.+.+..+.+.      ...+..                  +
T Consensus        11 ~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~---~~~~~~~~~~~~~i~Dt~G~~~~~~------------------~   69 (186)
T 1mh1_A           11 VGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS---ANVMVDGKPVNLGLWDTAGQEDYDR------------------L   69 (186)
T ss_dssp             ECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEE---EEEEETTEEEEEEEECCCCSGGGTT------------------T
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCcCCcccceeE---EEEEECCEEEEEEEEECCCCHhHHH------------------H
Confidence            999999999999999987654432222222211   1233333333332      111111                  1


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhcc---CCCeeeeeecccCCCHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLDS---KVNIIPIIAKADTISKS  241 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~~---~vnvIPVItKAD~Lt~~  241 (650)
                      .+.  .+  ...|++++++..+. ..+..+...++..+..   .++++.|++|+|.....
T Consensus        70 ~~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  125 (186)
T 1mh1_A           70 RPL--SY--PQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK  125 (186)
T ss_dssp             GGG--GC--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCH
T ss_pred             HHH--hc--cCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccccc
Confidence            111  11  24578888888653 1233333234444443   78999999999987654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=98.13  E-value=2.1e-06  Score=81.84  Aligned_cols=130  Identities=13%  Similarity=0.153  Sum_probs=43.5

Q ss_pred             cCCCCCChhhHhhhhhCc--CCCCCCCCCCCCcEEEEEEEEEeeCC--ceeec---chhHHHHHHHHHHHHHHHHHHHHh
Q psy8479         112 PCETGLGKSTLMDSLFNT--SFESTPSPHSLPSVKLKAHTYELQEN--NVKLK---EDSFKSIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~--~~~~~~s~~~~~T~~I~~~~~~l~e~--g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~  184 (650)
                      +|.+|+|||||||.|++.  .+......+.+  ..+....+.+.+.  .+.+.   .....        .|..       
T Consensus        26 ~G~~~~GKssli~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~~~l~Dt~G~~--------~~~~-------   88 (208)
T 2yc2_C           26 VGEATVGKSALISMFTSKGSKFLKDYAMTSG--VEVVVAPVTIPDTTVSVELFLLDTAGSD--------LYKE-------   88 (208)
T ss_dssp             C------------------------------------CEEEECTTSSEEEEEEEEETTTTH--------HHHH-------
T ss_pred             ECCCCCCHHHHHHHHHhCCCcccCCCCCccc--eEEEEEEEEECCcccEEEEEEEECCCcH--------HHHH-------
Confidence            999999999999999987  43322111111  1122223344433  33333   11111        0100       


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc-------cCCCeeeeeecccCCC-HHHHHHHHHHHHHHHH
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD-------SKVNIIPIIAKADTIS-KSELQKFKTNIMTELT  255 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~-------~~vnvIPVItKAD~Lt-~~El~~~K~~I~~~L~  255 (650)
                      +.+.  .+  ...|+++|++..+... +..+ ..++..+.       ..+++|.|++|+|... ..+.  ....+.+.+.
T Consensus        89 ~~~~--~~--~~~d~~i~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v--~~~~~~~~~~  161 (208)
T 2yc2_C           89 QISQ--YW--NGVYYAILVFDVSSMESFESC-KAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQV--RLDMAQDWAT  161 (208)
T ss_dssp             HHST--TC--CCCCEEEEEEETTCHHHHHHH-HHHHHHHHHHCSCTTSCCEEEEEEECC-------CC--CHHHHHHHHH
T ss_pred             HHHH--HH--hhCcEEEEEEECCCHHHHHHH-HHHHHHHHHhhcccccCCcEEEEEECcccchhhccC--CHHHHHHHHH
Confidence            1111  11  2457899999865321 1221 13333333       3679999999999876 2221  1123344445


Q ss_pred             HCCCcEEeCC
Q psy8479         256 SNGVHIYEFP  265 (650)
Q Consensus       256 ~~~I~if~f~  265 (650)
                      ..++.+|...
T Consensus       162 ~~~~~~~~~S  171 (208)
T 2yc2_C          162 TNTLDFFDVS  171 (208)
T ss_dssp             HTTCEEEECC
T ss_pred             HcCCEEEEec
Confidence            5677887765

>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=98.13  E-value=7.1e-06  Score=78.84  Aligned_cols=106  Identities=16%  Similarity=0.214  Sum_probs=58.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.....   .+.+.+..+.+.     + ..+..+.                 
T Consensus        31 vG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~---~~~~~~~~~~l~i~Dt~G~~~~~~~~-----------------   90 (201)
T 2gco_A           31 VGDGACGKTCLLIVFSKDQFPEVYVPTVFENYIA---DIEVDGKQVELALWDTAGQEDYDRLR-----------------   90 (201)
T ss_dssp             EESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCEE---EEEETTEEEEEEEECCCCSGGGTTTG-----------------
T ss_pred             ECCCCCCHHHHHHHHHhCcCCcccCCcccceEEE---EEEECCEEEEEEEEECCCchhHHHHH-----------------
Confidence            9999999999999999876644322222222111   123333223332     1 1111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc---cCCCeeeeeecccCCCHHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~E  242 (650)
                       +.  .+  ...++++|++..+. ..+..++..+++.+.   ..++++.|++|+|.+...+
T Consensus        91 -~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  146 (201)
T 2gco_A           91 -PL--SY--PDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEH  146 (201)
T ss_dssp             -GG--GC--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHH
T ss_pred             -HH--hc--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCcc
Confidence             11  11  23578888887653 234444333444444   3789999999999987644

>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=98.12  E-value=2.9e-06  Score=80.51  Aligned_cols=127  Identities=20%  Similarity=0.247  Sum_probs=66.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+  ..+....+.+...++.+.      ...|..+.       ..|+      
T Consensus        31 ~G~~~~GKSsLi~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   95 (193)
T 2oil_A           31 IGESGVGKTNLLSRFTRNEFSHDSRTTIG--VEFSTRTVMLGTAAVKAQIWDTAGLERYRAIT-------SAYY------   95 (193)
T ss_dssp             ESSTTSSHHHHHHHHHHSCCCSSCCCCSS--EEEEEEEEEETTEEEEEEEEEESCCCTTCTTH-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHhcCCCCCCCCCccc--eeEEEEEEEECCEEEEEEEEeCCCchhhhhhh-------HHHh------
Confidence            99999999999999999765543222222  222222333333333332      12222222       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +        ..+++++++..+... +..+ ..++..+.    ..++++.|++|+|.....+.  ....+...+...++.
T Consensus        96 -~--------~~d~vi~v~D~~~~~s~~~~-~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  163 (193)
T 2oil_A           96 -R--------GAVGALLVFDLTKHQTYAVV-ERWLKELYDHAEATIVVMLVGNKSDLSQAREV--PTEEARMFAENNGLL  163 (193)
T ss_dssp             -T--------TCCEEEEEEETTCHHHHHTH-HHHHHHHHTTSCTTCEEEEEEECGGGGGGCCS--CHHHHHHHHHHTTCE
T ss_pred             -c--------cCCEEEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCeEEEEEECCCccccccc--CHHHHHHHHHHcCCE
Confidence             1        246788888765311 1111 12333332    35689999999998653221  112233344557788


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       164 ~~~~S  168 (193)
T 2oil_A          164 FLETS  168 (193)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            88765

>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=98.11  E-value=4.5e-06  Score=78.24  Aligned_cols=129  Identities=21%  Similarity=0.248  Sum_probs=68.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....  +..+..+....+.+.+..+.+.      ...|..+.                 
T Consensus        16 ~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------------   76 (186)
T 2bme_A           16 IGNAGTGKSCLLHQFIEKKFKDDSN--HTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVT-----------------   76 (186)
T ss_dssp             EESTTSSHHHHHHHHHHSSCCTTCC--CCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH-----------------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCC--CccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHH-----------------
Confidence            9999999999999999876543222  2222333333344433333333      22233221                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHh-ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKL-DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L-~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       +.  .+  ...|+++|++..+.. .+..+.  +..++.+ ...++++.|++|+|.....+..  ...+.......++.+
T Consensus        77 -~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~  149 (186)
T 2bme_A           77 -RS--YY--RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVT--FLEASRFAQENELMF  149 (186)
T ss_dssp             -HT--TS--TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSC--HHHHHHHHHHTTCEE
T ss_pred             -HH--HH--hcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccC--HHHHHHHHHHcCCEE
Confidence             11  11  235788888886532 111111  1222333 2467999999999986432211  122333445677888


Q ss_pred             EeCCC
Q psy8479         262 YEFPT  266 (650)
Q Consensus       262 f~f~~  266 (650)
                      |....
T Consensus       150 ~~~Sa  154 (186)
T 2bme_A          150 LETSA  154 (186)
T ss_dssp             EECCT
T ss_pred             EEecC
Confidence            87753

>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=98.11  E-value=1.6e-06  Score=82.59  Aligned_cols=129  Identities=11%  Similarity=0.136  Sum_probs=66.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.  .+. ..+.+.+..+.+.      ...+..+.                 
T Consensus        29 vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~--~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~-----------------   88 (194)
T 3reg_A           29 VGDGAVGKTCLLLAFSKGEIPTAYVPTVFE--NFS-HVMKYKNEEFILHLWDTAGQEEYDRLR-----------------   88 (194)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCSSCCCCSEE--EEE-EEEEETTEEEEEEEEEECCSGGGTTTG-----------------
T ss_pred             ECcCCCCHHHHHHHHhcCCCCCccCCeeee--eeE-EEEEECCEEEEEEEEECCCcHHHHHHh-----------------
Confidence            999999999999999998754332222211  111 1223333333332      11221111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh---ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc-
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL---DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH-  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L---~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~-  260 (650)
                       +.  .+.  ..|++++++..+.. .+..+...++..+   ...+++|.|++|+|.....+.......+.+.....++. 
T Consensus        89 -~~--~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  163 (194)
T 3reg_A           89 -PL--SYA--DSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVA  163 (194)
T ss_dssp             -GG--GCT--TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSC
T ss_pred             -Hh--hcc--CCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCE
Confidence             11  122  34788888876531 1222212233333   34679999999999875322222223334444455666 


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       164 ~~~~S  168 (194)
T 3reg_A          164 YIEAS  168 (194)
T ss_dssp             EEECB
T ss_pred             EEEee
Confidence            77664

>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=98.11  E-value=1.9e-06  Score=81.90  Aligned_cols=127  Identities=20%  Similarity=0.255  Sum_probs=64.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.+..  ...+.+.+..+.+.      ...+..+.       ..|+      
T Consensus        27 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   91 (191)
T 2a5j_A           27 IGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFG--ARMVNIDGKQIKLQIWDTAGQESFRSIT-------RSYY------   91 (191)
T ss_dssp             ESSTTSSHHHHHHHHHHSCCCC-----CCSSEE--EEEEEETTEEEEEEEECCTTGGGTSCCC-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHhcCCCCCCCCCcccceeE--EEEEEECCEEEEEEEEECCCchhhhhhH-------HHHh------
Confidence            999999999999999987654432222222222  22333333333332      11121111       0111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                               ...|+++|++..+.. .+..+ ..++..+.    ..++++.|++|+|.....+..  ...+.......++.
T Consensus        92 ---------~~~d~ii~v~d~~~~~s~~~~-~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~  159 (191)
T 2a5j_A           92 ---------RGAAGALLVYDITRRETFNHL-TSWLEDARQHSSSNMVIMLIGNKSDLESRRDVK--REEGEAFAREHGLI  159 (191)
T ss_dssp             ---------TTCSEEEEEEETTCHHHHHTH-HHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSC--HHHHHHHHHHHTCE
T ss_pred             ---------ccCCEEEEEEECCCHHHHHHH-HHHHHHHHHhcCCCCCEEEEEECcccCCccccC--HHHHHHHHHHcCCE
Confidence                     125788888886532 11111 12233332    367999999999986422110  11222333445777


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       160 ~~~~S  164 (191)
T 2a5j_A          160 FMETS  164 (191)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            87765

>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=98.10  E-value=4.9e-06  Score=80.32  Aligned_cols=109  Identities=17%  Similarity=0.242  Sum_probs=58.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      +.+ +|.+|+|||||||.|++..+......+.+....   ..+.+.+..+.+.     + ..+..+              
T Consensus        28 i~v-vG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~---~~~~~~~~~~~~~i~Dt~G~~~~~~~--------------   89 (207)
T 2fv8_A           28 LVV-VGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV---ADIEVDGKQVELALWDTAGQEDYDRL--------------   89 (207)
T ss_dssp             EEE-EECTTSSHHHHHHHHHHSSCC-------CCEEE---EEEEETTEEEEEEEEECTTCTTCTTT--------------
T ss_pred             EEE-ECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE---EEEEECCEEEEEEEEECCCcHHHHHH--------------
Confidence            344 999999999999999987654332222222111   1223333223332     1 111111              


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc---cCCCeeeeeecccCCCHHH
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~E  242 (650)
                          .+.  .+  ...++++|++..+. ..+..++..++..+.   ..+++|.|++|+|.....+
T Consensus        90 ----~~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  146 (207)
T 2fv8_A           90 ----RPL--SY--PDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEH  146 (207)
T ss_dssp             ----GGG--GC--TTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHH
T ss_pred             ----HHh--hc--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhcccc
Confidence                111  11  23578888887653 234444444455554   3789999999999986544

>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=98.10  E-value=4.3e-06  Score=79.23  Aligned_cols=126  Identities=13%  Similarity=0.180  Sum_probs=63.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....++.+.+.   ...+.+...++.+.      ...+..+.       ..|+.     
T Consensus        14 vG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------~~~~~-----   78 (199)
T 2gf0_A           14 FGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY---RQVISCDKSVCTLQITDTTGSHQFPAMQ-------RLSIS-----   78 (199)
T ss_dssp             EECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE---EEEEEETTEEEEEEEEECCGGGSCHHHH-------HHHHH-----
T ss_pred             ECCCCCcHHHHHHHHHcCCCCCcccCccccce---eEEEEECCEEEEEEEEeCCChHHhHHHH-------HHhhc-----
Confidence            99999999999999998765433222222111   11122222223332      12222222       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcch--HHHHHHhc---cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLD--LVCMKKLD---SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lD--I~~mk~L~---~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                                ..|++++++..+. ..+..+.  +..+..+.   ..+++|.|++|+|........   ..+.......++
T Consensus        79 ----------~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~~~~---~~~~~~~~~~~~  145 (199)
T 2gf0_A           79 ----------KGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDT---REAQAVAQEWKC  145 (199)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCSSCH---HHHHHHHHHHTC
T ss_pred             ----------cCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccccCH---HHHHHHHHHhCC
Confidence                      1367788877653 1222222  22233332   357999999999986421111   112222334567


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       146 ~~~~~S  151 (199)
T 2gf0_A          146 AFMETS  151 (199)
T ss_dssp             EEEECB
T ss_pred             eEEEEe
Confidence            777765

>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=98.10  E-value=6.6e-06  Score=75.21  Aligned_cols=127  Identities=16%  Similarity=0.151  Sum_probs=63.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||+|++..+......+.+  ..+ ...+.+.+.++.+.      ...+..+.       ..|+..    
T Consensus         9 ~G~~~~GKssli~~l~~~~~~~~~~~t~~--~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~-------~~~~~~----   74 (167)
T 1c1y_A            9 LGSGGVGKSALTVQFVQGIFVEKYDPTIE--DSY-RKQVEVDCQQCMLEILDTAGTEQFTAMR-------DLYMKN----   74 (167)
T ss_dssp             ECSTTSSHHHHHHHHHHCCCCCSCCCCSE--EEE-EEEEESSSCEEEEEEEEECSSCSSTTHH-------HHHHHH----
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCCcc--ceE-EEEEEECCEEEEEEEEECCChHHHHHHH-------HHHhcc----
Confidence            99999999999999998755332211111  111 12233333333332      12233332       122211    


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC-CC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSN-GV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~-~I  259 (650)
                                 .+++++++..+.. .+..+.   ..+++... ...+++.|++|+|.....+..  ...+....... ++
T Consensus        75 -----------~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  141 (167)
T 1c1y_A           75 -----------GQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVG--KEQGQNLARQWCNC  141 (167)
T ss_dssp             -----------CSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSC--HHHHHHHHHHTTSC
T ss_pred             -----------CCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCC--HHHHHHHHHHccCC
Confidence                       3567777765431 122221   11222222 367999999999986432210  11222223333 66


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       142 ~~~~~S  147 (167)
T 1c1y_A          142 AFLESS  147 (167)
T ss_dssp             EEEECB
T ss_pred             cEEEec
Confidence            777665

>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=98.10  E-value=1.3e-06  Score=83.16  Aligned_cols=127  Identities=15%  Similarity=0.194  Sum_probs=66.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.+...  ..+.+.+.++.+.      ...+..+.       ..|+      
T Consensus        29 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   93 (191)
T 3dz8_A           29 IGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKV--KTVYRHEKRVKLQIWDTAGQERYRTIT-------TAYY------   93 (191)
T ss_dssp             EESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEE--EEEEETTTTEEEEEECHHHHHHCHHHH-------HHHH------
T ss_pred             ECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEE--EEEEECCEEEEEEEEeCCChHHHHHHH-------HHHH------
Confidence            9999999999999999876554322222222222  2344455555444      11111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +        ..+++++++..+.. .+..+. .++..+.    ..+++|.|++|+|.....+.  ....+.......++.
T Consensus        94 -~--------~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  161 (191)
T 3dz8_A           94 -R--------GAMGFILMYDITNEESFNAVQ-DWATQIKTYSWDNAQVILVGNKCDMEEERVV--PTEKGQLLAEQLGFD  161 (191)
T ss_dssp             -T--------TCCEEEEEEETTCHHHHHTHH-HHHHHHHHHSCTTCEEEEEEECTTCGGGCCS--CHHHHHHHHHHHTCE
T ss_pred             -c--------cCCEEEEEEECcCHHHHHHHH-HHHHHHHHhcCCCCCEEEEEECCCCcccccc--CHHHHHHHHHHcCCe
Confidence             1        24678888876531 122222 2333333    36799999999997532111  111222233445777


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       162 ~~~~S  166 (191)
T 3dz8_A          162 FFEAS  166 (191)
T ss_dssp             EEECB
T ss_pred             EEEEE
Confidence            88765

>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=98.09  E-value=6.2e-06  Score=77.63  Aligned_cols=110  Identities=15%  Similarity=0.112  Sum_probs=54.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----chhHHHHHHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----EDSFKSIVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~~~w~~Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      ||.+|+|||||+|.|++..... .+..++.|.......+.+.+..+.+.     ...+..+..+   .+...+..   + 
T Consensus        10 vG~~g~GKStLl~~l~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~---~~~~~~~~---~-   81 (172)
T 2gj8_A           10 AGRPNAGKSSLLNALAGREAAI-VTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERI---GIERAWQE---I-   81 (172)
T ss_dssp             EESTTSSHHHHHHHHHTSCCSC-CCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHH---HHHHHHHH---H-
T ss_pred             ECCCCCCHHHHHHHHhCCCcce-eeCCCCceeceeeEEEEECCeEEEEEECCCcccchhHHHHH---HHHHHHHH---H-
Confidence            9999999999999999875321 22223333222222233322112221     0001111110   00111100   0 


Q ss_pred             hcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc----cCCCeeeeeecccCC
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD----SKVNIIPIIAKADTI  238 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~----~~vnvIPVItKAD~L  238 (650)
                      +        ..|++++++..+. +....+..++..+.    ..+++|.|++|+|..
T Consensus        82 ~--------~ad~~i~v~D~~~-~~s~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~  128 (172)
T 2gj8_A           82 E--------QADRVLFMVDGTT-TDAVDPAEIWPEFIARLPAKLPITVVRNKADIT  128 (172)
T ss_dssp             H--------TCSEEEEEEETTT-CCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHH
T ss_pred             H--------hCCEEEEEEECCC-CCCHHHHHHHHHHHHhcccCCCEEEEEECccCC
Confidence            1        2468888887653 23333444444443    257999999999973

>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=98.09  E-value=8.4e-06  Score=79.32  Aligned_cols=107  Identities=19%  Similarity=0.274  Sum_probs=52.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+  ..+ ...+.+.+..+.+.      ...|..+.       ..|       
T Consensus        40 vG~~~vGKSsli~~l~~~~~~~~~~~t~~--~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~-------~~~-------  102 (214)
T 2j1l_A           40 VGDGGCGKTSLLMVFADGAFPESYTPTVF--ERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLR-------PLF-------  102 (214)
T ss_dssp             EECTTSSHHHHHHHHHC-------CCCCC--EEE-EEEEEETTEEEEEEEEEC---------------------------
T ss_pred             ECcCCCCHHHHHHHHHcCCCCCCCCCccc--eeE-EEEEEECCEEEEEEEEECCCchhhhHHH-------HHH-------
Confidence            99999999999999998765332111111  111 11233333333332      11111111       001       


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh---ccCCCeeeeeecccCCCHHHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL---DSKVNIIPIIAKADTISKSEL  243 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L---~~~vnvIPVItKAD~Lt~~El  243 (650)
                            +  ...|++++++..+.. .+..+...+++.+   ...+++|.|++|+|.......
T Consensus       103 ------~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~  156 (214)
T 2j1l_A          103 ------Y--PDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSL  156 (214)
T ss_dssp             ----------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSCHHH
T ss_pred             ------h--ccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhccchh
Confidence                  1  245788998886531 1222111233333   347899999999999876543

>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=98.08  E-value=4.9e-06  Score=80.34  Aligned_cols=115  Identities=13%  Similarity=0.203  Sum_probs=65.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec------chhHHH-HHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK------EDSFKS-IVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~------~~~w~~-Ii~yI~~qf~~yL~eE~  183 (650)
                      +|.+|+|||||||.|++..+....   +..+..+  ..+.+.+. ++.+.      ...+.. +.       ..|     
T Consensus        13 vG~~~~GKTsli~~l~~~~~~~~~---~~~~~~~--~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~-------~~~-----   75 (214)
T 2fh5_B           13 VGLCDSGKTLLFVRLLTGQYRDTQ---TSITDSS--AIYKVNNNRGNSLTLIDLPGHESLRFQLL-------DRF-----   75 (214)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCBC---CCCSCEE--EEEECSSTTCCEEEEEECCCCHHHHHHHH-------HHH-----
T ss_pred             ECCCCCCHHHHHHHHhCCCccccc---CCcceee--EEEEecCCCccEEEEEECCCChhHHHHHH-------HHH-----
Confidence            999999999999999987643321   1111122  23444433 34333      112221 11       111     


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHh----------ccCCCeeeeeecccCCCHHHHHHHHHHHHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKL----------DSKVNIIPIIAKADTISKSELQKFKTNIMTE  253 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L----------~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~  253 (650)
                        .        ...|+++|++..+.  +........+++          ...++++.|++|+|..........++.+.+.
T Consensus        76 --~--------~~~~~~i~v~d~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~  143 (214)
T 2fh5_B           76 --K--------SSARAVVFVVDSAA--FQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKE  143 (214)
T ss_dssp             --G--------GGEEEEEEEEETTT--HHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHH
T ss_pred             --H--------hhCCEEEEEEECCC--cCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHH
Confidence              1        13688999998653  222122222221          2357999999999998766666666666666


Q ss_pred             HH
Q psy8479         254 LT  255 (650)
Q Consensus       254 L~  255 (650)
                      +.
T Consensus       144 l~  145 (214)
T 2fh5_B          144 LN  145 (214)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=98.08  E-value=9.8e-07  Score=89.78  Aligned_cols=91  Identities=14%  Similarity=0.104  Sum_probs=62.3

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ...++||||||+++.-.-.    ..+...+..                .+.+.++|||||+ +.++++.+.+.+.++|+.
T Consensus        86 ~~~l~iiDTpG~~~~~~~~----~~~~~~i~~----------------~~~~~~~d~il~v-~~~d~~~~~~~~~~~~~~  144 (270)
T 1h65_A           86 GFTLNIIDTPGLIEGGYIN----DMALNIIKS----------------FLLDKTIDVLLYV-DRLDAYRVDNLDKLVAKA  144 (270)
T ss_dssp             TEEEEEEECCCSEETTEEC----HHHHHHHHH----------------HTTTCEECEEEEE-EESSCCCCCHHHHHHHHH
T ss_pred             CeEEEEEECCCCCCCccch----HHHHHHHHH----------------HhhcCCCCEEEEE-EeCCCCcCCHHHHHHHHH
Confidence            4679999999998742110    111112222                1234579999999 777787888899999988


Q ss_pred             ccCc------ceEEeeeecCCCCCHH--HHHHHHHHHHhh
Q psy8479         615 LDSK------VNIIPIIAKADTISKS--ELQKFKVSKTRV  646 (650)
Q Consensus       615 l~~~------vnviPvIaKaD~lt~~--e~~~~K~~i~~~  646 (650)
                      |...      +++|+|+.|+|..+++  ++..+++.+...
T Consensus       145 l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~~~~~~~~~~~  184 (270)
T 1h65_A          145 ITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEA  184 (270)
T ss_dssp             HHHHHCGGGGGGEEEEEECCSCCCGGGCCHHHHHHHHHHH
T ss_pred             HHHHhCcccccCEEEEEECcccCCcCCCCHHHHHHHHHHH
Confidence            8644      6899999999988766  455555544443

>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=98.08  E-value=5.6e-06  Score=78.53  Aligned_cols=105  Identities=14%  Similarity=0.199  Sum_probs=57.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+....   ..+.+.+..+.+.      ...|..+.                 
T Consensus        24 ~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~---~~~~~~~~~~~~~i~D~~G~~~~~~~~-----------------   83 (194)
T 2atx_A           24 VGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYA---VSVTVGGKQYLLGLYDTAGQEDYDRLR-----------------   83 (194)
T ss_dssp             EECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEE---EEEESSSCEEEEEEECCCCSSSSTTTG-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCCcccceeE---EEEEECCEEEEEEEEECCCCcchhHHH-----------------
Confidence            999999999999999987654332222222221   1233333333332      11222111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISKS  241 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~  241 (650)
                       +.  .+  ...|++++++..+.. .+..+...++..+.   ..++++.|++|+|.....
T Consensus        84 -~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  138 (194)
T 2atx_A           84 -PL--SY--PMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDP  138 (194)
T ss_dssp             -GG--GC--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCH
T ss_pred             -HH--hc--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccc
Confidence             11  11  135788888876532 13333222344443   378999999999998654

>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=98.06  E-value=1.4e-05  Score=83.12  Aligned_cols=117  Identities=15%  Similarity=0.222  Sum_probs=64.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      ||++|+|||||+|+|++.++.. .+..++.|..... . .+..++..+.   ...+..  .     ....+....  .+.
T Consensus        14 vG~~nvGKSTLln~L~g~~~~i-~s~~~~tTr~~~~-g-i~~~~~~~i~~iDTpG~~~--~-----~~~~l~~~~--~~~   81 (301)
T 1ega_A           14 VGRPNVGKSTLLNKLLGQKISI-TSRKAQTTRHRIV-G-IHTEGAYQAIYVDTPGLHM--E-----EKRAINRLM--NKA   81 (301)
T ss_dssp             ECSSSSSHHHHHHHHHTCSEEE-CCCCSSCCSSCEE-E-EEEETTEEEEEESSSSCCH--H-----HHHHHHHHH--TCC
T ss_pred             ECCCCCCHHHHHHHHHCCCccc-cCCCCCcceeeEE-E-EEEECCeeEEEEECcCCCc--c-----chhhHHHHH--HHH
Confidence            9999999999999999986532 1222222221000 0 1122222222   111110  0     001111111  111


Q ss_pred             ccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCC-HHHH
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTIS-KSEL  243 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt-~~El  243 (650)
                      . ...=..+++++|++..+.  +...+..+++.|.. ..|+|.|++|.|... ...+
T Consensus        82 ~-~~~l~~~D~vl~Vvd~~~--~~~~~~~i~~~l~~~~~P~ilvlNK~D~~~~~~~~  135 (301)
T 1ega_A           82 A-SSSIGDVELVIFVVEGTR--WTPDDEMVLNKLREGKAPVILAVNKVDNVQEKADL  135 (301)
T ss_dssp             T-TSCCCCEEEEEEEEETTC--CCHHHHHHHHHHHSSSSCEEEEEESTTTCCCHHHH
T ss_pred             H-HHHHhcCCEEEEEEeCCC--CCHHHHHHHHHHHhcCCCEEEEEECcccCccHHHH
Confidence            0 011135688999888754  88888888888874 679999999999987 4443

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.05  E-value=7e-06  Score=76.17  Aligned_cols=104  Identities=13%  Similarity=0.239  Sum_probs=60.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---c-hhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---E-DSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~-~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|.+|+|||||||.|++..+..........  .+....+.+.+..+.+.   + ..+..+.                   
T Consensus        14 ~G~~~~GKssl~~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------------------   72 (178)
T 2lkc_A           14 MGHVDHGKTTLLDAIRHSKVTEQEAGGITQ--HIGAYQVTVNDKKITFLDTPGHEAFTTMR-------------------   72 (178)
T ss_dssp             ESCTTTTHHHHHHHHHTTCSSCSSCCSSST--TCCCCEEEETTEEEEESCCCSSSSSSCSC-------------------
T ss_pred             ECCCCCCHHHHHHHHhCCccccCCCCceeE--eeeEEEEEeCCceEEEEECCCCHHHHHHH-------------------
Confidence            999999999999999997665432111111  11111122222122221   1 1111100                   


Q ss_pred             cccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCH
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISK  240 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~  240 (650)
                         ...=...|+++|++..+ .+....+++.++.+. ..++++.|++|+|....
T Consensus        73 ---~~~~~~~d~~i~v~d~~-~~~~~~~~~~l~~~~~~~~p~ilv~nK~Dl~~~  122 (178)
T 2lkc_A           73 ---ARGAQVTDIVILVVAAD-DGVMPQTVEAINHAKAANVPIIVAINKMDKPEA  122 (178)
T ss_dssp             ---CSSCCCCCEEEEEEETT-CCCCHHHHHHHHHHGGGSCCEEEEEETTTSSCS
T ss_pred             ---HHHHhhCCEEEEEEECC-CCCcHHHHHHHHHHHhCCCCEEEEEECccCCcC
Confidence               01113467888888754 455666777888876 47899999999999863

>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=98.05  E-value=1.9e-05  Score=87.57  Aligned_cols=134  Identities=19%  Similarity=0.225  Sum_probs=79.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC----C-CCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES----T-PSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~----~-~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|..|+|||||+|+|++.....    . ....++.|+.+....+.+.+..+.+. .....           .|...-.  
T Consensus        25 iG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~iiDtPGh~-----------~~~~~~~--   91 (482)
T 1wb1_A           25 FGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHA-----------DLIRAVV--   91 (482)
T ss_dssp             EECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHH-----------HHHHHHH--
T ss_pred             ECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECCEEEEEEECCChH-----------HHHHHHH--
Confidence            9999999999999999876211    1 12233445444333344432222332 11211           1211111  


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC----CCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSN----GVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~----~I~  260 (650)
                       +.   +  ...+++++++..+ .++.+...+.+..+.. .+++|+|++|+|....+.+...++.+.+.+...    ++.
T Consensus        92 -~~---~--~~aD~~ilVvda~-~g~~~qt~e~l~~~~~~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~  164 (482)
T 1wb1_A           92 -SA---A--DIIDLALIVVDAK-EGPKTQTGEHMLILDHFNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSS  164 (482)
T ss_dssp             -HH---T--TSCCEEEEEEETT-TCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCC
T ss_pred             -HH---H--hhCCEEEEEEecC-CCccHHHHHHHHHHHHcCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccce
Confidence             11   1  1357899999865 5677777777776653 678899999999999877888888888888766    566


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       165 ii~vS  169 (482)
T 1wb1_A          165 IIPIS  169 (482)
T ss_dssp             EEECC
T ss_pred             EEEEE
Confidence            77665

>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=98.04  E-value=3.8e-06  Score=81.40  Aligned_cols=66  Identities=15%  Similarity=0.223  Sum_probs=37.4

Q ss_pred             eeEEEEEEcCCCCCCCcchH----HHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDL----VCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI----~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      .|+++|++..+.. ....++    ..+..+. ..++++.|++|+|.....+.  ....+.......++.+|...
T Consensus        85 ~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~S  155 (218)
T 4djt_A           85 ASGAILFFDVTSR-ITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKI--SKKLVMEVLKGKNYEYFEIS  155 (218)
T ss_dssp             CSEEEEEEETTCH-HHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----C--CHHHHHHHTTTCCCEEEEEB
T ss_pred             CCEEEEEEeCCCH-HHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccccc--CHHHHHHHHHHcCCcEEEEe
Confidence            5788998886532 111222    2222222 35799999999998754332  22334445556788888765

>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=98.03  E-value=3.4e-06  Score=80.98  Aligned_cols=127  Identities=20%  Similarity=0.242  Sum_probs=66.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+.+  +....+.+.+..+.+.     + ..|..+.                 
T Consensus        14 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------------   74 (206)
T 2bcg_Y           14 IGNSGVGKSCLLLRFSDDTYTNDYISTIGVD--FKIKTVELDGKTVKLQIWDTAGQERFRTIT-----------------   74 (206)
T ss_dssp             EESTTSSHHHHHHHHHHCCCCTTCCCSSCCC--EEEEEEEETTEEEEEEEECCTTTTTTTCCC-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCCcccce--eEEEEEEECCEEEEEEEEeCCChHHHHHHH-----------------
Confidence            9999999999999999876544322222222  2222334433333332     1 1111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +.  .+  ...|+++|++..+... +..+. .++..+.    ...+++.|++|+|.....+..  ...+.......++.
T Consensus        75 -~~--~~--~~~d~vilv~d~~~~~s~~~~~-~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  146 (206)
T 2bcg_Y           75 -SS--YY--RGSHGIIIVYDVTDQESFNGVK-MWLQEIDRYATSTVLKLLVGNKCDLKDKRVVE--YDVAKEFADANKMP  146 (206)
T ss_dssp             -GG--GG--TTCSEEEEEEETTCHHHHHHHH-HHHHHHHHHSCTTCEEEEEEECTTCTTTCCSC--HHHHHHHHHHTTCC
T ss_pred             -HH--hc--cCCCEEEEEEECcCHHHHHHHH-HHHHHHHHhcCCCCCEEEEEECCCCccccccC--HHHHHHHHHHcCCe
Confidence             11  11  2357889998865321 11111 1222232    457999999999987532211  11222333456788


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       147 ~~~~S  151 (206)
T 2bcg_Y          147 FLETS  151 (206)
T ss_dssp             EEECC
T ss_pred             EEEEe
Confidence            88775

>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=98.02  E-value=1.1e-05  Score=74.71  Aligned_cols=23  Identities=26%  Similarity=0.567  Sum_probs=20.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      +|.+|+|||||||.|++..+...
T Consensus        14 ~G~~~~GKSsli~~l~~~~~~~~   36 (182)
T 1ky3_A           14 LGDSGVGKTSLMHRYVNDKYSQQ   36 (182)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCTT
T ss_pred             ECCCCCCHHHHHHHHHhCcCCcc
Confidence            99999999999999998765543

>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=98.02  E-value=3.1e-06  Score=77.56  Aligned_cols=102  Identities=14%  Similarity=0.204  Sum_probs=56.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|.+|+|||||||.|++..+... .+    |..+....+.+....+.+.    ...|..+.       ..|+        
T Consensus         6 ~G~~~~GKssl~~~l~~~~~~~~-~~----t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~--------   65 (164)
T 1r8s_A            6 VGLDAAGKTTILYKLKLGEIVTT-IP----TIGFNVETVEYKNISFTVWDVGGQDKIRPLW-------RHYF--------   65 (164)
T ss_dssp             ECSTTSSHHHHHHHHHHHCSSCC-CC----CSSCCEEEEECSSCEEEEEECCCCGGGHHHH-------HHHT--------
T ss_pred             ECCCCCCHHHHHHHHHcCCcCcc-cC----cCceeEEEEEECCEEEEEEEcCCChhhHHHH-------HHHh--------
Confidence            99999999999999998765432 11    2222222233222222222    22333322       1111        


Q ss_pred             cccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         188 SLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                             ...|+++|++..+.. .+......+...+.    ..++++.|++|+|....
T Consensus        66 -------~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  116 (164)
T 1r8s_A           66 -------QNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA  116 (164)
T ss_dssp             -------TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             -------ccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC
Confidence                   135788998886532 23434333333333    26799999999998764

>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=98.02  E-value=3e-05  Score=74.12  Aligned_cols=68  Identities=15%  Similarity=0.132  Sum_probs=41.7

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHH----HHHHHH-----CCCcE
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD------SKVNIIPIIAKADTISKSELQKFKTNI----MTELTS-----NGVHI  261 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I----~~~L~~-----~~I~i  261 (650)
                      .|+++|++..+.. +......+.++|.      ..++++.|.+|+|.+..++.....+.|    .+.+..     .++.+
T Consensus        96 ~~~~i~v~d~~~~-~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  174 (196)
T 3llu_A           96 TGALIYVIDAQDD-YMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSF  174 (196)
T ss_dssp             CSEEEEEEETTSC-CHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEE
T ss_pred             CCEEEEEEECCCc-hHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcce
Confidence            5788999987653 3333344444444      367999999999999876543333333    334443     45566


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       175 ~e~S  178 (196)
T 3llu_A          175 YLTS  178 (196)
T ss_dssp             EEEC
T ss_pred             EEEE
Confidence            6554

>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=98.02  E-value=5.6e-06  Score=88.03  Aligned_cols=113  Identities=15%  Similarity=0.140  Sum_probs=61.6

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeC-Cceeec--------chhHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQE-NNVKLK--------EDSFKSIVDYIDNQFEA  177 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e-~g~~L~--------~~~w~~Ii~yI~~qf~~  177 (650)
                      -+.| ||.+|+|||||||+|++.+...  +..+..|+..+...+.+.+ ..+.|.        ...|..+.       ..
T Consensus       160 ~V~l-vG~~nvGKSTLln~L~~~~~~i--~~~~ftTl~p~~g~v~~~~~~~~~l~DtPG~i~~a~~~~~l~-------~~  229 (342)
T 1lnz_A          160 DVGL-VGFPSVGKSTLLSVVSSAKPKI--ADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLG-------HQ  229 (342)
T ss_dssp             CEEE-ESSTTSSHHHHHHHSEEECCEE--SSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTH-------HH
T ss_pred             eeee-eCCCCCCHHHHHHHHHcCCCcc--ccCCccccCceEEEEEeCCCceEEEecCCCCcccccccchhH-------HH
Confidence            3556 9999999999999999875321  1112222222212233332 223332        11232232       22


Q ss_pred             HHHHHHhhhhcccccCCceeeEEEEEEcCCC----CCCCcchHHHHHHhc------cCCCeeeeeecccCCCHHH
Q psy8479         178 YLQEELKIKRSLNTYHDNRIHVCLYFICPTG----HGLKSLDLVCMKKLD------SKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       178 yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~----h~Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~E  242 (650)
                      ||..   +         .|.++++|++..+.    +.+..++ .+++.|.      ...++|.|++|+|.+...+
T Consensus       230 fl~~---i---------~~~d~ll~VvD~s~~~~~~~~~~~~-~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~e  291 (342)
T 1lnz_A          230 FLRH---I---------ERTRVIVHVIDMSGLEGRDPYDDYL-TINQELSEYNLRLTERPQIIVANKMDMPEAAE  291 (342)
T ss_dssp             HHHH---H---------HHCCEEEEEEESSCSSCCCHHHHHH-HHHHHHHHSCSSTTTSCBCBEEECTTSTTHHH
T ss_pred             HHHH---H---------HhccEEEEEEECCcccccChHHHHH-HHHHHHHHhhhhhcCCCEEEEEECccCCCCHH
Confidence            3322   1         13568899998764    3333333 2344443      2569999999999987653

>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=98.02  E-value=1.7e-05  Score=74.18  Aligned_cols=127  Identities=17%  Similarity=0.214  Sum_probs=64.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........+  ..+ ...+.+.+..+.+.      ...+..+.       ..|+.     
T Consensus        24 ~G~~~~GKSsl~~~l~~~~~~~~~~~t~~--~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-------~~~~~-----   88 (183)
T 3kkq_A           24 VGDGGVGKSALTIQFFQKIFVDDYDPTIE--DSY-LKHTEIDNQWAILDVLDTAGQEEFSAMR-------EQYMR-----   88 (183)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCSCCCTTCC--EEE-EEEEEETTEEEEEEEEECCSCGGGCSSH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCCcc--cee-EEEEEeCCcEEEEEEEECCCchhhHHHH-------HHHHh-----
Confidence            99999999999999998755443222221  111 12233333333332      12222222       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-C---CCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-G---LKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~---Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                                ..|++++++..+.. .   +......+++... ..+++|.|++|+|.....+.  ....+.+.....++.
T Consensus        89 ----------~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v--~~~~~~~~~~~~~~~  156 (183)
T 3kkq_A           89 ----------TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKV--TRDQGKEMATKYNIP  156 (183)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCS--CHHHHHHHHHHHTCC
T ss_pred             ----------cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCc--CHHHHHHHHHHhCCe
Confidence                      14677888776531 1   2222222223232 46799999999997542111  111223333444677


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       157 ~~~~S  161 (183)
T 3kkq_A          157 YIETS  161 (183)
T ss_dssp             EEEEB
T ss_pred             EEEec
Confidence            77664

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.01  E-value=5.8e-06  Score=84.30  Aligned_cols=42  Identities=19%  Similarity=0.207  Sum_probs=30.5

Q ss_pred             EEE-EEEcCCCCCCCcchH-HHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         199 VCL-YFICPTGHGLKSLDL-VCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       199 ~cL-YfI~ps~h~Lk~lDI-~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                      +++ |+++. ..++...++ .+++.+.. ..++|.|+||+|.+...
T Consensus       164 ~~il~v~d~-~~~~~~~~~~~~~~~~~~~~~~~i~V~NK~Dl~~~~  208 (299)
T 2aka_B          164 CLILAVSPA-NSDLANSDALKIAKEVDPQGQRTIGVITKLDLMDEG  208 (299)
T ss_dssp             EEEEEEEES-SSCGGGCHHHHHHHHHCTTCSSEEEEEECGGGSCTT
T ss_pred             eEEEEEecC-CcchhhhHHHHHHHHhCCCCCeEEEEEEccccCCCC
Confidence            444 55554 456777775 58888874 67999999999998653

>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=98.01  E-value=2.4e-06  Score=80.76  Aligned_cols=99  Identities=15%  Similarity=0.178  Sum_probs=55.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++.... ...++.+.+    ...+.+.  ++.+.      ...+..+.       ..|+      
T Consensus        22 ~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~----~~~~~~~--~~~~~i~Dt~G~~~~~~~~-------~~~~------   81 (187)
T 1zj6_A           22 VGLDNAGKTTILYQFSMNEVV-HTSPTIGSN----VEEIVIN--NTRFLMWDIGGQESLRSSW-------NTYY------   81 (187)
T ss_dssp             EESTTSSHHHHHHHHHTTSCE-EEECCSCSS----CEEEEET--TEEEEEEECCC----CGGG-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHhcCCCC-cCcCCCccc----eEEEEEC--CEEEEEEECCCCHhHHHHH-------HHHh------
Confidence            999999999999999986654 211222211    1122222  23222      11111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                               ...|+++|++..+.. .+..+...+...+.    ...+++.|++|+|...
T Consensus        82 ---------~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  131 (187)
T 1zj6_A           82 ---------TNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  131 (187)
T ss_dssp             ---------TTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             ---------cCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcC
Confidence                     125789999987643 35555444334433    3679999999999875

>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=98.00  E-value=1.3e-05  Score=85.01  Aligned_cols=45  Identities=18%  Similarity=0.279  Sum_probs=33.7

Q ss_pred             eeEEEEEEcCCCCCC-CcchHHHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         197 IHVCLYFICPTGHGL-KSLDLVCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       197 VH~cLYfI~ps~h~L-k~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                      .||+++++.++...+ ...++.+++.+.. ..++|.|+||+|.+...
T Consensus       173 ~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~  219 (360)
T 3t34_A          173 PNCIILAISPANQDLATSDAIKISREVDPSGDRTFGVLTKIDLMDKG  219 (360)
T ss_dssp             SSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEEEEEECGGGCCTT
T ss_pred             CCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEEEEEeCCccCCCc
Confidence            467888887765444 3555888888875 56999999999998653

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=97.99  E-value=7.7e-06  Score=77.99  Aligned_cols=128  Identities=20%  Similarity=0.307  Sum_probs=63.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+........  +..+....+.+.+..+.+.      ...+..+.       ..|+.     
T Consensus        32 vG~~~~GKSsLi~~l~~~~~~~~~~~t~--~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~-------~~~~~-----   97 (192)
T 2il1_A           32 IGSRGVGKTSLMERFTDDTFCEACKSTV--GVDFKIKTVELRGKKIRLQIWDTAGQERFNSIT-------SAYYR-----   97 (192)
T ss_dssp             ECSTTSSHHHHHHHHCC--------CCT--TEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHhcCCCCcCCCCcc--ceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHH-------HHHhc-----
Confidence            9999999999999999876543322222  2333333444443333333      22333332       22221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH-CCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTS-NGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~-~~I~  260 (650)
                                ..++++|++..+.. .+..+.  +..++.+. ...+++.|++|+|.....+..  ...+...... .++.
T Consensus        98 ----------~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~--~~~~~~~~~~~~~~~  165 (192)
T 2il1_A           98 ----------SAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREIT--RQQGEKFAQQITGMR  165 (192)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSC--HHHHHHHHHTSTTCE
T ss_pred             ----------CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccC--HHHHHHHHHhcCCCe
Confidence                      24688888876531 111111  23344433 367999999999986432211  1112222223 3667


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       166 ~~~~S  170 (192)
T 2il1_A          166 FCEAS  170 (192)
T ss_dssp             EEECB
T ss_pred             EEEEe
Confidence            77664

>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=97.99  E-value=5.2e-06  Score=78.80  Aligned_cols=101  Identities=17%  Similarity=0.258  Sum_probs=56.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.    ......+  ...++.+.      ...+..+.       ..|+      
T Consensus        28 ~G~~~~GKSsli~~l~~~~~~~~~~~t~----~~~~~~~--~~~~~~~~l~Dt~G~~~~~~~~-------~~~~------   88 (188)
T 1zd9_A           28 VGLQYSGKTTFVNVIASGQFNEDMIPTV----GFNMRKI--TKGNVTIKLWDIGGQPRFRSMW-------ERYC------   88 (188)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCSCCCCC----SEEEEEE--EETTEEEEEEEECCSHHHHTTH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCccCCCC----ceeEEEE--EeCCEEEEEEECCCCHhHHHHH-------HHHH------
Confidence            9999999999999999876553322222    2222222  22333333      11222211       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                               ...|+++|++..+.. .+..+...+...+.    ..+++|.|++|+|....
T Consensus        89 ---------~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  139 (188)
T 1zd9_A           89 ---------RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  139 (188)
T ss_dssp             ---------TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             ---------ccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC
Confidence                     124688999886532 34444333333333    46799999999998754

>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=97.99  E-value=3.1e-05  Score=72.52  Aligned_cols=118  Identities=14%  Similarity=0.207  Sum_probs=61.7

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEE---EEE-eeCCceeecchhHHHH-HHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAH---TYE-LQENNVKLKEDSFKSI-VDYIDNQFEAYLQEEL  183 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~---~~~-l~e~g~~L~~~~w~~I-i~yI~~qf~~yL~eE~  183 (650)
                      .+ +|.+|+|||||||.|++..+...  ..++.|......   .+. ++-.|+.- ...|..- ...+......|+... 
T Consensus         5 ~v-~G~~~~GKSsli~~l~~~~~~~~--~~~~~t~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~~~~~~~~~~~~~-   79 (190)
T 2cxx_A            5 IF-AGRSNVGKSTLIYRLTGKKVRRG--KRPGVTRKIIEIEWKNHKIIDMPGFGF-MMGLPKEVQERIKDEIVHFIEDN-   79 (190)
T ss_dssp             EE-EEBTTSSHHHHHHHHHSCCCSSS--SSTTCTTSCEEEEETTEEEEECCCBSC-CTTSCHHHHHHHHHHHHHHHHHH-
T ss_pred             EE-ECCCCCCHHHHHHHHhCcCCccC--CCCCccceeEEEecCCEEEEECCCccc-cccCCHHHHHHHHHHHHHHHHhh-
Confidence            44 99999999999999999864432  222222211111   111 12222110 1112110 111111112233220 


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCC----------CCCCcchHHHHHHhc-cCCCeeeeeecccCCCHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTG----------HGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKS  241 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~----------h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~  241 (650)
                                =..+++|++++.++.          .++...|+++++.+. ..++++.|++|+|.....
T Consensus        80 ----------~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  138 (190)
T 2cxx_A           80 ----------AKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV  138 (190)
T ss_dssp             ----------GGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH
T ss_pred             ----------hccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH
Confidence                      013567888887642          133445666777776 468999999999998754

>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=97.99  E-value=1.4e-06  Score=82.09  Aligned_cols=99  Identities=16%  Similarity=0.187  Sum_probs=56.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+ .....+.+-+.    ..+.+.  ++.+.      ...+..+.                 
T Consensus        27 ~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~----~~~~~~--~~~~~i~Dt~G~~~~~~~~-----------------   82 (181)
T 2h17_A           27 VGLDNAGKTTILYQFSMNEV-VHTSPTIGSNV----EEIVIN--NTRFLMWDIGGQESLRSSW-----------------   82 (181)
T ss_dssp             EEETTSSHHHHHHHHHTTSC-EEEECCSSSSC----EEEEET--TEEEEEEEESSSGGGTCGG-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCC-CccCCcCceee----EEEEEC--CEEEEEEECCCCHhHHHHH-----------------
Confidence            99999999999999999876 22222222111    122222  22222      11121111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                       +.  .+  ...|+++|++..+.. .+..+...+...+.    ...+++.|++|+|...
T Consensus        83 -~~--~~--~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  136 (181)
T 2h17_A           83 -NT--YY--TNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  136 (181)
T ss_dssp             -GG--GG--TTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             -HH--Hh--ccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCccc
Confidence             11  11  235799999987643 34444433444443    4679999999999875

>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=97.99  E-value=1.1e-05  Score=78.21  Aligned_cols=128  Identities=20%  Similarity=0.240  Sum_probs=66.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+  .+..+....+.+.+..+.+.      ...|..+.                 
T Consensus        32 vG~~~vGKSsLi~~l~~~~~~~~~~~t--~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~-----------------   92 (201)
T 2ew1_A           32 IGNAGVGKTCLVRRFTQGLFPPGQGAT--IGVDFMIKTVEINGEKVKLQIWDTAGQERFRSIT-----------------   92 (201)
T ss_dssp             EESTTSSHHHHHHHHHHSSCCTTCCCC--CSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH-----------------
T ss_pred             ECcCCCCHHHHHHHHHhCCCCCCCCCc--cceeEEEEEEEECCEEEEEEEEECCCcHHHHHHH-----------------
Confidence            999999999999999987654322222  22233333344443333332      12222221                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcc--hHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSL--DLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~l--DI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       +.  .+  ...+++++++..+.. .+..+  .+..++.+. ..+++|.|++|+|.....+..  ...+.......++.+
T Consensus        93 -~~--~~--~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~--~~~~~~~~~~~~~~~  165 (201)
T 2ew1_A           93 -QS--YY--RSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVS--QQRAEEFSEAQDMYY  165 (201)
T ss_dssp             -GG--GS--TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSC--HHHHHHHHHHHTCCE
T ss_pred             -HH--HH--hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccC--HHHHHHHHHHcCCEE
Confidence             11  11  135688888876532 11111  122223332 467899999999986432211  111222233457788


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       166 ~~~S  169 (201)
T 2ew1_A          166 LETS  169 (201)
T ss_dssp             EECC
T ss_pred             EEEe
Confidence            8775

>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=97.98  E-value=6.7e-06  Score=75.92  Aligned_cols=133  Identities=14%  Similarity=0.088  Sum_probs=60.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhhhhccc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKIKRSLN  190 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~  190 (650)
                      +|.+|+|||||||.|++...... ...++.+...  ..+.+.+..+.+. -+.|..- .+   .+ ..+      .+.  
T Consensus        10 ~G~~~vGKSsl~~~l~~~~~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~D~~g~~-~~---~~-~~~------~~~--   73 (175)
T 2nzj_A           10 LGDPGVGKTSLASLFAGKQERDL-HEQLGEDVYE--RTLTVDGEDTTLVVVDTWEAE-KL---DK-SWS------QES--   73 (175)
T ss_dssp             ECCTTSSHHHHHHHHHCC------CCCSSSSEEE--EEEEETTEEEEEEEECCC------------CHH------HHH--
T ss_pred             ECCCCccHHHHHHHHhcCCCccc-cCccccceeE--EEEEECCEEEEEEEEecCCCC-cc---ch-hhh------HHh--
Confidence            99999999999999998765432 2233333322  2334443333333 1111110 00   00 011      111  


Q ss_pred             ccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeC
Q psy8479         191 TYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEF  264 (650)
Q Consensus       191 ~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f  264 (650)
                      .+.  ..|++++++..+. ..+..+. .++..|.     ..+++|.|++|+|.....+...  ..+.......++.+|..
T Consensus        74 ~~~--~~~~~i~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~--~~~~~~~~~~~~~~~~~  148 (175)
T 2nzj_A           74 CLQ--GGSAYVIVYSIADRGSFESAS-ELRIQLRRTHQADHVPIILVGNKADLARCREVSV--EEGRACAVVFDCKFIET  148 (175)
T ss_dssp             TTT--SCSEEEEEEETTCHHHHHHHH-HHHHHHHHCC----CCEEEEEECTTCTTTCCSCH--HHHHHHHHHHTSEEEEC
T ss_pred             hcc--cCCEEEEEEECCCHHHHHHHH-HHHHHHHHhhccCCCCEEEEEEChhhccccccCH--HHHHHHHHHcCCeEEEE
Confidence            111  2356777776542 1222222 2233332     2679999999999875322111  11222223456777776


Q ss_pred             C
Q psy8479         265 P  265 (650)
Q Consensus       265 ~  265 (650)
                      .
T Consensus       149 S  149 (175)
T 2nzj_A          149 S  149 (175)
T ss_dssp             B
T ss_pred             e
Confidence            5

>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=97.98  E-value=7.1e-06  Score=78.34  Aligned_cols=127  Identities=16%  Similarity=0.248  Sum_probs=65.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+  .+..+....+.+.+..+.+.     + ..|..+.                 
T Consensus        14 ~G~~~~GKSsli~~l~~~~~~~~~~~t--~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------------   74 (207)
T 1vg8_A           14 LGDSGVGKTSLMNQYVNKKFSNQYKAT--IGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLG-----------------   74 (207)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCSSCCCC--CSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSC-----------------
T ss_pred             ECcCCCCHHHHHHHHHcCCCCCCCCCc--ccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhH-----------------
Confidence            999999999999999988755432222  22333333344444333333     1 1111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchH---HHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHH-H
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDL---VCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELT-S  256 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI---~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~-~  256 (650)
                       +.  .+  ...|+++|++..+.. .+..++.   .+.....    ..++++.|++|+|.......   ...+..... .
T Consensus        75 -~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~---~~~~~~~~~~~  146 (207)
T 1vg8_A           75 -VA--FY--RGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVA---TKRAQAWCYSK  146 (207)
T ss_dssp             -CG--GG--TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSC---HHHHHHHHHHT
T ss_pred             -HH--HH--hCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccccC---HHHHHHHHHhc
Confidence             11  11  235788998876532 1222211   1222222    36799999999998732211   112222222 4


Q ss_pred             CCCcEEeCC
Q psy8479         257 NGVHIYEFP  265 (650)
Q Consensus       257 ~~I~if~f~  265 (650)
                      .++.+|...
T Consensus       147 ~~~~~~~~S  155 (207)
T 1vg8_A          147 NNIPYFETS  155 (207)
T ss_dssp             TSCCEEECB
T ss_pred             CCceEEEEe
Confidence            567777665

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=97.98  E-value=4.3e-06  Score=80.19  Aligned_cols=127  Identities=17%  Similarity=0.207  Sum_probs=63.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+  ..+ ...+.+.+.++.+.      ...|..+.                 
T Consensus        30 vG~~~~GKSsli~~l~~~~~~~~~~~t~~--~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------------   89 (201)
T 3oes_A           30 LGYRCVGKTSLAHQFVEGEFSEGYDPTVE--NTY-SKIVTLGKDEFHLHLVDTAGQDEYSILP-----------------   89 (201)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCSCCCCCSE--EEE-EEEEC----CEEEEEEEECCCCTTCCCC-----------------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCCCCCccc--eEE-EEEEEECCEEEEEEEEECCCccchHHHH-----------------
Confidence            99999999999999999876543222211  111 11222333333332      11111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                       ..  .+  ...+++++++..+.. .+..+. .+++.+.     ..+++|.|++|+|.....+...  ..........++
T Consensus        90 -~~--~~--~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~--~~~~~~~~~~~~  161 (201)
T 3oes_A           90 -YS--FI--IGVHGYVLVYSVTSLHSFQVIE-SLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQA--VEGKKLAESWGA  161 (201)
T ss_dssp             -GG--GT--TTCCEEEEEEETTCHHHHHHHH-HHHHHHHC-----CCCEEEEEECTTCGGGCCSCH--HHHHHHHHHHTC
T ss_pred             -HH--HH--hcCCEEEEEEeCCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccCccccccCH--HHHHHHHHHhCC
Confidence             11  11  125788888876531 112221 2333332     2569999999999764322111  112223344577


Q ss_pred             cEEeCCC
Q psy8479         260 HIYEFPT  266 (650)
Q Consensus       260 ~if~f~~  266 (650)
                      .+|....
T Consensus       162 ~~~~~Sa  168 (201)
T 3oes_A          162 TFMESSA  168 (201)
T ss_dssp             EEEECCT
T ss_pred             eEEEEeC
Confidence            8887764

>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=97.98  E-value=8.2e-06  Score=90.48  Aligned_cols=124  Identities=13%  Similarity=0.116  Sum_probs=60.1

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      .|+... ||.+|+|||||+|+|++.+.. ..+..++.|..+....+.+.+..+.|. .-....        +...+.. .
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a-~vs~~~gtT~d~~~~~i~~~g~~l~liDT~G~~~--------~~~~ve~-~  301 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERA-IVSHMPGTTRDYIEECFIHDKTMFRLTDTAGLRE--------AGEEIEH-E  301 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC-------------------CEEEEETTEEEEEEC-----------------------
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCc-ccCCCCCceEEEEEEEEEECCeEEEEEECCCCCc--------chhHHHH-H
Confidence            455444 999999999999999997532 233344445544434444433222222 111111        1111111 1


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCc----chHHHHHHhccCCCeeeeeecccCCCHHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKS----LDLVCMKKLDSKVNIIPIIAKADTISKSEL  243 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~----lDI~~mk~L~~~vnvIPVItKAD~Lt~~El  243 (650)
                      .+.+....+  ...|+++|++..+ ++...    .+..+++.+. ..++|.|++|+|.....+.
T Consensus       302 gi~~~~~~~--~~aD~vl~VvD~s-~~~s~~~~~~~~~~l~~l~-~~piIvV~NK~Dl~~~~~~  361 (476)
T 3gee_A          302 GIRRSRMKM--AEADLILYLLDLG-TERLDDELTEIRELKAAHP-AAKFLTVANKLDRAANADA  361 (476)
T ss_dssp             ------CCC--SSCSEEEEEEETT-TCSSGGGHHHHHHHHHHCT-TSEEEEEEECTTSCTTTHH
T ss_pred             HHHHHHhhc--ccCCEEEEEEECC-CCcchhhhHHHHHHHHhcC-CCCEEEEEECcCCCCccch
Confidence            122221112  3457899999876 34554    5677777776 6799999999999876654

>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=97.97  E-value=5.6e-06  Score=75.96  Aligned_cols=125  Identities=13%  Similarity=0.063  Sum_probs=57.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..... .+..++.+..   ..+.+.+..+.+.      ...+..+.       ..|+      
T Consensus         8 vG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~---~~~~~~~~~~~~~i~D~~g~~~~~~~~-------~~~~------   70 (166)
T 3q72_A            8 LGAPGVGKSALARIFGGVEDGP-EAEAAGHTYD---RSIVVDGEEASLMVYDIWEQDGGRWLP-------GHCM------   70 (166)
T ss_dssp             EESTTSSHHHHHHHHCCC-----------CEEE---EEEEETTEEEEEEEEECC--------------------------
T ss_pred             ECCCCCCHHHHHHHHcCccccC-CCCccccceE---EEEEECCEEEEEEEEECCCCccchhhh-------hhhh------
Confidence            9999999999999999865432 2223333322   1233333333333      11111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                               ...+++++++..+.. .+..+.. ++..+.     ..++++.|++|+|.....+..  ...........++
T Consensus        71 ---------~~~~~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~  138 (166)
T 3q72_A           71 ---------AMGDAYVIVYSVTDKGSFEKASE-LRVQLRRARQTDDVPIILVGNKSDLVRSREVS--VDEGRACAVVFDC  138 (166)
T ss_dssp             -----------CCEEEEEEETTCHHHHHHHHH-HHHHHHHCC---CCCEEEEEECTTCCSSCCSC--HHHHHHHHHHTTC
T ss_pred             ---------hhCCEEEEEEECCCHHHHHHHHH-HHHHHHHhcCCCCCCEEEEEeccccccccccC--HHHHHHHHHHhCC
Confidence                     123567777765422 1222221 222222     357999999999987433221  1112233345677


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       139 ~~~~~S  144 (166)
T 3q72_A          139 KFIETS  144 (166)
T ss_dssp             EEEECB
T ss_pred             cEEEec
Confidence            777665

>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=97.97  E-value=5.9e-06  Score=79.63  Aligned_cols=127  Identities=17%  Similarity=0.212  Sum_probs=63.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.  .+....+.+.+..+.+.      ...+..+.       ..|+      
T Consensus        35 vG~~~vGKSsli~~l~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-------~~~~------   99 (201)
T 2hup_A           35 VGDASVGKTCVVQRFKTGAFSERQGSTIGV--DFTMKTLEIQGKRVKLQIWDTAGQERFRTIT-------QSYY------   99 (201)
T ss_dssp             EECTTSSHHHHHHHHHHSCC------------CEEEEEEEETTEEEEEEEECCTTCGGGHHHH-------HHHH------
T ss_pred             ECcCCCCHHHHHHHHhhCCCCCCCCCCcce--EEEEEEEEECCEEEEEEEEECCCcHhHHHHH-------HHHH------
Confidence            999999999999999987654322222111  12222333333223332      12233222       1121      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC-
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV-  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I-  259 (650)
                       +        ..++++|++..+.. .+..+. .++..+.    ..+++|.|++|+|.....+.  ....+.+.+...++ 
T Consensus       100 -~--------~~d~iilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v--~~~~~~~~~~~~~~~  167 (201)
T 2hup_A          100 -R--------SANGAILAYDITKRSSFLSVP-HWIEDVRKYAGSNIVQLLIGNKSDLSELREV--SLAEAQSLAEHYDIL  167 (201)
T ss_dssp             -T--------TCSEEEEEEETTBHHHHHTHH-HHHHHHHHHSCTTCEEEEEEECTTCGGGCCS--CHHHHHHHHHHTTCS
T ss_pred             -h--------hCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCCEEEEEECCcccccccc--CHHHHHHHHHHcCCC
Confidence             1        24688888886531 122222 2333332    45799999999998642111  11223334455677 


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       168 ~~~~~S  173 (201)
T 2hup_A          168 CAIETS  173 (201)
T ss_dssp             EEEECB
T ss_pred             EEEEEe
Confidence            777665

>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=97.96  E-value=6.3e-06  Score=83.79  Aligned_cols=134  Identities=14%  Similarity=0.142  Sum_probs=70.5

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHH-HHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQ-FEAYLQEE  182 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~q-f~~yL~eE  182 (650)
                      +.+ +|.+|+|||||+|+|++....  .+..++.|+......+...+..+.|.    .+.+.+..  .++. -..|+.. 
T Consensus         8 I~l-vG~~nvGKTsL~n~l~g~~~~--~~~~pg~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~--~~e~v~~~~~~~-   81 (258)
T 3a1s_A            8 VAL-AGCPNVGKTSLFNALTGTKQY--VANWPGVTVEKKEGVFTYKGYTINLIDLPGTYSLGYSS--IDEKIARDYLLK-   81 (258)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHTTCEE--EEECTTSCCEEEEEEEEETTEEEEEEECCCCSSCCSSS--HHHHHHHHHHHH-
T ss_pred             EEE-ECCCCCCHHHHHHHHHCCCCc--ccCCCCceEEEEEEEEEECCeEEEEEECCCcCccCCCC--HHHHHHHHHHhh-
Confidence            344 999999999999999987643  23334555554433333222122222    11111100  0000 0122211 


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                                  ...|++++++..+.  +. ..+.++..|. ..+|++.|++|+|.........   .+.......++.+
T Consensus        82 ------------~~~d~ii~V~D~t~--~~-~~~~~~~~l~~~~~pvilv~NK~Dl~~~~~i~~---~~~~l~~~lg~~v  143 (258)
T 3a1s_A           82 ------------GDADLVILVADSVN--PE-QSLYLLLEILEMEKKVILAMTAIDEAKKTGMKI---DRYELQKHLGIPV  143 (258)
T ss_dssp             ------------SCCSEEEEEEETTS--CH-HHHHHHHHHHTTTCCEEEEEECHHHHHHTTCCB---CHHHHHHHHCSCE
T ss_pred             ------------cCCCEEEEEeCCCc--hh-hHHHHHHHHHhcCCCEEEEEECcCCCCccchHH---HHHHHHHHcCCCE
Confidence                        24689999998753  32 2334445554 4679999999999754322211   1122223346788


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      +...
T Consensus       144 i~~S  147 (258)
T 3a1s_A          144 VFTS  147 (258)
T ss_dssp             EECC
T ss_pred             EEEE
Confidence            8765

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=97.96  E-value=2.2e-06  Score=81.10  Aligned_cols=45  Identities=16%  Similarity=0.145  Sum_probs=31.3

Q ss_pred             eeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         196 RIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       196 RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                      ..|+++|++..+.. .+......+.+.+.    ...+++.|++|+|....
T Consensus        89 ~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  138 (189)
T 2x77_A           89 DTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDA  138 (189)
T ss_dssp             TCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTC
T ss_pred             cCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCC
Confidence            56899999987632 34544444444444    26799999999999865

>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=97.95  E-value=9.6e-06  Score=88.53  Aligned_cols=143  Identities=14%  Similarity=0.131  Sum_probs=71.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHH--HHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAY--LQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~y--L~eE~~i~R~  188 (650)
                      ||++|+|||||||.|++.... ..+..++.|.......+.+.+..+.+. ...+..-..+.....+.|  +.....+   
T Consensus       186 vG~~gvGKSTLln~l~g~~~~-~v~~~~gtT~d~~~~~i~~~g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i---  261 (439)
T 1mky_A          186 VGRPNVGKSTLFNAILNKERA-LVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSI---  261 (439)
T ss_dssp             ECSTTSSHHHHHHHHHTSTTE-EECCCC------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHHHHH---
T ss_pred             ECCCCCCHHHHHHHHhCCccc-ccCCCCCCcCCceEEEEEECCEEEEEEECCCCccccccchhhHHHHHHHHHHHHH---
Confidence            999999999999999997532 122333333322222333333222222 111110000000000000  0000001   


Q ss_pred             ccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHH--HHHHHHHHHHHHHH-CCCcEEeC
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSE--LQKFKTNIMTELTS-NGVHIYEF  264 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~E--l~~~K~~I~~~L~~-~~I~if~f  264 (650)
                            ...++|++++..+ .++...|..++..+. ...+++.|++|+|.+...+  +..+++.+.+.+.. .+..++..
T Consensus       262 ------~~ad~vllv~d~~-~~~~~~~~~i~~~l~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (439)
T 1mky_A          262 ------EKADVVVIVLDAT-QGITRQDQRMAGLMERRGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFT  334 (439)
T ss_dssp             ------HHCSEEEEEEETT-TCCCHHHHHHHHHHHHTTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEEC
T ss_pred             ------hhCCEEEEEEeCC-CCCCHHHHHHHHHHHHcCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEE
Confidence                  1236788887765 466677777777776 4679999999999986543  44455555555543 34555544


Q ss_pred             C
Q psy8479         265 P  265 (650)
Q Consensus       265 ~  265 (650)
                      .
T Consensus       335 S  335 (439)
T 1mky_A          335 S  335 (439)
T ss_dssp             B
T ss_pred             E
Confidence            3

>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=97.94  E-value=2.5e-06  Score=86.77  Aligned_cols=130  Identities=19%  Similarity=0.196  Sum_probs=70.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---------chhHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---------EDSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---------~~~w~~Ii~yI~~qf~~y  178 (650)
                      +.| +|.+|+|||||+|+|++...  ..+..++.|+......+.+.+..+.+.         ......++.      ..|
T Consensus         6 i~l-vG~~g~GKTTL~n~l~g~~~--~~~~~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~------~~~   76 (271)
T 3k53_A            6 VAL-VGNPNVGKTTIFNALTGLRQ--HVGNWPGVTVEKKEGIMEYREKEFLVVDLPGIYSLTAHSIDELIA------RNF   76 (271)
T ss_dssp             EEE-EECSSSSHHHHHHHHHTTCE--EEEECTTSSCEEEEEEEEETTEEEEEEECCCCSCCCSSCHHHHHH------HHH
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCc--ccCCCCCeEEEeeEEEEEECCceEEEEeCCCccccccCCHHHHHH------HHh
Confidence            445 99999999999999999754  233344455544433333322222222         222222211      122


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cC-CCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SK-VNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~-vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                      +             ...+.++++|++..+.  + ...+.++..+. .. .|++.|++|+|...........+.+.+.   
T Consensus        77 ~-------------~~~~~d~vi~v~D~~~--~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~---  137 (271)
T 3k53_A           77 I-------------LDGNADVIVDIVDSTC--L-MRNLFLTLELFEMEVKNIILVLNKFDLLKKKGAKIDIKKMRKE---  137 (271)
T ss_dssp             H-------------HTTCCSEEEEEEEGGG--H-HHHHHHHHHHHHTTCCSEEEEEECHHHHHHHTCCCCHHHHHHH---
T ss_pred             h-------------hccCCcEEEEEecCCc--c-hhhHHHHHHHHhcCCCCEEEEEEChhcCcccccHHHHHHHHHH---
Confidence            2             1235678999998753  2 22333344443 34 8999999999976443222222223332   


Q ss_pred             CCCcEEeCC
Q psy8479         257 NGVHIYEFP  265 (650)
Q Consensus       257 ~~I~if~f~  265 (650)
                      .++.++...
T Consensus       138 lg~~~~~~S  146 (271)
T 3k53_A          138 LGVPVIPTN  146 (271)
T ss_dssp             HSSCEEECB
T ss_pred             cCCcEEEEE
Confidence            367777664

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=97.94  E-value=4.2e-06  Score=81.92  Aligned_cols=127  Identities=16%  Similarity=0.195  Sum_probs=62.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.+  +....+.+.+..+.+.     + ..|..+                  
T Consensus        19 ~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~------------------   78 (223)
T 3cpj_B           19 IGDSGVGKSNLLSRFTKNEFNMDSKSTIGVE--FATRTLEIEGKRIKAQIWDTAGQERYRAI------------------   78 (223)
T ss_dssp             ESCTTSSHHHHHHHHHHCCCCC------CCS--EEEEEEEETTEEEEEEEECCTTTTTTTCC------------------
T ss_pred             ECcCCCCHHHHHHHHhcCCCCCCCCCcccce--eEEEEEEECCEEEEEEEEECCCccchhhh------------------
Confidence            9999999999999999876544322222222  2222333333223332     1 111111                  


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                      .+.  .+  ...|+++|++..+.. .+..+. .++..+.    ..+++|.|++|+|.....+..  ...+.......++.
T Consensus        79 ~~~--~~--~~~d~vilV~D~~~~~s~~~~~-~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~  151 (223)
T 3cpj_B           79 TSA--YY--RGAVGALIVYDISKSSSYENCN-HWLSELRENADDNVAVGLIGNKSDLAHLRAVP--TEESKTFAQENQLL  151 (223)
T ss_dssp             CGG--GT--TTCCEEEEEEC-CCHHHHHHHH-HHHHHHHHHCC--CEEEEEECCGGGGGGCCSC--HHHHHHHHHHTTCE
T ss_pred             HHH--Hh--ccCCEEEEEEeCCCHHHHHHHH-HHHHHHHHhCCCCCeEEEEEECcccccccccC--HHHHHHHHHHcCCE
Confidence            111  11  235788888876531 111111 1222232    367999999999986432211  11223334456788


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       152 ~~~~S  156 (223)
T 3cpj_B          152 FTETS  156 (223)
T ss_dssp             EEECC
T ss_pred             EEEEe
Confidence            88765

>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=97.93  E-value=8e-06  Score=75.13  Aligned_cols=128  Identities=16%  Similarity=0.114  Sum_probs=59.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..........+  +.......+.+.+..+.+.      ...+...+   .   ..|+.     
T Consensus         8 vG~~~~GKSsli~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~---~---~~~~~-----   74 (169)
T 3q85_A            8 VGESGVGKSTLAGTFGGLQGDHAHEMEN--SEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWL---Q---DHCLQ-----   74 (169)
T ss_dssp             ECSTTSSHHHHHHHHHCC--------------CEEEEEEEETTEEEEEEEECCCCC--------------CHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHhccCcccccCCC--cCCeeeEEEEECCeEEEEEEEECCCccccchhh---h---hhhhc-----
Confidence            9999999999999999765433211111  1222222333443334333      11111111   0   01111     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                                ..|++++++..+.. .+..++. ++..+.     ..++++.|++|+|.....+.  ....+.+.....++
T Consensus        75 ----------~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~  141 (169)
T 3q85_A           75 ----------TGDAFLIVFSVTDRRSFSKVPE-TLLRLRAGRPHHDLPVILVGNKSDLARSREV--SLEEGRHLAGTLSC  141 (169)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHTHHH-HHHHHHHHSTTSCCCEEEEEECTTCGGGCCS--CHHHHHHHHHHTTC
T ss_pred             ----------cCCEEEEEEECCChHHHHHHHH-HHHHHHhcccCCCCCEEEEeeCcchhhcccC--CHHHHHHHHHHcCC
Confidence                      13677777775431 2222322 222222     26799999999997632221  11223333445677


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .++...
T Consensus       142 ~~~~~S  147 (169)
T 3q85_A          142 KHIETS  147 (169)
T ss_dssp             EEEECB
T ss_pred             cEEEec
Confidence            777665

>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=97.93  E-value=7.7e-06  Score=76.40  Aligned_cols=128  Identities=13%  Similarity=0.086  Sum_probs=64.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.+.   ...+.+.+..+.+.      ...+..+.                 
T Consensus        12 ~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------------   71 (181)
T 3t5g_A           12 LGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF---TKLITVNGQEYHLQLVDTAGQDEYSIFP-----------------   71 (181)
T ss_dssp             EESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE---EEEEEETTEEEEEEEEECCCCCTTCCCC-----------------
T ss_pred             ECcCCCCHHHHHHHHHcCCCCCCCCCCccccE---EEEEEECCEEEEEEEEeCCCchhhhHHH-----------------
Confidence            99999999999999997665443333222221   12223333223322      11111110                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC----CCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH----GLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h----~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +.  .+  ...|++++++..+..    .+......+++.+. ..++++.|++|+|.....+.  ....+.......++.
T Consensus        72 -~~--~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  144 (181)
T 3t5g_A           72 -QT--YS--IDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI--SYEEGKALAESWNAA  144 (181)
T ss_dssp             -GG--GT--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCS--CHHHHHHHHHHTTCE
T ss_pred             -HH--HH--hcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhccee--cHHHHHHHHHHhCCc
Confidence             11  11  125677887775431    11111123333433 36799999999997532211  112233344556778


Q ss_pred             EEeCCC
Q psy8479         261 IYEFPT  266 (650)
Q Consensus       261 if~f~~  266 (650)
                      +|....
T Consensus       145 ~~~~Sa  150 (181)
T 3t5g_A          145 FLESSA  150 (181)
T ss_dssp             EEECCT
T ss_pred             EEEEec
Confidence            887764

>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=97.92  E-value=2e-05  Score=76.92  Aligned_cols=103  Identities=15%  Similarity=0.175  Sum_probs=54.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.  .+ ...+.+.+..+.+.      ...+..+.                 
T Consensus        33 vG~~~vGKSsL~~~l~~~~~~~~~~~t~~~--~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-----------------   92 (214)
T 3q3j_B           33 VGDVQCGKTAMLQVLAKDCYPETYVPTVFE--NY-TACLETEEQRVELSLWDTSGSPYYDNVR-----------------   92 (214)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCSSCCCCSEE--EE-EEEEEC--CEEEEEEEEECCSGGGTTTG-----------------
T ss_pred             ECcCCCCHHHHHHHHhcCCCCCCcCCeeee--eE-EEEEEECCEEEEEEEEECCCCHhHHHHH-----------------
Confidence            999999999999999987754332222211  11 11233444444433      11222111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh---ccCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL---DSKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L---~~~vnvIPVItKAD~Lt  239 (650)
                       +.  .+.  ..+++++++..+.. .+...-..++..+   ...+++|.|.+|+|...
T Consensus        93 -~~--~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  145 (214)
T 3q3j_B           93 -PL--CYS--DSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRT  145 (214)
T ss_dssp             -GG--GCT--TCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGG
T ss_pred             -HH--HcC--CCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcc
Confidence             11  122  25788888876532 1111111233333   34779999999999854

>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=97.92  E-value=2.1e-05  Score=83.37  Aligned_cols=43  Identities=21%  Similarity=0.256  Sum_probs=31.6

Q ss_pred             eEEEEEEcCCCCCCCcchHH-HHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         198 HVCLYFICPTGHGLKSLDLV-CMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       198 H~cLYfI~ps~h~Lk~lDI~-~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                      +++|++++ ....+...|.. +++.+.. ..++|.|+||+|.+...
T Consensus       169 ~iiL~v~~-a~~~~~~~~~~~i~~~~~~~~~~~i~V~NK~Dl~~~~  213 (353)
T 2x2e_A          169 CLILAVSP-ANSDLANSDALKVAKEVDPQGQRTIGVITKLDLMDEG  213 (353)
T ss_dssp             EEEEEEEE-TTSCGGGCHHHHHHHHHCTTCTTEEEEEECGGGSCTT
T ss_pred             eEEEEEec-CCCccchhHHHHHHHHhCcCCCceEEEeccccccCcc
Confidence            45555554 44678777764 8888874 67999999999998653

>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=97.92  E-value=2.6e-05  Score=74.10  Aligned_cols=22  Identities=32%  Similarity=0.386  Sum_probs=19.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|++..+..
T Consensus        27 vG~~~vGKTsLi~~l~~~~~~~   48 (187)
T 3c5c_A           27 LGRRGAGKSALTVKFLTKRFIS   48 (187)
T ss_dssp             ECCTTSSHHHHHHHHHHSSCCS
T ss_pred             ECCCCCcHHHHHHHHHhCCCCc
Confidence            9999999999999999877544

>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=97.91  E-value=3.6e-06  Score=80.95  Aligned_cols=130  Identities=18%  Similarity=0.192  Sum_probs=60.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|.+|+|||||||.|++..+........+.  .+....+.+.+..+.+.   .....        .|.       .+.+.
T Consensus        31 ~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~~l~l~Dt~G~~--------~~~-------~~~~~   93 (200)
T 2o52_A           31 IGSAGTGKSCLLHQFIENKFKQDSNHTIGV--EFGSRVVNVGGKTVKLQIWDTAGQE--------RFR-------SVTRS   93 (200)
T ss_dssp             EESTTSSHHHHHHHHHC------------C--CEEEEEEEETTEEEEEEEECCTTHH--------HHS-------CCCHH
T ss_pred             ECcCCCCHHHHHHHHHhCCCCccCCCcccc--eeEEEEEEECCeeeEEEEEcCCCcH--------hHH-------HHHHH
Confidence            999999999999999987654332222221  12222333333223332   11100        000       00000


Q ss_pred             ccccCCceeeEEEEEEcCCCCC-CCcchHHHHHHh----ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEe
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHG-LKSLDLVCMKKL----DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYE  263 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~-Lk~lDI~~mk~L----~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~  263 (650)
                        .+  ...|+++|++..+... +..+ ..++..+    ...++++.|++|+|.....+..  ...+.......++.+|.
T Consensus        94 --~~--~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~~~~  166 (200)
T 2o52_A           94 --YY--RGAAGALLVYDITSRETYNSL-AAWLTDARTLASPNIVVILCGNKKDLDPEREVT--FLEASRFAQENELMFLE  166 (200)
T ss_dssp             --HH--TTCSEEEEEEETTCHHHHHTH-HHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSC--HHHHHHHHHHTTCEEEE
T ss_pred             --Hh--ccCCEEEEEEECcCHHHHHHH-HHHHHHHHHhcCCCCcEEEEEECCCcccccccC--HHHHHHHHHHcCCEEEE
Confidence              01  1257888888865321 1111 1222223    2467999999999985432211  12233344557788877


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       167 ~S  168 (200)
T 2o52_A          167 TS  168 (200)
T ss_dssp             EC
T ss_pred             Ee
Confidence            65

>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=97.90  E-value=2.4e-06  Score=80.02  Aligned_cols=130  Identities=18%  Similarity=0.259  Sum_probs=48.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|.+|+|||||||.|++..+.....  +..+..+....+.+.+..+.+.   .....        .|.       .+.+.
T Consensus        14 ~G~~~~GKssl~~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~--------~~~-------~~~~~   76 (183)
T 2fu5_C           14 IGDSGVGKTCVLFRFSEDAFNSTFI--STIGIDFKIRTIELDGKRIKLQIWDTAGQE--------RFR-------TITTA   76 (183)
T ss_dssp             ECCCCC----------------CHH--HHHCEEEEEEEEEETTEEEEEEEEEC------------------------CCT
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCC--CcccceeEEEEEEECCEEEEEEEEcCCCCh--------hhh-------hhHHH
Confidence            9999999999999999765432211  1112223223344433223333   11100        000       01111


Q ss_pred             ccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEe
Q psy8479         189 LNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYE  263 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~  263 (650)
                        .+  ...|++++++..+.. .+..+. .++..+.    ..++++.|++|+|.....+..  ...+.......++.+|.
T Consensus        77 --~~--~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~--~~~~~~~~~~~~~~~~~  149 (183)
T 2fu5_C           77 --YY--RGAMGIMLVYDITNEKSFDNIR-NWIRNIEEHASADVEKMILGNKCDVNDKRQVS--KERGEKLALDYGIKFME  149 (183)
T ss_dssp             --TT--TTCSEEEEEEETTCHHHHHHHH-HHHHHHHHHSCTTCEEEEEEEC--CCSCCCSC--HHHHHHHHHHHTCEEEE
T ss_pred             --HH--hcCCEEEEEEECcCHHHHHHHH-HHHHHHHHhcCCCCCEEEEEECccCCccCcCC--HHHHHHHHHHcCCeEEE
Confidence              12  245789999886542 111111 2233332    367999999999986421110  11122233445778887


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       150 ~S  151 (183)
T 2fu5_C          150 TS  151 (183)
T ss_dssp             CC
T ss_pred             Ee
Confidence            65

>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=97.88  E-value=1.6e-05  Score=87.24  Aligned_cols=68  Identities=15%  Similarity=0.179  Sum_probs=48.2

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHH--HHHHHHHHHHHHHHH-CCCcEEeCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKS--ELQKFKTNIMTELTS-NGVHIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~--El~~~K~~I~~~L~~-~~I~if~f~  265 (650)
                      .++|++++..+ .++.+.|..++..+.. ..++|.|++|+|.....  ....+++.+.+.+.. .++.++...
T Consensus       278 ad~~llviD~~-~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  349 (456)
T 4dcu_A          278 SEVVAVVLDGE-EGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMS  349 (456)
T ss_dssp             CSEEEEEEETT-TCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECC
T ss_pred             CCEEEEEEeCC-CCcCHHHHHHHHHHHHcCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEc
Confidence            46888888865 5888999988888874 67999999999988543  334555555555543 245666554

>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=97.87  E-value=7.1e-06  Score=78.47  Aligned_cols=106  Identities=14%  Similarity=0.205  Sum_probs=57.3

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~y  178 (650)
                      +.+.+. +|.+|+|||||||.|++..+...     .+|+.+....+.+  .++.+.      ...+..+.       ..|
T Consensus        28 ~~~ki~v~G~~~vGKSsLi~~l~~~~~~~~-----~~t~~~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~-------~~~   93 (192)
T 2b6h_A           28 KQMRILMVGLDAAGKTTILYKLKLGEIVTT-----IPTIGFNVETVEY--KNICFTVWDVGGQDKIRPLW-------RHY   93 (192)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCSSCCEEE-----EEETTEEEEEEEE--TTEEEEEEECC-----CTTH-------HHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHhCCcccc-----CCcCceeEEEEEE--CCEEEEEEECCCCHhHHHHH-------HHH
Confidence            344444 99999999999999998764321     1122222222322  333333      11122211       111


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                      +       +        ..++++|++..+.. .+..+...+...+.    ..++++.|++|+|....
T Consensus        94 ~-------~--------~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  145 (192)
T 2b6h_A           94 F-------Q--------NTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA  145 (192)
T ss_dssp             H-------H--------TCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             h-------c--------cCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCC
Confidence            1       1        24688888886532 23444433333333    26799999999998764

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=97.85  E-value=7.1e-05  Score=79.34  Aligned_cols=65  Identities=12%  Similarity=0.345  Sum_probs=41.7

Q ss_pred             eeEEEEEEcCCCC-CCCcch-HHHHHHhcc---CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         197 IHVCLYFICPTGH-GLKSLD-LVCMKKLDS---KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h-~Lk~lD-I~~mk~L~~---~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      .|++||++..+.. ++...+ ..++..+..   ..++|.|++|+|.....++...    .+.+...++.++...
T Consensus       247 ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~Dl~~~~~~~~~----~~~~~~~~~~~~~iS  316 (357)
T 2e87_A          247 GNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKIDVADEENIKRL----EKFVKEKGLNPIKIS  316 (357)
T ss_dssp             CSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTTTCCHHHHHHH----HHHHHHTTCCCEECB
T ss_pred             CCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcccCChHHHHHH----HHHHHhcCCCeEEEe
Confidence            4689999986532 222222 344444443   6799999999999987765333    334445677777665

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=97.85  E-value=6.9e-05  Score=86.74  Aligned_cols=44  Identities=9%  Similarity=0.188  Sum_probs=34.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHH-Hhcc-CCCeeeeeecccCCCHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMK-KLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk-~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                      .|++||++.++ +++...++.++. .+.. ..+++.|++|+|.+...
T Consensus       201 aD~vL~Vvda~-~~~s~~e~~~l~~~l~~~~~~iiiVlNK~Dl~~~~  246 (695)
T 2j69_A          201 CHAILFVMRAS-QPCTLGERRYLENYIKGRGLTVFFLVNAWDQVRES  246 (695)
T ss_dssp             SSEEEEEEETT-STTCHHHHHHHHHHTTTSCCCEEEEEECGGGGGGG
T ss_pred             CCEEEEEEeCC-CccchhHHHHHHHHHHhhCCCEEEEEECccccccc
Confidence            68999999875 567788888775 4553 55899999999987653

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=97.84  E-value=7.1e-06  Score=77.15  Aligned_cols=107  Identities=19%  Similarity=0.199  Sum_probs=56.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chh------HHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDS------FKSIVDYIDNQFEA  177 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~------w~~Ii~yI~~qf~~  177 (650)
                      +.+ +|.+|+|||||+|.|++....  .+..++.|.......+.+.+..+.+.    ...      +..+.       ..
T Consensus        10 i~l-vG~~gvGKStL~~~l~~~~~~--~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~-------~~   79 (188)
T 2wjg_A           10 IAL-IGNPNVGKSTIFNALTGENVY--IGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIA-------RD   79 (188)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHTTCEE--EEECTTSCCEEEEEEEEETTEEEEEEECCCCSCCSSSSHHHHHH-------HH
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCcc--ccCCCCeeccceEEEEEeCCcEEEEEECCCcCccccccHHHHHH-------HH
Confidence            344 999999999999999986432  12223333333322333322111221    011      11221       12


Q ss_pred             HHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCH
Q psy8479         178 YLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISK  240 (650)
Q Consensus       178 yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~  240 (650)
                      |+..             ...+++++++..+.  +. ....++..+. ...++|.|++|+|....
T Consensus        80 ~~~~-------------~~~~~~i~v~d~~~--~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~  127 (188)
T 2wjg_A           80 YIIN-------------EKPDLVVNIVDATA--LE-RNLYLTLQLMEMGANLLLALNKMDLAKS  127 (188)
T ss_dssp             HHHH-------------HCCSEEEEEEEGGG--HH-HHHHHHHHHHTTTCCEEEEEECHHHHHH
T ss_pred             HHhc-------------cCCCEEEEEecchh--HH-HHHHHHHHHHhcCCCEEEEEEhhhcccc
Confidence            2221             12467888887642  22 2233444444 46799999999997543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=97.83  E-value=2.7e-06  Score=92.97  Aligned_cols=133  Identities=11%  Similarity=0.100  Sum_probs=69.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC-ceeec----chhHHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN-NVKLK----EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~-g~~L~----~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      +.+ +|.+|+|||||||.|++..+.. .+..++.|.......+.+.+. .+.|.    ...+..+-.+-..+...|+   
T Consensus        37 I~I-vG~~~vGKSTLin~L~~~~~~~-~~~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~~l~~~~~~~~~~~l---  111 (423)
T 3qq5_A           37 IVV-AGRRNVGKSSFMNALVGQNVSI-VSDYAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVGELGRLRVEKARRVF---  111 (423)
T ss_dssp             EEE-ECSCSTTTTTTTTSSCC--------------CCCCEEEEEETTTEEEEEEECSSTTCCCTTCCCCHHHHHHHH---
T ss_pred             EEE-ECCCCCCHHHHHHHHHcCCCCc-cCCCCCeeeeeEEEEEEECCCCeEEEEECcCCCcccchhHHHHHHHHHHH---
Confidence            344 9999999999999999987532 222233333332223333322 22221    0011111000000001111   


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH-HCCCc
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT-SNGVH  260 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~-~~~I~  260 (650)
                                  .+.++++|++..   +..+.+..+++++.. ..++|+|++|+|.......     .+.+.+. ..++.
T Consensus       112 ------------~~aD~vllVvD~---~~~~~~~~~l~~l~~~~~piIvV~NK~Dl~~~~~~-----~~~~~l~~~~g~~  171 (423)
T 3qq5_A          112 ------------YRADCGILVTDS---APTPYEDDVVNLFKEMEIPFVVVVNKIDVLGEKAE-----ELKGLYESRYEAK  171 (423)
T ss_dssp             ------------TSCSEEEEECSS---SCCHHHHHHHHHHHHTTCCEEEECCCCTTTTCCCT-----HHHHHSSCCTTCC
T ss_pred             ------------hcCCEEEEEEeC---CChHHHHHHHHHHHhcCCCEEEEEeCcCCCCccHH-----HHHHHHHHHcCCC
Confidence                        135788999875   677888888998875 6799999999999876543     2222332 34666


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       172 v~~vS  176 (423)
T 3qq5_A          172 VLLVS  176 (423)
T ss_dssp             CCCCS
T ss_pred             EEEEE
Confidence            66554

>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=97.83  E-value=2.4e-05  Score=75.14  Aligned_cols=20  Identities=35%  Similarity=0.335  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||.+|+|||||||.|++...
T Consensus        29 vG~~~vGKSsLi~~l~~~~~   48 (195)
T 3cbq_A           29 VGESGVGKSTLAGTFGGLQG   48 (195)
T ss_dssp             ECSTTSSHHHHHHHTCCEEC
T ss_pred             ECCCCCCHHHHHHHHHhccC
Confidence            99999999999999987543

>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=97.81  E-value=4.7e-06  Score=77.89  Aligned_cols=45  Identities=9%  Similarity=0.124  Sum_probs=29.7

Q ss_pred             eeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         196 RIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       196 RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                      ..|+++|++..+.. .+..+...+...+.    ..++++.|++|+|....
T Consensus        85 ~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (183)
T 1moz_A           85 DTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA  134 (183)
T ss_dssp             TEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC
Confidence            46899999987532 34444433333333    45799999999998653

>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=97.80  E-value=5.6e-05  Score=72.89  Aligned_cols=106  Identities=14%  Similarity=0.193  Sum_probs=57.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.   .......+.+.+..+.+.     + ..+..+.                 
T Consensus        36 vG~~~~GKSsLi~~l~~~~~~~~~~~t~---~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-----------------   95 (204)
T 4gzl_A           36 VGDGAVGKTCLLISYTTNAFPGEYIPTV---FDNYSANVMVDGKPVNLGLWDTAGLEDYDRLR-----------------   95 (204)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCC-CCCCS---EEEEEEEEECC-CEEEEEEEEECCSGGGTTTG-----------------
T ss_pred             ECcCCCCHHHHHHHHHhCCCCCCcCCee---cceeEEEEEECCEEEEEEEEECCCchhhHHHH-----------------
Confidence            9999999999999999876544322221   122222334444444432     1 1111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCHHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~E  242 (650)
                       +.  .+  ...++++|++..+.. .+..+...++..+.   ...++|.|++|+|.....+
T Consensus        96 -~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  151 (204)
T 4gzl_A           96 -PL--SY--PQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKD  151 (204)
T ss_dssp             -GG--GC--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTCHH
T ss_pred             -HH--Hh--ccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccchh
Confidence             11  11  235788888876531 22222223444444   3789999999999876554

>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=97.80  E-value=9.1e-06  Score=76.88  Aligned_cols=100  Identities=17%  Similarity=0.265  Sum_probs=55.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.. ..++.+    ++...+.+.  ++.+.      ...+..+.       ..|+      
T Consensus        22 vG~~~vGKSsL~~~l~~~~~~~-~~~t~g----~~~~~~~~~--~~~l~i~Dt~G~~~~~~~~-------~~~~------   81 (181)
T 1fzq_A           22 LGLDNAGKTTLLKQLASEDISH-ITPTQG----FNIKSVQSQ--GFKLNVWDIGGQRKIRPYW-------RSYF------   81 (181)
T ss_dssp             EESTTSSHHHHHHHHCCSCCEE-EEEETT----EEEEEEEET--TEEEEEEECSSCGGGHHHH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCc-ccCcCC----eEEEEEEEC--CEEEEEEECCCCHHHHHHH-------HHHh------
Confidence            9999999999999999874321 111122    222223332  33332      12222221       1222      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISK  240 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~  240 (650)
                       +        ..|+++|++..+.. .+......+...+.    ...+++.|++|+|....
T Consensus        82 -~--------~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  132 (181)
T 1fzq_A           82 -E--------NTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTA  132 (181)
T ss_dssp             -T--------TCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTC
T ss_pred             -C--------CCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccC
Confidence             1        24788888886532 23333333333333    35699999999998764

>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=97.80  E-value=1.9e-05  Score=75.31  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|++..+..
T Consensus        34 ~G~~~vGKSsli~~l~~~~~~~   55 (196)
T 2atv_A           34 FGRAGVGKSALVVRFLTKRFIW   55 (196)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCS
T ss_pred             ECCCCCCHHHHHHHHHhCCCCc
Confidence            9999999999999999876543

>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=97.79  E-value=3.3e-05  Score=72.78  Aligned_cols=103  Identities=13%  Similarity=0.227  Sum_probs=54.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....++.+  ... ...+.+.+..+.+.      ...|..+.                 
T Consensus        13 ~G~~~vGKSsli~~l~~~~~~~~~~~t~~--~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-----------------   72 (184)
T 1m7b_A           13 VGDSQCGKTALLHVFAKDCFPENYVPTVF--ENY-TASFEIDTQRIELSLWDTSGSPYYDNVR-----------------   72 (184)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCSSCCCCSE--EEE-EEEEECSSCEEEEEEEEECCSGGGTTTG-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCCCCccc--eeE-EEEEEECCEEEEEEEEECCCChhhhhhH-----------------
Confidence            99999999999999998765432222211  111 11233333334333      11121111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHH---HHHhccCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVC---MKKLDSKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~---mk~L~~~vnvIPVItKAD~Lt  239 (650)
                       +.  .+  ...|++++++..+.. .+..+...+   ++.....+++|.|.+|+|...
T Consensus        73 -~~--~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  125 (184)
T 1m7b_A           73 -PL--SY--PDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  125 (184)
T ss_dssp             -GG--GC--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             -Hh--hc--CCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhc
Confidence             11  11  235788888876531 122111122   233334679999999999874

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=97.78  E-value=3e-05  Score=74.67  Aligned_cols=105  Identities=12%  Similarity=0.199  Sum_probs=56.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.....++.+....   ..+.+.+..+.+.      ...|..+.                 
T Consensus        15 ~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~---~~~~~~~~~~~~~i~Dt~G~~~~~~~~-----------------   74 (212)
T 2j0v_A           15 VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS---ANVAVDGQIVNLGLWDTAGQEDYSRLR-----------------   74 (212)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCSSCCCSSCCCEE---EEEECSSCEEEEEEECCCCCCCCCC-------------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCccCCCccceeEE---EEEEECCEEEEEEEEECCCcHHHHHHH-----------------
Confidence            999999999999999987654332222222221   1233333333332      11222221                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISKS  241 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~  241 (650)
                       +.  .+  ...|++++++..+.. .+..+.-.++..+.   ..+++|.|++|+|.....
T Consensus        75 -~~--~~--~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  129 (212)
T 2j0v_A           75 -PL--SY--RGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDK  129 (212)
T ss_dssp             -CG--GG--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCH
T ss_pred             -Hh--hc--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhCc
Confidence             00  11  135788888876431 12222113344443   368999999999986543

>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=97.76  E-value=9.8e-06  Score=75.47  Aligned_cols=46  Identities=13%  Similarity=0.155  Sum_probs=29.0

Q ss_pred             eeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCHHH
Q psy8479         197 IHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       197 VH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~E  242 (650)
                      .|++++++..+.. .+..+...++..+.   ..++++.|++|+|.....+
T Consensus        80 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  129 (182)
T 3bwd_D           80 ADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQ  129 (182)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcCcc
Confidence            5788888886531 22222222444444   3789999999999875443

>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=97.76  E-value=1.3e-05  Score=75.37  Aligned_cols=64  Identities=11%  Similarity=0.060  Sum_probs=37.6

Q ss_pred             eeEEEEEEcCCCCCCCcchHH----HHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC-cEEeCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLV----CMKKLD------SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV-HIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~----~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I-~if~f~  265 (650)
                      .|++++++..+ .+....+..    +.+||.      ..++++.|++|+|....    .....+.+.+...++ .+|...
T Consensus        98 ~d~~i~v~D~~-~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~S  172 (198)
T 3t1o_A           98 VDGIVFVADSA-PNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDA----LPVEMVRAVVDPEGKFPVLEAV  172 (198)
T ss_dssp             CCEEEEEEECC-GGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTC----CCHHHHHHHHCTTCCSCEEECB
T ss_pred             CCEEEEEEECC-cchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhcccc----cCHHHHHHHHHhcCCceEEEEe
Confidence            47888888865 222222222    223332      36799999999997543    112234455566777 777664

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=97.76  E-value=3e-05  Score=73.91  Aligned_cols=104  Identities=14%  Similarity=0.275  Sum_probs=51.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+.  .+ ...+.+.+..+.+.      ...|..+.                 
T Consensus        26 ~G~~~~GKssl~~~l~~~~~~~~~~~t~~~--~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-----------------   85 (201)
T 2q3h_A           26 VGDGAVGKTSLVVSYTTNGYPTEYIPTAFD--NF-SAVVSVDGRPVRLQLCDTAGQDEFDKLR-----------------   85 (201)
T ss_dssp             ECSTTSSHHHHHHHHHC--------CCSSE--EE-EEEEEETTEEEEEEEEECCCSTTCSSSG-----------------
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCCCCCcccc--ee-EEEEEECCEEEEEEEEECCCCHHHHHHh-----------------
Confidence            999999999999999987643322222211  11 11223332223322      11121111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISK  240 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~  240 (650)
                       +.  .+  ...|+++|++..+.. .+..+...++..+.   ..+++|.|++|+|....
T Consensus        86 -~~--~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  139 (201)
T 2q3h_A           86 -PL--CY--TNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLRED  139 (201)
T ss_dssp             -GG--GG--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGC
T ss_pred             -Hh--hc--CCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhc
Confidence             11  11  235788888886531 12221112333333   37899999999998754

>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=97.74  E-value=8.3e-05  Score=70.25  Aligned_cols=20  Identities=40%  Similarity=0.556  Sum_probs=18.1

Q ss_pred             eeecCCCCCChhhHhhhhhCc
Q psy8479         109 AYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~  129 (650)
                      .+ +|.+|+|||||+|.|++.
T Consensus         6 ~i-vG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            6 MI-VGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EE-ESCTTSSHHHHHHHHTCC
T ss_pred             EE-ECCCCCCHHHHHHHHhcC
Confidence            44 999999999999999985

>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=97.73  E-value=0.00015  Score=78.23  Aligned_cols=85  Identities=12%  Similarity=0.070  Sum_probs=54.3

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-C-CCeeeeeecccCCCHHHHHHHHHHHHHHHHH---CCCcEEeCCC-Cch
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-K-VNIIPIIAKADTISKSELQKFKTNIMTELTS---NGVHIYEFPT-DDE  269 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~---~~I~if~f~~-d~~  269 (650)
                      ..+++++++..+.....+...+.+..+.. . .++|.|++|+|....++.......+++.+..   .++.++.... ...
T Consensus       106 ~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~  185 (410)
T 1kk1_A          106 LMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISALHGA  185 (410)
T ss_dssp             GCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTB
T ss_pred             hCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccCCCHHHHHHHHHHHHHHHHhcCcCCCeEEEeeCCCCC
Confidence            46789999987632225555555554442 2 3799999999999988766666677777764   4667776653 223


Q ss_pred             hHHHHHHHhhh
Q psy8479         270 TMSDVNAAMTI  280 (650)
Q Consensus       270 ~~~~~~~~~~~  280 (650)
                      .+..+...+..
T Consensus       186 gi~~L~~~l~~  196 (410)
T 1kk1_A          186 NIDVLVKAIED  196 (410)
T ss_dssp             SHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            34445444444

>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=97.72  E-value=0.00055  Score=73.78  Aligned_cols=84  Identities=13%  Similarity=0.084  Sum_probs=55.9

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-C-CCeeeeeecccCCCHHHHHHHHHHHHHHHHHC---CCcEEeCCC-Cchh
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-K-VNIIPIIAKADTISKSELQKFKTNIMTELTSN---GVHIYEFPT-DDET  270 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~---~I~if~f~~-d~~~  270 (650)
                      .+++++++..+.....+...+.+..+.. . .++|.|++|+|....++.....+.+.+.+...   ++.++.... ..+.
T Consensus        99 ~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~g  178 (403)
T 3sjy_A           99 MDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKIN  178 (403)
T ss_dssp             CSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBS
T ss_pred             CCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccchHHHHHHHHHHHHHHHhhCCCCCEEEEEECCCCcC
Confidence            5789999987643335555555655553 3 38999999999999988888888888777654   456776653 2233


Q ss_pred             HHHHHHHhhh
Q psy8479         271 MSDVNAAMTI  280 (650)
Q Consensus       271 ~~~~~~~~~~  280 (650)
                      +.++...+..
T Consensus       179 i~~L~~~l~~  188 (403)
T 3sjy_A          179 IDSLIEGIEE  188 (403)
T ss_dssp             HHHHHHHHHH
T ss_pred             hHHHHHHHHH
Confidence            4444444443

>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=97.71  E-value=4.7e-05  Score=73.94  Aligned_cols=103  Identities=13%  Similarity=0.208  Sum_probs=54.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+......+.+  ... ...+.+.+..+.+.      ...|..+.                 
T Consensus        34 vG~~~vGKSsLi~~l~~~~~~~~~~~t~~--~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~-----------------   93 (205)
T 1gwn_A           34 VGDSQCGKTALLHVFAKDCFPENYVPTVF--ENY-TASFEIDTQRIELSLWDTSGSPYYDNVR-----------------   93 (205)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCSSCCCCSE--EEE-EEEEESSSSEEEEEEEEECCSGGGTTTG-----------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCCCcCCccc--eeE-EEEEEECCEEEEEEEEeCCCcHhhhHHH-----------------
Confidence            99999999999999999765432222211  111 11233333334333      11222111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHh---ccCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKL---DSKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L---~~~vnvIPVItKAD~Lt  239 (650)
                       +.  .+  ...+++++++..+.. .+..+...++..+   ...+++|.|.+|+|...
T Consensus        94 -~~--~~--~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~  146 (205)
T 1gwn_A           94 -PL--SY--PDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  146 (205)
T ss_dssp             -GG--GC--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             -Hh--hc--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhcc
Confidence             11  11  235788888876531 1121111222333   34679999999999874

>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=97.70  E-value=1.5e-05  Score=88.15  Aligned_cols=123  Identities=14%  Similarity=0.156  Sum_probs=66.5

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      .|+.+. ||.+|+|||||+|+|++..... .+..++.|..+....+.+.+..+.|. .-.+....        ..+.. .
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~-v~~~~gtT~d~~~~~i~~~g~~v~liDT~G~~~~~--------~~ve~-~  292 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAI-VTDLPGTTRDVVESQLVVGGIPVQVLDTAGIRETS--------DQVEK-I  292 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSC-CSCCTTCCHHHHHHEEEETTEEEEECC-----------------------
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCccc-ccCCCCeeEEEEEEEEEECCEEEEEEECCccccch--------hHHHH-H
Confidence            455544 9999999999999999875322 22223333322222233332222222 11111111        11111 1


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSE  242 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~E  242 (650)
                      .+.+..  ..=...|+++|++..+ +++...+..+++.+.. .++|.|++|+|.....+
T Consensus       293 gi~~~~--~~~~~aD~vl~VvD~s-~~~~~~~~~i~~~l~~-~piivV~NK~Dl~~~~~  347 (462)
T 3geh_A          293 GVERSR--QAANTADLVLLTIDAA-TGWTTGDQEIYEQVKH-RPLILVMNKIDLVEKQL  347 (462)
T ss_dssp             --------CCCCSCSEEEEEEETT-TCSCHHHHHHHHHHTT-SCEEEEEECTTSSCGGG
T ss_pred             HHHHHh--hhhhcCCEEEEEeccC-CCCCHHHHHHHHhccC-CcEEEEEECCCCCcchh
Confidence            122221  1123467899999876 4778888888888876 59999999999987644

>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=97.69  E-value=0.00012  Score=78.90  Aligned_cols=62  Identities=16%  Similarity=0.249  Sum_probs=43.9

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCC-HHHHHHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTIS-KSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt-~~El~~~K~~I~~~L~~~~  258 (650)
                      ..+++++++.++ ++..+...+.+..+.. .++ +|.|++|+|... ...+...+..+++.+...+
T Consensus        89 ~aD~~ilVvda~-~g~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~  153 (397)
T 1d2e_A           89 PLDGCILVVAAN-DGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFG  153 (397)
T ss_dssp             CCSEEEEEEETT-TCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTT
T ss_pred             hCCEEEEEEECC-CCCCHHHHHHHHHHHHcCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcC
Confidence            457899999876 4666766777766653 567 689999999985 4334556667777777665

>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=97.69  E-value=8.3e-05  Score=69.10  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|++..+..
T Consensus        13 vG~~~vGKTsli~~l~~~~~~~   34 (178)
T 2iwr_A           13 LGDARSGKSSLIHRFLTGSYQV   34 (178)
T ss_dssp             ECCGGGCHHHHHHHHHHSCCCC
T ss_pred             ECCCCCCHHHHHHHHHhCCCCC
Confidence            9999999999999999877654

>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=96.87  E-value=5.5e-06  Score=79.54  Aligned_cols=45  Identities=13%  Similarity=0.121  Sum_probs=29.2

Q ss_pred             eeEEEEEEcCCC-CCCCcchHHHHHHhcc---CCCeeeeeecccCCCHH
Q psy8479         197 IHVCLYFICPTG-HGLKSLDLVCMKKLDS---KVNIIPIIAKADTISKS  241 (650)
Q Consensus       197 VH~cLYfI~ps~-h~Lk~lDI~~mk~L~~---~vnvIPVItKAD~Lt~~  241 (650)
                      .++++|++..+. ..+..+...++..+..   .++++.|++|+|.....
T Consensus       102 ~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~  150 (204)
T 3th5_A          102 TDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDK  150 (204)
Confidence            567888877543 2344443344555543   67999999999987654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=97.68  E-value=2.3e-05  Score=72.62  Aligned_cols=21  Identities=19%  Similarity=0.319  Sum_probs=19.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+|||||||.|++..+.
T Consensus        12 ~G~~~~GKssl~~~l~~~~~~   32 (178)
T 2hxs_A           12 LGDGASGKTSLTTCFAQETFG   32 (178)
T ss_dssp             ECCTTSSHHHHHHHHHGGGTT
T ss_pred             ECcCCCCHHHHHHHHHhCcCC
Confidence            999999999999999987653

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=97.67  E-value=5.1e-06  Score=79.58  Aligned_cols=22  Identities=23%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|++..+..
T Consensus        39 vG~~~~GKSsli~~l~~~~~~~   60 (199)
T 3l0i_B           39 IGDSGVGKSCLLLRFADDTYTE   60 (199)
T ss_dssp             ECCTTSCCTTTTTSSBCCCCCC
T ss_pred             ECCCCCCHHHHHHHHhcCCCCC
Confidence            9999999999999999876543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=97.67  E-value=2.5e-05  Score=82.16  Aligned_cols=108  Identities=14%  Similarity=0.206  Sum_probs=61.2

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHH
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAY  178 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~y  178 (650)
                      +.+.+. +|.+|+|||||||.|++..+...   .  +|+.+....+..  .++.+.      ...+..+.       ..|
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~---~--pT~~~~~~~~~~--~~~~l~i~Dt~G~~~~~~~~-------~~~  229 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTT---I--PTIGFNVETVEY--KNISFTVWDVGGQDKIRPLW-------RHY  229 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEE---E--EETTEEEEEEEE--TTEEEEEEECC-----CCSH-------HHH
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCc---c--cccceEEEEEec--CcEEEEEEECCCCHhHHHHH-------HHH
Confidence            344444 99999999999999998764321   1  133333222322  333332      11111111       111


Q ss_pred             HHHHHhhhhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhcc----CCCeeeeeecccCCCHHH
Q psy8479         179 LQEELKIKRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLDS----KVNIIPIIAKADTISKSE  242 (650)
Q Consensus       179 L~eE~~i~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~~----~vnvIPVItKAD~Lt~~E  242 (650)
                      +               ...+++++++..+. ..+..++..+...+..    .+++|.|++|+|......
T Consensus       230 ~---------------~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~  283 (329)
T 3o47_A          230 F---------------QNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN  283 (329)
T ss_dssp             H---------------TTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC
T ss_pred             h---------------ccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC
Confidence            1               13578888888653 4455555555555543    678999999999876443

>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=97.66  E-value=4.1e-05  Score=72.71  Aligned_cols=22  Identities=18%  Similarity=0.286  Sum_probs=19.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|+|||||||.|++..+..
T Consensus        26 vG~~~vGKSsL~~~~~~~~~~~   47 (184)
T 3ihw_A           26 VGNLSSGKSALVHRYLTGTYVQ   47 (184)
T ss_dssp             ECCTTSCHHHHHHHHHHSSCCC
T ss_pred             ECCCCCCHHHHHHHHhcCCCCC
Confidence            9999999999999999877654

>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=97.64  E-value=8.1e-05  Score=69.06  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.2

Q ss_pred             eeecCCCCCChhhHhhhhhCcCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~  131 (650)
                      .+ +|.+|+|||||+|.|++...
T Consensus         7 ~l-vG~~gvGKStL~~~l~~~~~   28 (165)
T 2wji_A            7 AL-IGNPNVGKSTIFNALTGENV   28 (165)
T ss_dssp             EE-ECSTTSSHHHHHHHHHCCSS
T ss_pred             EE-ECCCCCCHHHHHHHHhCCCe
Confidence            44 99999999999999998654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.63  E-value=3e-05  Score=79.21  Aligned_cols=122  Identities=11%  Similarity=0.046  Sum_probs=75.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEE-----EEeeCCcee---e------------c-chhHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHT-----YELQENNVK---L------------K-EDSFKSIVDY  170 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~-----~~l~e~g~~---L------------~-~~~w~~Ii~y  170 (650)
                      ||.+|+|||||||+|++...... +..++.|..+....     ..++..|+.   +            . ...+..++.|
T Consensus       105 vG~~~vGKSslin~l~~~~~~~~-~~~~g~T~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~  183 (262)
T 3cnl_A          105 VGVPNTGKSTIINKLKGKRASSV-GAQPGITKGIQWFSLENGVKILDTPGILYKNIFSEDLAAKLLLVGSLPVERIEDQR  183 (262)
T ss_dssp             EESTTSSHHHHHHHHHTTCC-----------CCSCEEECTTSCEEESSCEECCCCCCSHHHHHHHHHTTSSCGGGCCCHH
T ss_pred             eCCCCCCHHHHHHHHhccccccc-CCCCCCccceEEEEeCCCEEEEECCCcccCcCCCChhhcccccCCHHHHHHHHHHH
Confidence            99999999999999999765432 23333332211001     122333332   1            0 3355667888


Q ss_pred             HHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHH
Q psy8479         171 IDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNI  250 (650)
Q Consensus       171 I~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I  250 (650)
                      |..++..+|.++.                   .|++       .|.++|+.|..+.+++.   |...   ..+....+.|
T Consensus       184 l~~~~~~~l~~~y-------------------~i~~-------~d~~~l~~ia~~~g~~~---kgg~---~d~~~aa~~~  231 (262)
T 3cnl_A          184 IFERAFEIFARSI-------------------GIES-------SFSEFFEDFARKRGLLK---KGGV---PDIERALMLF  231 (262)
T ss_dssp             HHHHHHHHHHHHH-------------------TCCC-------CHHHHHHHHHHHTTCBC---GGGC---BCHHHHHHHH
T ss_pred             HHHhCHHHHHHHc-------------------CcCC-------CcHHHHHHHHHHhCCcc---CCCc---ccHHHHHHHH
Confidence            8888877776643                   2221       14789999998888774   6542   2566778889


Q ss_pred             HHHHHHCCCcEEeCCC
Q psy8479         251 MTELTSNGVHIYEFPT  266 (650)
Q Consensus       251 ~~~L~~~~I~if~f~~  266 (650)
                      .+++...+|..|.++.
T Consensus       232 l~d~~~g~l~~~~l~~  247 (262)
T 3cnl_A          232 FTEVAQGKAGRVSFER  247 (262)
T ss_dssp             HHHHHTTTTCSCCSCC
T ss_pred             HHHHHcCCCCceECCC
Confidence            9999999999998874

>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=97.63  E-value=6.8e-05  Score=71.47  Aligned_cols=99  Identities=13%  Similarity=0.206  Sum_probs=55.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|++..+.. ..++.+.+    ...+.+.  ++.+.      ...+..+                  
T Consensus        29 vG~~~vGKSsli~~l~~~~~~~-~~~t~~~~----~~~~~~~--~~~~~i~Dt~G~~~~~~~------------------   83 (190)
T 1m2o_B           29 LGLDNAGKTTLLHMLKNDRLAT-LQPTWHPT----SEELAIG--NIKFTTFDLGGHIQARRL------------------   83 (190)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCC-CCCCCSCE----EEEEEET--TEEEEEEECCCSGGGTTS------------------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCc-cccCCCCC----eEEEEEC--CEEEEEEECCCCHHHHHH------------------
Confidence            9999999999999999876543 22222222    2223333  23332      1111111                  


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                      .+.  .+.  ..|+++|++..+.. .+......+...+.    ...+++.|++|+|...
T Consensus        84 ~~~--~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  138 (190)
T 1m2o_B           84 WKD--YFP--EVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN  138 (190)
T ss_dssp             GGG--GCT--TCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT
T ss_pred             HHH--HHh--cCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC
Confidence            111  122  35789999987642 23333332223322    4679999999999865

>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=97.60  E-value=1.1e-05  Score=78.38  Aligned_cols=125  Identities=14%  Similarity=0.221  Sum_probs=64.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|+...+.......++.+..  ...+.+...++.+.      ...+..+.       ..|+      
T Consensus        21 ~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~~~~i~Dt~G~~~~~~~~-------~~~~------   85 (221)
T 3gj0_A           21 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVH--PLVFHTNRGPIKFNVWDTAGQEKFGGLR-------DGYY------   85 (221)
T ss_dssp             EECTTSSHHHHHTTBHHHHHTCEEETTTTEEEE--EEEEEETTEEEEEEEEEECSGGGTSCCC-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCCCCCccceeEE--EEEEEECCEEEEEEEEeCCChHHHhHHH-------HHHH------
Confidence            999999999999997655433332333332222  22233333333332      11111111       0111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                               ...|++++++..+.. .+..+. .++..+.   ..+++|.|++|+|........    .........++.+
T Consensus        86 ---------~~~~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~----~~~~~~~~~~~~~  151 (221)
T 3gj0_A           86 ---------IQAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVCENIPIVLCGNKVDIKDRKVKA----KSIVFHRKKNLQY  151 (221)
T ss_dssp             ---------TTCCEEEEEEETTCHHHHHTHH-HHHHHHHHHSTTCCEEEEEECTTSSSCSSCG----GGCCHHHHHTCEE
T ss_pred             ---------hcCCEEEEEEECCCHHHHHHHH-HHHHHHHHhCCCCCEEEEEECCccccccccH----HHHHHHHHcCCEE
Confidence                     135788888876531 122221 2233332   477999999999986533211    1222334456777


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       152 ~~~S  155 (221)
T 3gj0_A          152 YDIS  155 (221)
T ss_dssp             EECB
T ss_pred             EEEe
Confidence            7664

>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=97.59  E-value=1.7e-05  Score=87.98  Aligned_cols=41  Identities=15%  Similarity=0.331  Sum_probs=31.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt  239 (650)
                      .+++||++..+ .+....+.++++.+ ...++|.|++|+|...
T Consensus       324 aD~vl~VvD~s-~~~s~~~~~il~~l-~~~piivV~NK~DL~~  364 (482)
T 1xzp_A          324 ADIVLFVLDAS-SPLDEEDRKILERI-KNKRYLVVINKVDVVE  364 (482)
T ss_dssp             CSEEEEEEETT-SCCCHHHHHHHHHH-TTSSEEEEEEECSSCC
T ss_pred             ccEEEEEecCC-CCCCHHHHHHHHHh-cCCCEEEEEECccccc
Confidence            46889999865 34556677777777 4679999999999864

>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=97.58  E-value=9.3e-06  Score=83.43  Aligned_cols=105  Identities=15%  Similarity=0.180  Sum_probs=57.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhH------HHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSF------KSIVDYIDNQFEA  177 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w------~~Ii~yI~~qf~~  177 (650)
                      +.+ ||.+|+|||||+|.|++....  .+..++.|+......+.. +..+.+.    .+.+      ..+.       ..
T Consensus         6 I~l-vG~~nvGKSTL~n~L~g~~~~--v~~~pg~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~-------~~   74 (272)
T 3b1v_A            6 IAL-IGNPNSGKTSLFNLITGHNQR--VGNWPGVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVA-------RD   74 (272)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHCCCCC--CCSSSCCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHH-------HH
T ss_pred             EEE-ECCCCCCHHHHHHHHHCCCCc--ccCCCCCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHH-------HH
Confidence            345 999999999999999987532  333344443222111111 1122222    1111      1111       22


Q ss_pred             HHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         178 YLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       178 yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      |+.             ..+.+++++++..+.  + +..+.+..+|. ..+++|.|++|+|...
T Consensus        75 ~~~-------------~~~~d~vi~V~D~t~--~-e~~~~~~~~l~~~~~p~ilv~NK~Dl~~  121 (272)
T 3b1v_A           75 YLL-------------SQRADSILNVVDATN--L-ERNLYLTTQLIETGIPVTIALNMIDVLD  121 (272)
T ss_dssp             HHH-------------TTCCSEEEEEEEGGG--H-HHHHHHHHHHHHTCSCEEEEEECHHHHH
T ss_pred             HHh-------------cCCCCEEEEEecCCc--h-HhHHHHHHHHHhcCCCEEEEEEChhhCC
Confidence            221             124678888888653  2 22334444444 4679999999999753

>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=97.58  E-value=0.00029  Score=76.03  Aligned_cols=85  Identities=11%  Similarity=0.091  Sum_probs=49.6

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-C-CCeeeeeecccCCCHHHHHHHHHHHHHHHHH---CCCcEEeCCC-Cch
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-K-VNIIPIIAKADTISKSELQKFKTNIMTELTS---NGVHIYEFPT-DDE  269 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~---~~I~if~f~~-d~~  269 (650)
                      ..+++++++..+.....+...+.+..+.. . .++|+|++|+|....++.......+++.+..   .++.++.... ..+
T Consensus       104 ~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~  183 (408)
T 1s0u_A          104 LMDGAILVIAANEPCPQPQTKEHLMALEILGIDKIIIVQNKIDLVDEKQAEENYEQIKEFVKGTIAENAPIIPISAHHEA  183 (408)
T ss_dssp             CCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCCCEEEEEECTTSSCTTTTTTHHHHHHHHHTTSTTTTCCEEEC------
T ss_pred             hCCEEEEEEECCCCCCCchhHHHHHHHHHcCCCeEEEEEEccCCCCHHHHHHHHHHHHHHHhhcCCCCCeEEEeeCCCCC
Confidence            56889999987632225555555554442 2 3799999999998866544444556666654   3567776653 222


Q ss_pred             hHHHHHHHhhh
Q psy8479         270 TMSDVNAAMTI  280 (650)
Q Consensus       270 ~~~~~~~~~~~  280 (650)
                      .+.++...+..
T Consensus       184 gi~~L~~~l~~  194 (408)
T 1s0u_A          184 NIDVLLKAIQD  194 (408)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            34444444443

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.57  E-value=0.00042  Score=75.77  Aligned_cols=61  Identities=16%  Similarity=0.185  Sum_probs=37.4

Q ss_pred             eeEEEEEEcCCCCCCC-------cchHHHHHHhc-cCCC-eeeeeecccCCCH----HHHHHHHHHHHHHHHHCC
Q psy8479         197 IHVCLYFICPTGHGLK-------SLDLVCMKKLD-SKVN-IIPIIAKADTISK----SELQKFKTNIMTELTSNG  258 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk-------~lDI~~mk~L~-~~vn-vIPVItKAD~Lt~----~El~~~K~~I~~~L~~~~  258 (650)
                      .+++++++..+ .+..       +...+.+..+. ..++ +|.|++|+|....    ......++.+...+...+
T Consensus       119 aD~~ilVVDa~-~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g  192 (439)
T 3j2k_7          119 ADLAVLVISAR-KGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVG  192 (439)
T ss_pred             CCEEEEEEECC-CCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhc
Confidence            57889998875 3433       34555555554 3555 9999999998753    334444555555454433

>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=97.57  E-value=0.00011  Score=75.43  Aligned_cols=109  Identities=14%  Similarity=0.146  Sum_probs=58.3

Q ss_pred             Cceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHH
Q psy8479         107 GKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYL  179 (650)
Q Consensus       107 g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL  179 (650)
                      .+.+. +|.+|+|||||||.|++..+......+.+   ......+.+.+..+.+.      ...+..+.           
T Consensus       155 ~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~---~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------  220 (332)
T 2wkq_A          155 LIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF---DNYSANVMVDGKPVNLGLWDTAGLEDYDRLR-----------  220 (332)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSE---EEEEEEEEETTEEEEEEEEEECCCGGGTTTG-----------
T ss_pred             eeEEEEECCCCCChHHHHHHHHhCCCCcccCCccc---ceeEEEEEECCEEEEEEEEeCCCchhhhHHH-----------
Confidence            34344 99999999999999998765443222221   11122233333333322      11221111           


Q ss_pred             HHHHhhhhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc---cCCCeeeeeecccCCCH
Q psy8479         180 QEELKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD---SKVNIIPIIAKADTISK  240 (650)
Q Consensus       180 ~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~  240 (650)
                             ..  .+  ...|+++|++..+.. .+..+...+++.+.   ..+++|.|++|+|....
T Consensus       221 -------~~--~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  274 (332)
T 2wkq_A          221 -------PL--SY--PQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDD  274 (332)
T ss_dssp             -------GG--GC--TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTC
T ss_pred             -------HH--hc--cCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccc
Confidence                   11  11  245788888886531 22222212333333   37899999999998754

>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=97.56  E-value=0.0002  Score=77.94  Aligned_cols=61  Identities=10%  Similarity=0.108  Sum_probs=41.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CC-CeeeeeecccCCC--HHHHHHHHHHHHHHHHHCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KV-NIIPIIAKADTIS--KSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt--~~El~~~K~~I~~~L~~~~  258 (650)
                      .|++++++..+ .+..+...+.+..+.. .+ ++|+|++|+|...  ++.+...+..+.+.+...+
T Consensus       128 aD~~ilVvDa~-~g~~~qt~~~l~~~~~~~~~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~~~~~g  192 (434)
T 1zun_B          128 CDLAIILVDAR-YGVQTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIA  192 (434)
T ss_dssp             CSEEEEEEETT-TCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTT
T ss_pred             CCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCeEEEEEEcCcCCcccHHHHHHHHHHHHHHHHHhC
Confidence            57899999865 4666666666555543 34 5899999999986  4445555666666665544

>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=97.54  E-value=0.0001  Score=79.52  Aligned_cols=61  Identities=11%  Similarity=0.133  Sum_probs=42.8

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCC-HHHHHHHHHHHHHHHHHCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTIS-KSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt-~~El~~~K~~I~~~L~~~~  258 (650)
                      .+++++++.++ .+..+...+.+..+.. .++ +|.|++|+|... ...+...+..+++.+...+
T Consensus        99 aD~~ilVvda~-~g~~~qt~~~l~~~~~~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~  162 (405)
T 2c78_A           99 MDGAILVVSAA-DGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE  162 (405)
T ss_dssp             CSSEEEEEETT-TCCCHHHHHHHHHHHHTTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhc
Confidence            46788888875 4666777777776653 567 889999999985 4434555666766666654

>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=97.52  E-value=0.00026  Score=75.79  Aligned_cols=111  Identities=19%  Similarity=0.171  Sum_probs=53.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chh---HHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDS---FKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~---w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|+|||||+|.|++.....  +..++.|.......+.+.+..+.+.   ..-   -..++    ++|...+..   +
T Consensus       185 vG~~naGKSTLln~L~~~~~~~--~~~~~~T~d~~~~~i~~~g~~v~l~DT~G~i~~lp~~lv----e~f~~tl~~---~  255 (364)
T 2qtf_A          185 VGYTNSGKTSLFNSLTGLTQKV--DTKLFTTMSPKRYAIPINNRKIMLVDTVGFIRGIPPQIV----DAFFVTLSE---A  255 (364)
T ss_dssp             ECBTTSSHHHHHHHHHCC-------------CCSCEEEEEETTEEEEEEECCCBCSSCCGGGH----HHHHHHHHG---G
T ss_pred             ECCCCCCHHHHHHHHHCCCccc--cCCcccccCCEEEEEEECCEEEEEEeCCCchhcCCHHHH----HHHHHHHHH---H
Confidence            9999999999999999976422  2222223222222333332222221   100   01111    223333321   1


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcch------HHHHHHhc-cCCCeeeeeecccCCCHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLD------LVCMKKLD-SKVNIIPIIAKADTISKS  241 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lD------I~~mk~L~-~~vnvIPVItKAD~Lt~~  241 (650)
                       +        ..++++|++..+. .....+      .++++.+. ...++|.|++|+|.++..
T Consensus       256 -~--------~aD~il~VvD~s~-~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~  308 (364)
T 2qtf_A          256 -K--------YSDALILVIDSTF-SENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGD  308 (364)
T ss_dssp             -G--------GSSEEEEEEETTS-CHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSC
T ss_pred             -H--------hCCEEEEEEECCC-CcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCch
Confidence             1        1246777776543 221112      34555554 457999999999998753

>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=97.50  E-value=0.00019  Score=79.23  Aligned_cols=61  Identities=15%  Similarity=0.209  Sum_probs=38.6

Q ss_pred             eeEEEEEEcCCCCC------CCcchHHHHHHhcc-C-CCeeeeeecccCCC--HHHHHHHHHHHHHHHHHC
Q psy8479         197 IHVCLYFICPTGHG------LKSLDLVCMKKLDS-K-VNIIPIIAKADTIS--KSELQKFKTNIMTELTSN  257 (650)
Q Consensus       197 VH~cLYfI~ps~h~------Lk~lDI~~mk~L~~-~-vnvIPVItKAD~Lt--~~El~~~K~~I~~~L~~~  257 (650)
                      .+++++++..+...      +.....+.+..+.. . .++|.|++|+|...  .......++.+...+...
T Consensus       135 aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~l~~~  205 (483)
T 3p26_A          135 ADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDI  205 (483)
T ss_dssp             CSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCcccchHHHHHHHHHHHHHHHHHc
Confidence            57889998875321      44555555555543 3 36999999999886  444555566666555543

>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=97.50  E-value=5.9e-05  Score=72.51  Aligned_cols=102  Identities=15%  Similarity=0.147  Sum_probs=51.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      +|.+|+|||||||.|.+..+... .++.+.+.    ..+.+.  ++.+.   .....        +|       ..+.+.
T Consensus        31 vG~~~vGKSsLi~~l~~~~~~~~-~~t~~~~~----~~~~~~--~~~l~i~Dt~G~~--------~~-------~~~~~~   88 (198)
T 1f6b_A           31 LGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTS----EELTIA--GMTFTTFDLGGHI--------QA-------RRVWKN   88 (198)
T ss_dssp             EEETTSSHHHHHHHHSCC-------CCCCCSC----EEEEET--TEEEEEEEECC-------------------CCGGGG
T ss_pred             ECCCCCCHHHHHHHHhcCCCCcc-CCCCCcee----EEEEEC--CEEEEEEECCCcH--------hh-------HHHHHH
Confidence            99999999999999998765321 12222221    122222  23322   00100        00       001111


Q ss_pred             ccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         189 LNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                        .+.  ..|+++|++..+.. .+......+...+.    ...+++.|++|+|...
T Consensus        89 --~~~--~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  140 (198)
T 1f6b_A           89 --YLP--AINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE  140 (198)
T ss_dssp             --GGG--GCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             --HHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc
Confidence              111  35789999886532 23333333333332    3579999999999864

>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=97.46  E-value=0.00021  Score=77.99  Aligned_cols=62  Identities=10%  Similarity=0.192  Sum_probs=43.4

Q ss_pred             eeeEEEEEEcCCCCC-------CCcchHHHHHHhcc-CC-CeeeeeecccCCC----HHHHHHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGHG-------LKSLDLVCMKKLDS-KV-NIIPIIAKADTIS----KSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h~-------Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt----~~El~~~K~~I~~~L~~~~  258 (650)
                      ..+++++++..+. +       +.+...+.+..+.. .+ ++|+|++|+|...    ++.+...+..+++.+...+
T Consensus       107 ~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~  181 (435)
T 1jny_A          107 QADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYG  181 (435)
T ss_dssp             CCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             hcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccccHHHHHHHHHHHHHHHHHcC
Confidence            4678999998765 5       55555555555443 34 6899999999987    4455667777777776655

>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=97.35  E-value=0.00039  Score=81.15  Aligned_cols=46  Identities=20%  Similarity=0.186  Sum_probs=36.0

Q ss_pred             eeeEEEEEEcCCCCCCCcchH-HHHHHhcc-CCCeeeeeecccCCCHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDL-VCMKKLDS-KVNIIPIIAKADTISKSE  242 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI-~~mk~L~~-~vnvIPVItKAD~Lt~~E  242 (650)
                      +.+++|++++. .+.+...|. .++++|.. ..++|.|+||+|.+...+
T Consensus       187 ~aDlIL~VVDA-s~~~~~~d~l~ll~~L~~~g~pvIlVlNKiDlv~~~~  234 (772)
T 3zvr_A          187 ENCLILAVSPA-NSDLANSDALKIAKEVDPQGQRTIGVITKLDLMDEGT  234 (772)
T ss_dssp             TTEEEEEEEET-TSCSSSCHHHHHHHHHCTTCSSEEEEEECTTSSCTTC
T ss_pred             CCcEEEEEEcC-CCCcchhHHHHHHHHHHhcCCCEEEEEeCcccCCcch
Confidence            34567777665 467888887 79999985 569999999999997654

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.31  E-value=0.00022  Score=76.49  Aligned_cols=57  Identities=16%  Similarity=0.231  Sum_probs=38.7

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCe-eeeee-cccCCCHHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNI-IPIIA-KADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnv-IPVIt-KAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                      .+++++++.  ..+..+...+.+..+.. .++. |.|++ |+|. ..+.....+..+++.+..
T Consensus        84 aD~ailVvd--~~g~~~qt~e~~~~~~~~~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~  143 (370)
T 2elf_A           84 SDIAVLCIP--PQGLDAHTGECIIALDLLGFKHGIIALTRSDST-HMHAIDELKAKLKVITSG  143 (370)
T ss_dssp             CSEEEEEEC--TTCCCHHHHHHHHHHHHTTCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTT
T ss_pred             CCEEEEEEc--CCCCcHHHHHHHHHHHHcCCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHh
Confidence            468888888  46777766666665553 5676 99999 9999 765555555555555443

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=97.30  E-value=0.00053  Score=78.19  Aligned_cols=63  Identities=16%  Similarity=0.270  Sum_probs=39.8

Q ss_pred             eeeEEEEEEcCCCC------CCCcchHHHHHHhcc-CC-CeeeeeecccCCC--HHHHHHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGH------GLKSLDLVCMKKLDS-KV-NIIPIIAKADTIS--KSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h------~Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt--~~El~~~K~~I~~~L~~~~  258 (650)
                      ..+++|+++..+..      .+.+...+.+..+.. .+ ++|.|++|+|...  .......+..+...+...+
T Consensus       268 ~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~~~~~~~~ei~~~l~~~l~~~g  340 (611)
T 3izq_1          268 QADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIG  340 (611)
T ss_dssp             CCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             hcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccchhHHHHHHHHHHHHHHHHhhc
Confidence            36899999986521      134455555555543 33 5999999999986  4445555666665555433

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=97.27  E-value=0.00014  Score=82.64  Aligned_cols=63  Identities=16%  Similarity=0.217  Sum_probs=39.6

Q ss_pred             eeeEEEEEEcCCCC----CC--CcchHHHHHHhcc-CCC-eeeeeecccCCC--HHHHHHHHHHHHHHH-HHCC
Q psy8479         196 RIHVCLYFICPTGH----GL--KSLDLVCMKKLDS-KVN-IIPIIAKADTIS--KSELQKFKTNIMTEL-TSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h----~L--k~lDI~~mk~L~~-~vn-vIPVItKAD~Lt--~~El~~~K~~I~~~L-~~~~  258 (650)
                      ..+++|+++..+..    ++  .+...+.+..+.. .++ +|+|++|+|...  +..+...++.+...+ ...+
T Consensus       278 ~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~iIvviNKiDl~~~~~~~~~~i~~el~~~l~~~~g  351 (592)
T 3mca_A          278 SADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVG  351 (592)
T ss_dssp             ----CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCCEEEEEECGGGGTTCHHHHHHHHHHHHHHHTTTSC
T ss_pred             hCCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEeccccccccHHHHHHHHHHHHHHHHHhhC
Confidence            35677777776521    34  6666666666653 454 999999999875  666666677777666 4444

>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=97.23  E-value=0.00062  Score=67.30  Aligned_cols=126  Identities=19%  Similarity=0.297  Sum_probs=60.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEE--EEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHH
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLK--AHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~--~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      ||.+||||||||+.+....+.....    +|+.+.  ...+.+.+..+.|.      .+.+..+.       ..|+    
T Consensus        19 vGd~~VGKTsLi~r~~~~~f~~~~~----~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~-------~~~~----   83 (216)
T 4dkx_A           19 LGEQSVGKTSLITRFMYDSFDNTYQ----ATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLI-------PSYI----   83 (216)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCC--------------CEEEEEECSSCEEEEEEECCSCTTTCGGGH-------HHHH----
T ss_pred             ECcCCcCHHHHHHHHHhCCCCCCcC----CccceEEEEEEEEecceEEEEEEEECCCchhhhhHH-------HHHh----
Confidence            9999999999999999776544322    222222  22333444444443      22333333       1121    


Q ss_pred             hhhhcccccCCceeeEEEEEEcCCC-CCCCcch--HHHHH-HhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPTG-HGLKSLD--LVCMK-KLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lD--I~~mk-~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                         |      +  .++++++...+. ..+..+.  +..++ .....+++|.|.+|+|.....+.  -.....+....+++
T Consensus        84 ---~------~--a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V--~~~e~~~~a~~~~~  150 (216)
T 4dkx_A           84 ---R------D--SAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQV--SIEEGERKAKELNV  150 (216)
T ss_dssp             ---T------T--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCS--CHHHHHHHHHHHTC
T ss_pred             ---c------c--ccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcc--cHHHHhhHHHHhCC
Confidence               1      1  234555554332 1222222  12222 22356799999999996432111  11122333345578


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       151 ~~~e~S  156 (216)
T 4dkx_A          151 MFIETS  156 (216)
T ss_dssp             EEEEEB
T ss_pred             eeEEEe
Confidence            877665

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=97.20  E-value=0.00055  Score=72.49  Aligned_cols=69  Identities=17%  Similarity=0.136  Sum_probs=40.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHH---HHHh---ccCCCeeeeeecccCCCHHHHHHHHH----HHHHHHHH-----CCCcE
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVC---MKKL---DSKVNIIPIIAKADTISKSELQKFKT----NIMTELTS-----NGVHI  261 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~---mk~L---~~~vnvIPVItKAD~Lt~~El~~~K~----~I~~~L~~-----~~I~i  261 (650)
                      .|+++|++..+.+ ....--.+   ++.+   ...++++.|.+|+|....+++...++    ...+.|.+     +++.+
T Consensus        73 a~~~IlV~Ditd~-~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f  151 (331)
T 3r7w_B           73 VGALVYVIDSQDE-YINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSF  151 (331)
T ss_dssp             CSEEEEECCCSSC-TTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEE
T ss_pred             CCEEEEEEECCch-HHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceE
Confidence            4789999987654 32221112   2222   24679999999999998776543333    33344544     34555


Q ss_pred             EeCCC
Q psy8479         262 YEFPT  266 (650)
Q Consensus       262 f~f~~  266 (650)
                      |.-..
T Consensus       152 ~eTSA  156 (331)
T 3r7w_B          152 YLTSI  156 (331)
T ss_dssp             ECCCS
T ss_pred             EEecc
Confidence            55443

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=97.19  E-value=9.5e-05  Score=82.62  Aligned_cols=64  Identities=11%  Similarity=0.165  Sum_probs=38.8

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc---cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD---SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~---~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      .+++++++..+.  . +....++..|.   ...++|.|++|+|.....+..  ...+++.+...++.+|...
T Consensus       122 ~d~ii~V~D~s~--~-~~~~~~~~~l~~~~~~~pvilV~NK~Dl~~~~~v~--~~~~~~~~~~~~~~~~~vS  188 (535)
T 3dpu_A          122 SSVYMLLLDSRT--D-SNKHYWLRHIEKYGGKSPVIVVMNKIDENPSYNIE--QKKINERFPAIENRFHRIS  188 (535)
T ss_dssp             SEEEEEEECGGG--G-GGHHHHHHHHHHHSSSCCEEEEECCTTTCTTCCCC--HHHHHHHCGGGTTCEEECC
T ss_pred             CcEEEEEEeCCC--c-hhHHHHHHHHHHhCCCCCEEEEEECCCcccccccC--HHHHHHHHHhcCCceEEEe
Confidence            457777777643  2 22333444444   457999999999987543321  2344555566677777765

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=97.18  E-value=0.00033  Score=81.03  Aligned_cols=56  Identities=11%  Similarity=0.161  Sum_probs=41.2

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTEL  254 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L  254 (650)
                      .+++|+++.++ .++...+..+++.+. ..+++|+|++|+|.... +.....+.+++.|
T Consensus        99 aD~~llVvDa~-~g~~~~~~~~~~~~~~~~~p~ilviNK~Dl~~~-~~~~~~~~l~~~l  155 (693)
T 2xex_A           99 LDGAVTVLDAQ-SGVEPQTETVWRQATTYGVPRIVFVNKMDKLGA-NFEYSVSTLHDRL  155 (693)
T ss_dssp             CSEEEEEEETT-TBSCHHHHHHHHHHHHTTCCEEEEEECTTSTTC-CHHHHHHHHHHHH
T ss_pred             CCEEEEEECCC-CCCcHHHHHHHHHHHHcCCCEEEEEECCCcccc-chHHHHHHHHHHh
Confidence            56899999876 577778888888776 47799999999999864 3444445555444

>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=97.13  E-value=0.00021  Score=78.54  Aligned_cols=62  Identities=15%  Similarity=0.110  Sum_probs=39.6

Q ss_pred             eeeEEEEEEcCCCCCCCc-------chHHHHHHhc-cCCC-eeeeeecccCC--CHHHHHHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGHGLKS-------LDLVCMKKLD-SKVN-IIPIIAKADTI--SKSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~-------lDI~~mk~L~-~~vn-vIPVItKAD~L--t~~El~~~K~~I~~~L~~~~  258 (650)
                      ..|++++++..+ .+..+       ...+.+..+. ..++ +|+|++|+|..  ..+.+...+..+++.+...+
T Consensus       108 ~aD~~ilVvda~-~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g  180 (458)
T 1f60_A          108 QADCAILIIAGG-VGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVG  180 (458)
T ss_dssp             CCSEEEEEEECS-HHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             hCCEEEEEEeCC-cCccccccCcchhHHHHHHHHHHcCCCeEEEEEEccccccCCHHHHHHHHHHHHHHHHHcC
Confidence            467899999865 23222       3444444333 2454 99999999998  45556666777776666554

>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=97.12  E-value=0.00032  Score=67.06  Aligned_cols=21  Identities=29%  Similarity=0.577  Sum_probs=19.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+|||||||.|++..+.
T Consensus        11 vG~~g~GKSTLl~~l~~~~~~   31 (199)
T 2f9l_A           11 IGDSGVGKSNLLSRFTRNEFN   31 (199)
T ss_dssp             ESSTTSSHHHHHHHHHHSCCC
T ss_pred             ECcCCCCHHHHHHHHhcCCCC
Confidence            999999999999999997654

>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=97.10  E-value=0.00066  Score=73.44  Aligned_cols=21  Identities=19%  Similarity=0.207  Sum_probs=17.7

Q ss_pred             eeecCCCCCChhhHhhhhhCcC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~  130 (650)
                      .+ ||.+|+|||||+|+|++.+
T Consensus         4 ~i-vG~pnvGKSTL~n~L~~~~   24 (397)
T 1wxq_A            4 GV-VGKPNVGKSTFFSAATLVD   24 (397)
T ss_dssp             EE-EECTTSSHHHHHHHHHC--
T ss_pred             EE-ECCCCCCHHHHHHHHHCCC
Confidence            45 9999999999999999987

>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=97.08  E-value=0.0014  Score=64.40  Aligned_cols=19  Identities=37%  Similarity=0.448  Sum_probs=17.5

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      ||.+|||||||+|.|.+..
T Consensus        43 vG~~~vGKSSLl~r~~~~~   61 (211)
T 2g3y_A           43 IGEQGVGKSTLANIFAGVH   61 (211)
T ss_dssp             ECCTTSSHHHHHHHHHCCC
T ss_pred             ECCCCCCHHHHHHHHHhCC
Confidence            9999999999999999754

>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=96.97  E-value=0.0038  Score=67.91  Aligned_cols=29  Identities=21%  Similarity=0.162  Sum_probs=25.2

Q ss_pred             CCcchHHHHHHhcc-CCCeeeeeecccCCC
Q psy8479         211 LKSLDLVCMKKLDS-KVNIIPIIAKADTIS  239 (650)
Q Consensus       211 Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt  239 (650)
                      .+..++.+.+.|.. ..+++.|+||+|.+-
T Consensus       160 ~~kqrv~la~aL~~~~~p~~lV~tkpdlll  189 (413)
T 1tq4_A          160 FKKNDIDIAKAISMMKKEFYFVRTKVDSDI  189 (413)
T ss_dssp             CCHHHHHHHHHHHHTTCEEEEEECCHHHHH
T ss_pred             ccHHHHHHHHHHHhcCCCeEEEEecCcccc
Confidence            78889999999985 679999999999873

>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=96.96  E-value=0.00063  Score=76.29  Aligned_cols=57  Identities=18%  Similarity=0.286  Sum_probs=39.9

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTEL  254 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L  254 (650)
                      ..+++++++.++ .++......+++.+. ..+++|+|++|+|...... ......|.+.|
T Consensus       105 ~aD~~IlVvDa~-~g~~~~t~~~~~~~~~~~ipiivviNK~Dl~~~~~-~~~~~~i~~~l  162 (529)
T 2h5e_A          105 AVDCCLMVIDAA-KGVEDRTRKLMEVTRLRDTPILTFMNKLDRDIRDP-MELLDEVENEL  162 (529)
T ss_dssp             GCSEEEEEEETT-TCSCHHHHHHHHHHTTTTCCEEEEEECTTSCCSCH-HHHHHHHHHHH
T ss_pred             HCCEEEEEEeCC-ccchHHHHHHHHHHHHcCCCEEEEEcCcCCccccH-HHHHHHHHHHh
Confidence            357899999875 467777777777776 4679999999999876532 22333444444

>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=96.94  E-value=0.0022  Score=69.90  Aligned_cols=65  Identities=18%  Similarity=0.321  Sum_probs=38.2

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLD------SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                      |++++|+++..+...+..+. ..++.+.      ...|.|.|++|.|......    ...+++.+...++.++...
T Consensus       235 ra~~lL~vvDls~~~~~~ls-~g~~el~~la~aL~~~P~ILVlNKlDl~~~~~----~~~l~~~l~~~g~~vi~iS  305 (416)
T 1udx_A          235 RTRVLLYVLDAADEPLKTLE-TLRKEVGAYDPALLRRPSLVALNKVDLLEEEA----VKALADALAREGLAVLPVS  305 (416)
T ss_dssp             SSSEEEEEEETTSCHHHHHH-HHHHHHHHHCHHHHHSCEEEEEECCTTSCHHH----HHHHHHHHHTTTSCEEECC
T ss_pred             HHHhhhEEeCCccCCHHHHH-HHHHHHHHHhHHhhcCCEEEEEECCChhhHHH----HHHHHHHHHhcCCeEEEEE
Confidence            45678888876512222222 1222222      1358999999999998722    2344555666677787665

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=96.94  E-value=0.00021  Score=80.23  Aligned_cols=44  Identities=18%  Similarity=0.269  Sum_probs=36.2

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                      .+++++++.++ .++....+.+++.+.. .+++|+|++|+|.....
T Consensus       106 aD~allVvDa~-~g~~~~t~~~~~~~~~~~iPiivviNK~Dl~~~~  150 (528)
T 3tr5_A          106 VDSALMVIDAA-KGVEPRTIKLMEVCRLRHTPIMTFINKMDRDTRP  150 (528)
T ss_dssp             CSEEEEEEETT-TCSCHHHHHHHHHHHTTTCCEEEEEECTTSCCSC
T ss_pred             CCEEEEEEeCC-CCCCHHHHHHHHHHHHcCCCEEEEEeCCCCcccc
Confidence            57889999876 5788888888888874 67999999999997543

>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=96.90  E-value=0.00089  Score=73.77  Aligned_cols=61  Identities=13%  Similarity=0.123  Sum_probs=39.5

Q ss_pred             eeeEEEEEEcCCCCCC-------CcchHHHHHHhc-cCCC-eeeeeecccCCC----HHHHHHHHHHHHHHHHHC
Q psy8479         196 RIHVCLYFICPTGHGL-------KSLDLVCMKKLD-SKVN-IIPIIAKADTIS----KSELQKFKTNIMTELTSN  257 (650)
Q Consensus       196 RVH~cLYfI~ps~h~L-------k~lDI~~mk~L~-~~vn-vIPVItKAD~Lt----~~El~~~K~~I~~~L~~~  257 (650)
                      ..|++++++..+. +.       .+...+.+..+. ..++ +|+|++|+|...    ++.+...+..+++.+...
T Consensus       144 ~aD~~ilVvDa~~-g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~~~~~~~~i~~e~~~~l~~~  217 (467)
T 1r5b_A          144 QADIGVLVISARR-GEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRV  217 (467)
T ss_dssp             SCSEEEEEEECST-THHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEEeCCc-CccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccccHHHHHHHHHHHHHHHHHh
Confidence            4678999998753 32       134445454444 3565 999999999964    455566666676666554

>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=96.88  E-value=0.0025  Score=77.20  Aligned_cols=69  Identities=16%  Similarity=0.159  Sum_probs=47.9

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCC-eeeeeecccCCCHHH-HHHHHHHHHHHHHHCC-----CcEEeCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVN-IIPIIAKADTISKSE-LQKFKTNIMTELTSNG-----VHIYEFP  265 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vn-vIPVItKAD~Lt~~E-l~~~K~~I~~~L~~~~-----I~if~f~  265 (650)
                      ..+++++++..+ .+..+...+.+..+. ..++ +|+|++|+|.....+ +...+..+.+.+...+     +.++...
T Consensus       382 ~AD~aILVVDAt-dGv~~QTrEhL~ll~~lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~IpvS  458 (1289)
T 3avx_A          382 QMDGAILVVAAT-DGPMPQTREHILLGRQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGS  458 (1289)
T ss_dssp             CCSEEEEEEETT-TCSCTTHHHHHHHHHHHTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEECC
T ss_pred             hCCEEEEEEcCC-ccCcHHHHHHHHHHHHcCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEEEE
Confidence            357899999875 466667777776665 3677 789999999986333 4455667777777665     4666654

>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=96.83  E-value=0.0022  Score=73.78  Aligned_cols=56  Identities=9%  Similarity=0.097  Sum_probs=38.9

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      .+++++++.++ .++......+++.+. ..+++|+|++|.|..  .......+.+.+.+.
T Consensus        98 ad~~ilVvD~~-~g~~~qt~~~~~~~~~~~ip~ilv~NKiD~~--~~~~~~~~~l~~~l~  154 (665)
T 2dy1_A           98 ADAALVAVSAE-AGVQVGTERAWTVAERLGLPRMVVVTKLDKG--GDYYALLEDLRSTLG  154 (665)
T ss_dssp             CSEEEEEEETT-TCSCHHHHHHHHHHHHTTCCEEEEEECGGGC--CCHHHHHHHHHHHHC
T ss_pred             cCcEEEEEcCC-cccchhHHHHHHHHHHccCCEEEEecCCchh--hhHHHHHHHHHHHhC
Confidence            35778888864 577777777777776 468999999999987  334444444554443

>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=96.79  E-value=0.00043  Score=69.70  Aligned_cols=65  Identities=15%  Similarity=0.097  Sum_probs=39.4

Q ss_pred             eeeEEEEEEcCCCC---CCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH-CCCcEEeCC
Q psy8479         196 RIHVCLYFICPTGH---GLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTS-NGVHIYEFP  265 (650)
Q Consensus       196 RVH~cLYfI~ps~h---~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~-~~I~if~f~  265 (650)
                      ..+++++++..+..   .+..++. ++..+.     ..+++|.|.+|+|.....+..    .+.+.... .++.+|...
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~-~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~----~~~~~~~~~~~~~~~e~S  235 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLK-FVSNLYNQLAKTKKPIVVVLTKCDEGVERYIR----DAHTFALSKKNLQVVETS  235 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHH-HHHHHHHHHHHTTCCEEEEEECGGGBCHHHHH----HHHHHHHTSSSCCEEECB
T ss_pred             cCCEEEEEEECCCCchhhHHHHHH-HHHHHHHHhccCCCCEEEEEEcccccccHHHH----HHHHHHHhcCCCeEEEEE
Confidence            36899999987642   4443332 222222     467999999999998765542    33333333 367777664

>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=96.77  E-value=0.0021  Score=74.24  Aligned_cols=43  Identities=14%  Similarity=0.205  Sum_probs=33.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISK  240 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~  240 (650)
                      .+++++++.++ .+........++.+. ..+++++|++|+|....
T Consensus       101 aD~~ilVvDa~-~g~~~~t~~~~~~~~~~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A          101 LDGAIVVFDSS-QGVEPQSETVWRQAEKYKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             CSEEEEEEETT-TCSCHHHHHHHHHHHHTTCCEEEEEECTTSTTC
T ss_pred             CCEEEEEEECC-CCcchhhHHHHHHHHHcCCCEEEEEECCCcccC
Confidence            46889998876 466777777777665 47899999999999864

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=96.71  E-value=0.0012  Score=71.05  Aligned_cols=44  Identities=18%  Similarity=0.191  Sum_probs=29.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQE  154 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e  154 (650)
                      +.+ ||..|||||||+|+|.+.+..  .+..|..|+..+...+.+.+
T Consensus        75 V~i-vG~PNvGKSTL~n~Lt~~~~~--v~~~pftT~~~~~g~~~~~~  118 (376)
T 4a9a_A           75 VGF-VGFPSVGKSTLLSKLTGTESE--AAEYEFTTLVTVPGVIRYKG  118 (376)
T ss_dssp             EEE-ECCCCHHHHHHHHHHHSBCCC--GGGTCSSCCCEEEEEEEETT
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCCc--ccCCCCceeeeeeEEEEeCC
Confidence            345 999999999999999998633  33445555544433344433

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=96.68  E-value=0.0047  Score=70.31  Aligned_cols=83  Identities=11%  Similarity=0.156  Sum_probs=45.0

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHh-ccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCCC-CchhHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKL-DSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFPT-DDETMSDV  274 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L-~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~~-d~~~~~~~  274 (650)
                      .+++++++..+ .+.....+..+..+ ...+++|+|++|+|..... .....+.+.+.+......++.... ......++
T Consensus        95 aD~aILVVDa~-~gv~~qt~~~~~~~~~~~ipiIvViNKiDl~~a~-~~~v~~ei~~~lg~~~~~vi~vSAktg~GI~~L  172 (599)
T 3cb4_D           95 CEGALLVVDAG-QGVEAQTLANCYTAMEMDLEVVPVLNKIDLPAAD-PERVAEEIEDIVGIDATDAVRCSAKTGVGVQDV  172 (599)
T ss_dssp             CSEEEEEEETT-TCCCTHHHHHHHHHHHTTCEEEEEEECTTSTTCC-HHHHHHHHHHHTCCCCTTCEEECTTTCTTHHHH
T ss_pred             CCEEEEEEECC-CCCCHHHHHHHHHHHHCCCCEEEeeeccCccccc-HHHHHHHHHHHhCCCcceEEEeecccCCCchhH
Confidence            36788888765 45555555555444 3578999999999987632 222333444443222223554432 22334444


Q ss_pred             HHHhhhc
Q psy8479         275 NAAMTIF  281 (650)
Q Consensus       275 ~~~~~~~  281 (650)
                      ...+...
T Consensus       173 l~~I~~~  179 (599)
T 3cb4_D          173 LERLVRD  179 (599)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhhc
Confidence            4444333

>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=96.67  E-value=0.0078  Score=69.72  Aligned_cols=57  Identities=19%  Similarity=0.317  Sum_probs=39.7

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      .+++++++.++ .+.......+++.+. ..+++++|++|+|....+ .......|++.|.
T Consensus       106 aD~aIlVvDa~-~gv~~qt~~~~~~~~~~~ip~ilviNKiD~~~~~-~~~~~~~l~~~l~  163 (704)
T 2rdo_7          106 LDGAVMVYCAV-GGVQPQSETVWRQANKYKVPRIAFVNKMDRMGAN-FLKVVNQIKTRLG  163 (704)
T ss_pred             CCEEEEEEeCC-CCCcHHHHHHHHHHHHcCCCEEEEEeCCCccccc-HHHHHHHHHHHhC
Confidence            46888888876 456666666666664 478999999999987653 4445555555553

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=96.60  E-value=0.0014  Score=63.18  Aligned_cols=91  Identities=12%  Similarity=0.035  Sum_probs=59.9

Q ss_pred             ccccccccCCCCCccccccc---ccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         535 TLGRGIVRSPGERKEKNAEF---FSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~---~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      ...++||||||+++.-....   .|+.-+..|+..                   -..+|+++|+ +..+ +++...+..+
T Consensus        78 ~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~d~vi~v-~d~~-~~~~~~~~~~  136 (223)
T 4dhe_A           78 EPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQT-------------------RPQLCGMILM-MDAR-RPLTELDRRM  136 (223)
T ss_dssp             SCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHH-------------------CTTEEEEEEE-EETT-SCCCHHHHHH
T ss_pred             CCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhc-------------------CcCcCEEEEE-EeCC-CCCCHHHHHH
Confidence            46899999999987522211   111122234433                   1237788888 4343 4677888888


Q ss_pred             HHhccC-cceEEeeeecCCCCCHHHHHHHHHHHHhh
Q psy8479         612 MKKLDS-KVNIIPIIAKADTISKSELQKFKVSKTRV  646 (650)
Q Consensus       612 mk~l~~-~vnviPvIaKaD~lt~~e~~~~K~~i~~~  646 (650)
                      ++.|.. .+.+|.|+.|+|.+...++......+.+.
T Consensus       137 ~~~l~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~  172 (223)
T 4dhe_A          137 IEWFAPTGKPIHSLLTKCDKLTRQESINALRATQKS  172 (223)
T ss_dssp             HHHHGGGCCCEEEEEECGGGSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCEEEEEeccccCChhhHHHHHHHHHHH
Confidence            887763 67899999999999998876655554443

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=96.58  E-value=0.0016  Score=73.37  Aligned_cols=56  Identities=13%  Similarity=-0.021  Sum_probs=46.5

Q ss_pred             CceeeEeeecCCCcccCCcchHHHHHhccCc-ceEEeeeecCCCCCHHHHHHHHHHHH
Q psy8479         588 RLRCASKNSDLPLAECLKSLDLVCMKKLDSK-VNIIPIIAKADTISKSELQKFKVSKT  644 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~~Di~~mk~l~~~-vnviPvIaKaD~lt~~e~~~~K~~i~  644 (650)
                      ++|++||+ +.++..++.+.+..+++.|... ..+|.|+.|+|.++.+++..+...++
T Consensus       188 ~aD~il~V-vDa~~~~~~~~~~~~l~~l~~~~~pvilVlNK~Dl~~~~el~~~~~~l~  244 (550)
T 2qpt_A          188 RVDLIILL-FDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVETQQLMRVYGALM  244 (550)
T ss_dssp             HCSEEEEE-EETTSCCCCHHHHHHHHHTTTCGGGEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             hCCEEEEE-EeCCcCCCCHHHHHHHHHHHhcCCCEEEEEECCCccCHHHHHHHHHHhh
Confidence            47889999 6676666778888889888754 78999999999999999988877765

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=96.50  E-value=0.0011  Score=66.91  Aligned_cols=76  Identities=9%  Similarity=0.071  Sum_probs=50.9

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..++||||||+++.-.    ........+..                .+...++|++||+ +..+...+...+..+++.|
T Consensus        84 ~~l~liDTpG~~~~~~----~~~~~~~~i~~----------------~l~~~~~~~il~V-~~~d~~~~~~~~~~~~~~l  142 (262)
T 3def_A           84 FTINIIDTPGLVEAGY----VNHQALELIKG----------------FLVNRTIDVLLYV-DRLDVYAVDELDKQVVIAI  142 (262)
T ss_dssp             EEEEEEECCCSEETTE----ECHHHHHHHHH----------------HTTTCEECEEEEE-EESSCSCCCHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCccc----chHHHHHHHHH----------------HHhcCCCCEEEEE-EcCCCCCCCHHHHHHHHHH
Confidence            4899999999987421    10111222222                1234579999999 6666666777887787777


Q ss_pred             cCc------ceEEeeeecCCCCC
Q psy8479         616 DSK------VNIIPIIAKADTIS  632 (650)
Q Consensus       616 ~~~------vnviPvIaKaD~lt  632 (650)
                      ...      .++|.|+.|+|...
T Consensus       143 ~~~~~~~~~~~~ivv~nK~Dl~~  165 (262)
T 3def_A          143 TQTFGKEIWCKTLLVLTHAQFSP  165 (262)
T ss_dssp             HHHHCGGGGGGEEEEEECTTCCC
T ss_pred             HHHhchhhhcCEEEEEeCcccCC
Confidence            653      37899999999853

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=96.48  E-value=0.00019  Score=80.72  Aligned_cols=42  Identities=14%  Similarity=0.309  Sum_probs=34.3

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt  239 (650)
                      .+++++++..+ .+..+..++.+..+.. .+++|.|++|+|...
T Consensus        76 aD~vILVVDa~-dg~~~qt~e~l~~~~~~~vPiIVViNKiDl~~  118 (537)
T 3izy_P           76 TDIVILVVAAD-DGVMKQTVESIQHAKDAHVPIVLAINKCDKAE  118 (537)
T ss_dssp             BSSCEEECBSS-SCCCHHHHHHHHHHHTTTCCEEECCBSGGGTT
T ss_pred             CCEEEEEEECC-CCccHHHHHHHHHHHHcCCcEEEEEecccccc
Confidence            56788888765 5788888888888874 679999999999864

>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=96.33  E-value=0.0027  Score=72.15  Aligned_cols=42  Identities=14%  Similarity=0.226  Sum_probs=34.4

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt  239 (650)
                      .+++++++..+ +++++...+.++.+.. .+|+|+|++|+|...
T Consensus        94 aD~aILVvDa~-~Gv~~qT~e~l~~l~~~~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           94 ADLAILIVDIN-EGFKPQTQEALNILRMYRTPFVVAANKIDRIH  136 (594)
T ss_dssp             CSEEEEEEETT-TCCCHHHHHHHHHHHHTTCCEEEEEECGGGST
T ss_pred             CCEEEEEEECC-CCccHhHHHHHHHHHHcCCeEEEEeccccccc
Confidence            57888888865 5788888888888874 679999999999874

>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=96.31  E-value=0.0037  Score=73.89  Aligned_cols=41  Identities=12%  Similarity=0.173  Sum_probs=31.1

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTI  238 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~L  238 (650)
                      .+++++++..+ .+....+..+++.+. ..+++|+|++|.|..
T Consensus       122 aD~ailVvDa~-~g~~~qt~~~~~~~~~~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          122 TDGALVVVDTI-EGVCVQTETVLRQALGERIKPVVVINKVDRA  163 (842)
T ss_dssp             CSEEEEEEETT-TBSCHHHHHHHHHHHHTTCEEEEEEECHHHH
T ss_pred             CCEEEEEEeCC-CCCCHHHHHHHHHHHHcCCCeEEEEECCCcc
Confidence            46788888865 566666776666544 578999999999976

>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=96.29  E-value=0.0015  Score=62.43  Aligned_cols=19  Identities=37%  Similarity=0.448  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      ||.+|||||||+|.|.+..
T Consensus        12 vG~~~vGKSsL~~~~~~~~   30 (192)
T 2cjw_A           12 IGEQGVGKSTLANIFAGVH   30 (192)
T ss_dssp             ECSTTSSHHHHHHHHHHHS
T ss_pred             ECCCCCCHHHHHHHHhcCc
Confidence            9999999999999999643

>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=96.27  E-value=0.0057  Score=64.73  Aligned_cols=58  Identities=16%  Similarity=0.125  Sum_probs=36.8

Q ss_pred             ceeeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         195 NRIHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       195 ~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                      ...++++|++.++...    .++.++.--...+++.|++|+|..........++.+.+.|..
T Consensus       191 ~~aD~vl~V~d~~~~~----~~~~l~~~~~~~p~ivVlNK~Dl~~~~~~~~~~~~l~~~l~~  248 (355)
T 3p32_A          191 NMVDTFVLLTLARTGD----QLQGIKKGVLELADIVVVNKADGEHHKEARLAARELSAAIRL  248 (355)
T ss_dssp             TTCSEEEEEEESSTTC----TTTTCCTTSGGGCSEEEEECCCGGGHHHHHHHHHHHHHHHHH
T ss_pred             HhCCEEEEEECCCCCc----cHHHHHHhHhhcCCEEEEECCCCcChhHHHHHHHHHHHHHhh
Confidence            3568899999875311    111111111124899999999998877777677777666644

>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=96.07  E-value=0.0071  Score=68.85  Aligned_cols=43  Identities=26%  Similarity=0.366  Sum_probs=30.7

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHh-ccCCCeeeeeecccCCCH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKL-DSKVNIIPIIAKADTISK  240 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L-~~~vnvIPVItKAD~Lt~  240 (650)
                      .+++++++..+ .+.....+..+..+ ...+++|+|++|+|....
T Consensus        97 aD~aILVVDa~-~gv~~qt~~~~~~a~~~~ipiIvviNKiDl~~a  140 (600)
T 2ywe_A           97 CEGALLLIDAS-QGIEAQTVANFWKAVEQDLVIIPVINKIDLPSA  140 (600)
T ss_dssp             CSEEEEEEETT-TBCCHHHHHHHHHHHHTTCEEEEEEECTTSTTC
T ss_pred             CCEEEEEEECC-CCccHHHHHHHHHHHHCCCCEEEEEeccCcccc
Confidence            46788888765 45666665555444 357899999999998753

>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=96.06  E-value=0.0009  Score=74.62  Aligned_cols=42  Identities=10%  Similarity=0.291  Sum_probs=32.5

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt  239 (650)
                      .+++++++..+ ++..+..++.+..+. ..+++|+|++|+|...
T Consensus        75 aD~aILVVda~-~g~~~qT~e~l~~~~~~~vPiIVviNKiDl~~  117 (501)
T 1zo1_I           75 TDIVVLVVAAD-DGVMPQTIEAIQHAKAAQVPVVVAVNKIDKPE  117 (501)
T ss_dssp             CSSEEEEEETT-TBSCTTTHHHHHHHHHTTCCEEEEEECSSSST
T ss_pred             CCEEEEEeecc-cCccHHHHHHHHHHHhcCceEEEEEEeccccc
Confidence            45677777654 567777888887776 4689999999999875

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=96.06  E-value=0.001  Score=71.17  Aligned_cols=86  Identities=16%  Similarity=0.160  Sum_probs=57.1

Q ss_pred             ccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCC-----cccCCcchHHH
Q psy8479         537 GRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPL-----AECLKSLDLVC  611 (650)
Q Consensus       537 ~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~pt-----gh~l~~~Di~~  611 (650)
                      .++++|||||++.        ..+..|+..           ..-...+++.++|+++|+ +.|.     | +|..+|.  
T Consensus       213 ~~~liDtPG~~~~--------~~~~~~l~~-----------~~l~~~~~~~~i~~~~~~-l~~~~~~~~g-~l~~l~~--  269 (369)
T 3ec1_A          213 GATLYDTPGIINH--------HQMAHFVDA-----------RDLKIITPKREIHPRVYQ-LNEGQTLFFG-GLARLDY--  269 (369)
T ss_dssp             TCEEEECCSCCCC--------SSGGGGSCT-----------TTHHHHSCSSCCCCEEEE-ECTTEEEEET-TTEEEEE--
T ss_pred             CeEEEeCCCcCcH--------HHHHHHHhH-----------HHHHHHhcccccCceEEE-EcCCceEEEC-CEEEEEE--
Confidence            3899999999763        112233333           111124677899999999 7672     3 4544443  


Q ss_pred             HHhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         612 MKKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       612 mk~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      ++.  ..+.+++|++|+|.++.+++......+.+.+
T Consensus       270 l~~--~~~~~~~v~~k~d~~~~~~~~~~~~~~~~~~  303 (369)
T 3ec1_A          270 IKG--GRRSFVCYMANELTVHRTKLEKADSLYANQL  303 (369)
T ss_dssp             EES--SSEEEEEEECTTSCEEEEEGGGHHHHHHHHB
T ss_pred             ccC--CCceEEEEecCCcccccccHHHHHHHHHHhc
Confidence            332  3578999999999999888877776666554

>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=95.95  E-value=0.003  Score=59.32  Aligned_cols=89  Identities=18%  Similarity=0.111  Sum_probs=57.6

Q ss_pred             ccccccCCCCCccccccc---ccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHH
Q psy8479         537 GRGIVRSPGERKEKNAEF---FSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMK  613 (650)
Q Consensus       537 ~ltivdtpGfg~~~~~~~---~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk  613 (650)
                      .+++||||||++.-....   .++.-+..|+..                   -..+|+++|+ +..+ ++....++.+++
T Consensus        70 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~i~v-~d~~-~~~~~~~~~~~~  128 (195)
T 1svi_A           70 ELHFVDVPGYGFAKVSKSEREAWGRMIETYITT-------------------REELKAVVQI-VDLR-HAPSNDDVQMYE  128 (195)
T ss_dssp             TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHH-------------------CTTEEEEEEE-EETT-SCCCHHHHHHHH
T ss_pred             cEEEEECCCCCccccCHHHHHHHHHHHHHHHhh-------------------hhcCCEEEEE-EECC-CCCCHHHHHHHH
Confidence            699999999988643211   121122333333                   0246889998 4443 346667776666


Q ss_pred             hcc-CcceEEeeeecCCCCCHHHHHHHHHHHHhh
Q psy8479         614 KLD-SKVNIIPIIAKADTISKSELQKFKVSKTRV  646 (650)
Q Consensus       614 ~l~-~~vnviPvIaKaD~lt~~e~~~~K~~i~~~  646 (650)
                      .+. ..+.+|.|+.|+|.+...++......+.+.
T Consensus       129 ~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~  162 (195)
T 1svi_A          129 FLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQT  162 (195)
T ss_dssp             HHHHTTCCEEEEEECGGGSCGGGHHHHHHHHHHH
T ss_pred             HHHHcCCCEEEEEECcccCChHHHHHHHHHHHHH
Confidence            664 568899999999999987776655555543

>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=95.54  E-value=0.0047  Score=63.59  Aligned_cols=31  Identities=19%  Similarity=0.194  Sum_probs=19.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcE
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSV  143 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~  143 (650)
                      ||.+|||||||||+|++.+... ++..++.|.
T Consensus       126 vG~~nvGKSsliN~l~~~~~~~-~~~~~g~T~  156 (282)
T 1puj_A          126 IGIPNVGKSTLINRLAKKNIAK-TGDRPGITT  156 (282)
T ss_dssp             EESTTSSHHHHHHHHHTSCCC-----------
T ss_pred             EecCCCchHHHHHHHhcCceee-cCCCCCeee
Confidence            9999999999999999976443 333444443

>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=95.26  E-value=0.01  Score=58.55  Aligned_cols=80  Identities=11%  Similarity=0.022  Sum_probs=45.8

Q ss_pred             cccccccCCCCCccccc-ccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         536 LGRGIVRSPGERKEKNA-EFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~-~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ..++||||||+++.-.. .... ..+..++...+                  ..+|++||. ++.+  .+...+..+++.
T Consensus        78 ~~i~liDTpG~~~~~~~~~~~~-~~~~~~~~~~~------------------~~~~~~l~v-~d~~--~~~~~~~~~l~~  135 (239)
T 3lxx_A           78 TELVVVDTPGIFDTEVPNAETS-KEIIRCILLTS------------------PGPHALLLV-VPLG--RYTEEEHKATEK  135 (239)
T ss_dssp             EEEEEEECCSCC-----CHHHH-HHHHHHHHHTT------------------TCCSEEEEE-EETT--CCSSHHHHHHHH
T ss_pred             ceEEEEECCCccCCCCCHHHHH-HHHHHHHHhcC------------------CCCcEEEEE-eeCC--CCCHHHHHHHHH
Confidence            46899999999875322 2122 23334333311                  157999999 5443  466677777777


Q ss_pred             cc------CcceEEeeeecCCCCCHHHHH
Q psy8479         615 LD------SKVNIIPIIAKADTISKSELQ  637 (650)
Q Consensus       615 l~------~~vnviPvIaKaD~lt~~e~~  637 (650)
                      +.      ....+|.|+.|+|.+...++.
T Consensus       136 ~~~~~~~~~~~~~iiv~nK~D~~~~~~~~  164 (239)
T 3lxx_A          136 ILKMFGERARSFMILIFTRKDDLGDTNLH  164 (239)
T ss_dssp             HHHHHHHHHGGGEEEEEECGGGC------
T ss_pred             HHHHhhhhccceEEEEEeCCccCCcccHH
Confidence            64      234789999999999877655

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=95.20  E-value=0.067  Score=60.80  Aligned_cols=21  Identities=24%  Similarity=0.305  Sum_probs=19.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ ||++|+|||||+|+|.|.
T Consensus        48 iaI-vG~nGsGKSTLL~~I~Gl   68 (608)
T 3szr_A           48 IAV-IGDQSSGKSSVLEALSGV   68 (608)
T ss_dssp             EEC-CCCTTSCHHHHHHHHHSC
T ss_pred             EEE-ECCCCChHHHHHHHHhCC
Confidence            455 999999999999999996

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.98  E-value=0.0079  Score=56.00  Aligned_cols=90  Identities=17%  Similarity=0.035  Sum_probs=56.4

Q ss_pred             cccccccCCCCCcccccccc---cccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHH
Q psy8479         536 LGRGIVRSPGERKEKNAEFF---SRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCM  612 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~---~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~m  612 (650)
                      ..+++||||||+........   |+.-+..|+..                   -..+++++|+ +.++ .+....+..++
T Consensus        68 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~vi~v-~d~~-~~~~~~~~~~~  126 (195)
T 3pqc_A           68 SKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKN-------------------RWSLQMVFLL-VDGR-IPPQDSDLMMV  126 (195)
T ss_dssp             TTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHH-------------------CTTEEEEEEE-EETT-SCCCHHHHHHH
T ss_pred             CcEEEEECCCCccccCChhhHHHHHHHHHHHHhc-------------------CcCceEEEEE-ecCC-CCCCHHHHHHH
Confidence            46889999999886443221   21112233333                   0357888888 5443 34556666655


Q ss_pred             HhccC-cceEEeeeecCCCCCHHHHHHHHHHHHhh
Q psy8479         613 KKLDS-KVNIIPIIAKADTISKSELQKFKVSKTRV  646 (650)
Q Consensus       613 k~l~~-~vnviPvIaKaD~lt~~e~~~~K~~i~~~  646 (650)
                      +.+.. .+.+|.|+.|+|.+...++......+.+.
T Consensus       127 ~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~  161 (195)
T 3pqc_A          127 EWMKSLNIPFTIVLTKMDKVKMSERAKKLEEHRKV  161 (195)
T ss_dssp             HHHHHTTCCEEEEEECGGGSCGGGHHHHHHHHHHH
T ss_pred             HHHHHcCCCEEEEEEChhcCChHHHHHHHHHHHHH
Confidence            55443 57899999999999888777666655543

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=94.93  E-value=0.0025  Score=68.15  Aligned_cols=85  Identities=13%  Similarity=0.092  Sum_probs=54.5

Q ss_pred             cccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCC-----cccCCcchHHHH
Q psy8479         538 RGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPL-----AECLKSLDLVCM  612 (650)
Q Consensus       538 ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~pt-----gh~l~~~Di~~m  612 (650)
                      ++++|||||++.-        .+..|+....           -...++..++|+++|+ +.|.     | +|.-+|.  +
T Consensus       213 ~~liDtPG~~~~~--------~~~~~l~~~~-----------l~~~~~~~~i~~~~~~-l~~~~~~~~g-~l~~~d~--l  269 (368)
T 3h2y_A          213 SSLYDTPGIINHH--------QMAHYVGKQS-----------LKLITPTKEIKPMVFQ-LNEEQTLFFS-GLARFDY--V  269 (368)
T ss_dssp             CEEEECCCBCCTT--------SGGGGSCHHH-----------HHHHSCSSCCCCEEEE-ECTTEEEEET-TTEEEEE--E
T ss_pred             eEEEeCCCcCcHH--------HHHHHhhHHH-----------HHHhccccccCceEEE-EcCCCEEEEc-ceEEEEE--e
Confidence            8999999998731        1222333211           0014556789999999 6662     2 3333332  3


Q ss_pred             HhccCcceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         613 KKLDSKVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       613 k~l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      +.  ..+.+++|++|+|.++..++......+.+.+
T Consensus       270 ~~--~~~~~~~v~nk~d~~~~~~~~~~~~~~~~~~  302 (368)
T 3h2y_A          270 SG--GRRAFTCHFSNRLTIHRTKLEKADELYKNHA  302 (368)
T ss_dssp             ES--SSEEEEEEECTTSCEEEEEHHHHHHHHHHHB
T ss_pred             cC--CCceEEEEecCccccccccHHHHHHHHHHHh
Confidence            32  3578999999999999888877766665543

>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=94.84  E-value=0.016  Score=60.10  Aligned_cols=78  Identities=15%  Similarity=0.086  Sum_probs=50.5

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ..++++|||||+.+..+       .+..++.+...            ..+.  .+|++||+ +..+ +++...|..+++.
T Consensus        54 ~~~l~l~DTpG~~~~~~-------~l~~~~~~~~~------------~~l~--~ad~il~V-vD~~-~~~~~~~~~i~~~  110 (301)
T 1wf3_A           54 RRQIVFVDTPGLHKPMD-------ALGEFMDQEVY------------EALA--DVNAVVWV-VDLR-HPPTPEDELVARA  110 (301)
T ss_dssp             TEEEEEEECCCCCCCCS-------HHHHHHHHHHH------------HHTS--SCSEEEEE-EETT-SCCCHHHHHHHHH
T ss_pred             CcEEEEecCccccchhh-------HHHHHHHHHHH------------HHHh--cCCEEEEE-EECC-CCCChHHHHHHHH
Confidence            46899999999987422       11111111000            0111  37899999 5554 3467777777666


Q ss_pred             ccC---cceEEeeeecCCCCCHHH
Q psy8479         615 LDS---KVNIIPIIAKADTISKSE  635 (650)
Q Consensus       615 l~~---~vnviPvIaKaD~lt~~e  635 (650)
                      |..   .+.+|.|+.|+|.....+
T Consensus       111 l~~~~~~~p~ilV~NK~Dl~~~~~  134 (301)
T 1wf3_A          111 LKPLVGKVPILLVGNKLDAAKYPE  134 (301)
T ss_dssp             HGGGTTTSCEEEEEECGGGCSSHH
T ss_pred             HHhhcCCCCEEEEEECcccCCchH
Confidence            665   688999999999997665

>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=94.76  E-value=0.028  Score=53.28  Aligned_cols=21  Identities=29%  Similarity=0.577  Sum_probs=19.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +|.+|+|||||||.|.+....
T Consensus        35 vG~~g~GKSTLl~~l~~~~~~   55 (191)
T 1oix_A           35 IGDSGVGKSNLLSRFTRNEFN   55 (191)
T ss_dssp             EECTTSSHHHHHHHHHHSCCC
T ss_pred             ECcCCCCHHHHHHHHhcCCCC
Confidence            999999999999999987544

>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=94.28  E-value=0.027  Score=64.03  Aligned_cols=20  Identities=30%  Similarity=0.150  Sum_probs=19.0

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||++|+|||||||+|++...
T Consensus        44 vG~pnvGKStLiN~L~g~~~   63 (592)
T 1f5n_A           44 VGLYRTGKSYLMNKLAGKKK   63 (592)
T ss_dssp             EEBTTSSHHHHHHHHTTCSS
T ss_pred             ECCCCCCHHHHHHhHcCCCC
Confidence            99999999999999999874

>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=94.25  E-value=0.013  Score=62.54  Aligned_cols=20  Identities=30%  Similarity=0.596  Sum_probs=18.3

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.||+|||||||+|.+...
T Consensus       221 vG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          221 AGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             ECCTTSSHHHHHHHHHCCSS
T ss_pred             ECCCCccHHHHHHHHhcccc
Confidence            99999999999999998643

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.02  E-value=0.014  Score=56.43  Aligned_cols=21  Identities=38%  Similarity=0.583  Sum_probs=18.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.||+|||||+|.|.+.
T Consensus         7 i~l-vGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            7 VVL-SGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHhh
Confidence            455 999999999999999874

>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=93.97  E-value=0.016  Score=59.83  Aligned_cols=19  Identities=26%  Similarity=0.433  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|+||+|||||||+|.+..
T Consensus       175 ~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          175 AGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             ECSTTSSHHHHHHHHSTTC
T ss_pred             ECCCCCcHHHHHHHhcccc
Confidence            9999999999999999864

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=93.96  E-value=0.02  Score=61.95  Aligned_cols=20  Identities=30%  Similarity=0.335  Sum_probs=16.9

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||.+|+|||||+|+|++.+.
T Consensus        28 VG~pnvGKSTL~n~Ltg~~~   47 (396)
T 2ohf_A           28 VGLPNVGKSTFFNVLTNSQA   47 (396)
T ss_dssp             ECCSSSSHHHHHHHHHC---
T ss_pred             ECCCCCCHHHHHHHHHCCCc
Confidence            99999999999999999865

>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=93.87  E-value=0.0074  Score=63.15  Aligned_cols=19  Identities=26%  Similarity=0.534  Sum_probs=16.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.||+|||||||+|.+..
T Consensus       179 vG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          179 AGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             EESHHHHHHHHHHHHCC--
T ss_pred             ECCCCCCHHHHHHHhcccc
Confidence            9999999999999999864

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=93.86  E-value=0.015  Score=54.98  Aligned_cols=18  Identities=17%  Similarity=0.433  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||+|.|.+.
T Consensus        11 ~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A           11 LGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999875

>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=93.68  E-value=0.026  Score=60.91  Aligned_cols=26  Identities=15%  Similarity=0.173  Sum_probs=21.5

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCC
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|..+- ||.+|+|||||+|+|++.+.
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg~~~   45 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITKSVL   45 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCc
Confidence            454444 99999999999999999764

>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=93.60  E-value=0.02  Score=56.60  Aligned_cols=25  Identities=36%  Similarity=0.664  Sum_probs=21.0

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcC
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~  130 (650)
                      +|--+- +|.||+|||||++.|.+..
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccC
Confidence            565554 9999999999999999863

>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=93.57  E-value=0.021  Score=59.16  Aligned_cols=16  Identities=31%  Similarity=0.603  Sum_probs=15.8

Q ss_pred             cCCCCCChhhHhhhhh
Q psy8479         112 PCETGLGKSTLMDSLF  127 (650)
Q Consensus       112 VG~SGvGKSTlINtLf  127 (650)
                      +|.||+|||||||+|.
T Consensus       171 ~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          171 AGPSGVGKSSILSRLT  186 (302)
T ss_dssp             ECSTTSSHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHH
Confidence            9999999999999999

>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=93.52  E-value=0.022  Score=55.05  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=19.7

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|--+. +|.||+|||||+|.|.+.
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            453333 999999999999999985

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=93.40  E-value=0.026  Score=53.02  Aligned_cols=17  Identities=35%  Similarity=0.470  Sum_probs=15.6

Q ss_pred             cCCCCCChhhHhhhhhC
Q psy8479         112 PCETGLGKSTLMDSLFN  128 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~  128 (650)
                      +|.||+|||||++.+++
T Consensus        15 ~G~nGsGKSTl~~~~~~   31 (171)
T 4gp7_A           15 IGSSGSGKSTFAKKHFK   31 (171)
T ss_dssp             ECCTTSCHHHHHHHHSC
T ss_pred             ECCCCCCHHHHHHHHcc
Confidence            99999999999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.36  E-value=0.019  Score=56.90  Aligned_cols=18  Identities=39%  Similarity=0.235  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        36 iG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           36 IGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EECTTSCHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=93.36  E-value=0.022  Score=60.31  Aligned_cols=23  Identities=22%  Similarity=0.213  Sum_probs=19.4

Q ss_pred             Cceee-cCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +..+. +|.+|+|||||+|.|.+.
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~   97 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKM   97 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHH
Confidence            44444 999999999999999973

>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=93.26  E-value=0.019  Score=61.43  Aligned_cols=21  Identities=29%  Similarity=0.359  Sum_probs=19.1

Q ss_pred             eeecCCCCCChhhHhhhhhCcC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~  130 (650)
                      .+ ||.+|+|||||+|+|++..
T Consensus         6 ~I-VG~pnvGKSTL~n~Lt~~~   26 (363)
T 1jal_A            6 GI-VGLPNVGKSTLFNALTKAG   26 (363)
T ss_dssp             EE-ECCTTSSHHHHHHHHHHTC
T ss_pred             EE-ECCCCCCHHHHHHHHHCCC
Confidence            44 9999999999999999976

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=93.19  E-value=0.026  Score=55.38  Aligned_cols=18  Identities=39%  Similarity=0.626  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+.
T Consensus        29 vGpsGsGKSTLl~~L~g~   46 (218)
T 1z6g_A           29 CGPSGVGKGTLIKKLLNE   46 (218)
T ss_dssp             ECSTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999984

>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=93.05  E-value=0.024  Score=57.33  Aligned_cols=18  Identities=33%  Similarity=0.388  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        39 iG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           39 IGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>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=93.02  E-value=0.025  Score=54.02  Aligned_cols=18  Identities=33%  Similarity=0.626  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus         6 ~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            6 TGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999999985

>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=93.02  E-value=0.034  Score=55.46  Aligned_cols=18  Identities=28%  Similarity=0.300  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        37 iG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           37 MGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999985

>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=93.02  E-value=0.026  Score=56.83  Aligned_cols=18  Identities=33%  Similarity=0.320  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        41 ~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           41 VGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>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=92.99  E-value=0.026  Score=57.54  Aligned_cols=18  Identities=39%  Similarity=0.372  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        43 iG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           43 IGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             ECCTTSCHHHHHHHHTSS
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999995

>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=92.87  E-value=0.028  Score=57.74  Aligned_cols=18  Identities=33%  Similarity=0.453  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        40 iGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           40 LGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHHcC
Confidence            999999999999999985

>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=92.84  E-value=0.028  Score=56.55  Aligned_cols=18  Identities=39%  Similarity=0.313  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        35 ~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           35 MGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             ECSTTSSHHHHHHHHHTC
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>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=92.79  E-value=0.029  Score=55.41  Aligned_cols=18  Identities=28%  Similarity=0.510  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        41 iG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           41 HGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>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=92.72  E-value=0.03  Score=55.99  Aligned_cols=18  Identities=22%  Similarity=0.331  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        38 ~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           38 IGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>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=92.67  E-value=0.031  Score=55.52  Aligned_cols=18  Identities=28%  Similarity=0.488  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        40 ~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           40 AGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>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=92.62  E-value=0.062  Score=54.79  Aligned_cols=46  Identities=24%  Similarity=0.225  Sum_probs=32.3

Q ss_pred             ceeeEeeecCCCcccCCcch-HHHHHhccC-cceEEeeeecCCCCCHHH
Q psy8479         589 LRCASKNSDLPLAECLKSLD-LVCMKKLDS-KVNIIPIIAKADTISKSE  635 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~D-i~~mk~l~~-~vnviPvIaKaD~lt~~e  635 (650)
                      .|+++|+ +.++..++...+ ..+++.+.. ...+|.|+.|+|.+...+
T Consensus       168 ~d~iilv-vd~~~~~~~~~~~~~i~~~~~~~~~~~i~v~NK~Dl~~~~~  215 (315)
T 1jwy_B          168 QNAIIVA-VTPANTDLANSDALQLAKEVDPEGKRTIGVITKLDLMDKGT  215 (315)
T ss_dssp             TTEEEEE-EEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTTSSCSSC
T ss_pred             CCeEEEE-EEecCcchhhhHHHHHHHHhCCCCCcEEEEEcCcccCCcch
Confidence            5678888 545445565445 467777763 578899999999987554

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=92.58  E-value=0.055  Score=54.57  Aligned_cols=77  Identities=23%  Similarity=0.223  Sum_probs=46.5

Q ss_pred             ccccccccCCCCCcccc---cc---cccccccccccccccCCCCCCCCCCCCCCccCCCCceeeE-eeecCCCcccCCcc
Q psy8479         535 TLGRGIVRSPGERKEKN---AE---FFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCAS-KNSDLPLAECLKSL  607 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~---~~---~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~l-yf~i~ptgh~l~~~  607 (650)
                      ...+++|||||++..-.   .+   ..++.-+..|+..                      .++++ |+ ++. ..++...
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------~~~~il~v-~d~-~~~~~~~  179 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTK----------------------ENCLILAV-SPA-NSDLANS  179 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTS----------------------TTEEEEEE-EES-SSCGGGC
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcC----------------------CCeEEEEE-ecC-Ccchhhh
Confidence            36899999999986321   01   1221222334332                      24454 44 433 3456666


Q ss_pred             hH-HHHHhcc-CcceEEeeeecCCCCCHHH
Q psy8479         608 DL-VCMKKLD-SKVNIIPIIAKADTISKSE  635 (650)
Q Consensus       608 Di-~~mk~l~-~~vnviPvIaKaD~lt~~e  635 (650)
                      ++ .+++.+. ....+|.|+.|+|.+...+
T Consensus       180 ~~~~~~~~~~~~~~~~i~V~NK~Dl~~~~~  209 (299)
T 2aka_B          180 DALKIAKEVDPQGQRTIGVITKLDLMDEGT  209 (299)
T ss_dssp             HHHHHHHHHCTTCSSEEEEEECGGGSCTTC
T ss_pred             HHHHHHHHhCCCCCeEEEEEEccccCCCCc
Confidence            75 5777776 3578899999999987543

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=92.56  E-value=0.043  Score=55.72  Aligned_cols=18  Identities=28%  Similarity=0.298  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        38 iG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           38 IGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>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=92.49  E-value=0.045  Score=54.68  Aligned_cols=18  Identities=33%  Similarity=0.565  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+.
T Consensus        37 ~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           37 VGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             ECSTTSSHHHHHHHHTTC
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>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=92.47  E-value=0.052  Score=56.14  Aligned_cols=91  Identities=12%  Similarity=0.031  Sum_probs=52.8

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH-HH
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC-MK  613 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~-mk  613 (650)
                      ...+++|||||+++.-    .+ ..+..++....            ...+  ..+||++|+ +.++ ++...-+... ++
T Consensus        58 ~~~i~lvDTPG~~~~~----~~-~~l~~~~~~~~------------~~~l--~~aD~il~V-vD~~-~~~~~~~~~~~~~  116 (308)
T 3iev_A           58 EAQIIFLDTPGIYEPK----KS-DVLGHSMVEIA------------KQSL--EEADVILFM-IDAT-EGWRPRDEEIYQN  116 (308)
T ss_dssp             TEEEEEEECCCCCCCC----TT-CHHHHHHHHHH------------HHHH--HHCSEEEEE-EETT-TBSCHHHHHHHHH
T ss_pred             CCeEEEEECcCCCccc----cc-hhHHHHHHHHH------------HHHh--hcCCEEEEE-EeCC-CCCCchhHHHHHH
Confidence            4679999999998743    11 11111111100            0011  136889999 5443 3455566666 66


Q ss_pred             hccC-cceEEeeeecCCCC-CHHHHHHHHHHHHhh
Q psy8479         614 KLDS-KVNIIPIIAKADTI-SKSELQKFKVSKTRV  646 (650)
Q Consensus       614 ~l~~-~vnviPvIaKaD~l-t~~e~~~~K~~i~~~  646 (650)
                      .|.. .+.+|-|+.|+|.+ ....+....+.+.+.
T Consensus       117 ~l~~~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~  151 (308)
T 3iev_A          117 FIKPLNKPVIVVINKIDKIGPAKNVLPLIDEIHKK  151 (308)
T ss_dssp             HTGGGCCCEEEEEECGGGSSSGGGGHHHHHHHHHH
T ss_pred             HHHhcCCCEEEEEECccCCCCHHHHHHHHHHHHHh
Confidence            6554 47789999999998 665555554444443

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=92.44  E-value=0.04  Score=52.31  Aligned_cols=18  Identities=28%  Similarity=0.593  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+.
T Consensus        13 ~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A           13 SAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             ECCTTSCHHHHHHHHHHH
T ss_pred             ECcCCCCHHHHHHHHHhh
Confidence            999999999999999985

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=92.43  E-value=0.034  Score=57.09  Aligned_cols=18  Identities=33%  Similarity=0.329  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        53 iG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           53 YGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhCC
Confidence            999999999999999985

>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=92.30  E-value=0.037  Score=55.92  Aligned_cols=18  Identities=33%  Similarity=0.421  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        32 iG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           32 VGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhCC
Confidence            999999999999999985

>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=92.23  E-value=0.037  Score=54.21  Aligned_cols=20  Identities=20%  Similarity=0.471  Sum_probs=18.1

Q ss_pred             eeecCCCCCChhhHhhhhhCc
Q psy8479         109 AYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~  129 (650)
                      .+ +|.||+|||||+|.|.+.
T Consensus        23 vl-~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           23 VL-IGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             EE-ECCTTSSHHHHHHHHHHH
T ss_pred             EE-ECcCCCCHHHHHHHHHhh
Confidence            44 999999999999999975

>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=92.20  E-value=0.05  Score=54.45  Aligned_cols=18  Identities=33%  Similarity=0.316  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        34 ~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           34 AGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=92.15  E-value=0.039  Score=55.77  Aligned_cols=18  Identities=44%  Similarity=0.606  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        37 ~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           37 LGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             ECCSSSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>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=92.05  E-value=0.054  Score=55.18  Aligned_cols=18  Identities=33%  Similarity=0.309  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        56 iG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           56 IGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             EcCCCCcHHHHHHHHHcC
Confidence            999999999999999985

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=91.99  E-value=0.055  Score=55.21  Aligned_cols=18  Identities=39%  Similarity=0.331  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        51 ~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           51 VGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>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=91.94  E-value=0.065  Score=56.39  Aligned_cols=77  Identities=21%  Similarity=0.145  Sum_probs=46.8

Q ss_pred             ccccccccCCCCCccccccc------ccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcch
Q psy8479         535 TLGRGIVRSPGERKEKNAEF------FSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLD  608 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~------~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~D  608 (650)
                      ...|++|||||++..-....      .++.-+..|+..                     ..+++|++ ++ ...++...|
T Consensus       129 ~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~iiL~v-~~-a~~~~~~~~  185 (353)
T 2x2e_A          129 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTK---------------------ENCLILAV-SP-ANSDLANSD  185 (353)
T ss_dssp             CCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTS---------------------TTEEEEEE-EE-TTSCGGGCH
T ss_pred             CCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcC---------------------CCeEEEEE-ec-CCCccchhH
Confidence            46899999999987422111      121122223322                     23345555 53 345677777


Q ss_pred             HH-HHHhcc-CcceEEeeeecCCCCCHH
Q psy8479         609 LV-CMKKLD-SKVNIIPIIAKADTISKS  634 (650)
Q Consensus       609 i~-~mk~l~-~~vnviPvIaKaD~lt~~  634 (650)
                      .. +++.+. ....+|-|+.|+|.+...
T Consensus       186 ~~~i~~~~~~~~~~~i~V~NK~Dl~~~~  213 (353)
T 2x2e_A          186 ALKVAKEVDPQGQRTIGVITKLDLMDEG  213 (353)
T ss_dssp             HHHHHHHHCTTCTTEEEEEECGGGSCTT
T ss_pred             HHHHHHHhCcCCCceEEEeccccccCcc
Confidence            64 788776 356789999999998754

>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=91.93  E-value=0.05  Score=52.04  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=19.5

Q ss_pred             CceeecCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      -+.| +|.||+|||||++.|++.
T Consensus         8 ~i~i-~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            8 LLAF-AAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             EEEE-ECCTTSCHHHHHHHHHHH
T ss_pred             EEEE-EeCCCCCHHHHHHHHHHh
Confidence            4566 999999999999999975

>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=91.84  E-value=0.059  Score=54.63  Aligned_cols=18  Identities=22%  Similarity=0.246  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        47 ~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           47 IGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=91.80  E-value=0.054  Score=52.30  Aligned_cols=24  Identities=29%  Similarity=0.292  Sum_probs=19.8

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+. +|.||+|||||++.|.+.
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            454444 999999999999999885

>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=91.76  E-value=0.06  Score=54.76  Aligned_cols=18  Identities=39%  Similarity=0.377  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        52 ~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           52 MGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             ECCTTSSHHHHHHHHHTC
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=91.75  E-value=0.05  Score=54.60  Aligned_cols=18  Identities=28%  Similarity=0.386  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        30 iG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           30 LGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=91.70  E-value=0.062  Score=54.43  Aligned_cols=18  Identities=39%  Similarity=0.479  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        52 ~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           52 VGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=91.69  E-value=0.055  Score=56.93  Aligned_cols=24  Identities=29%  Similarity=0.270  Sum_probs=19.8

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|..+. +|.+|+|||||+|.|.+.
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g~   78 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGSL   78 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            455444 999999999999999853

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=91.52  E-value=0.067  Score=54.34  Aligned_cols=18  Identities=39%  Similarity=0.468  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+-
T Consensus        39 iG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           39 AGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhCC
Confidence            999999999999999985

>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=91.50  E-value=0.061  Score=50.51  Aligned_cols=19  Identities=26%  Similarity=0.419  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||++.|.+.-
T Consensus        39 ~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           39 NGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             ECSTTSSHHHHHHHHHHHT
T ss_pred             ECCCCCCHHHHHHHHHHhC
Confidence            9999999999999999864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=91.26  E-value=0.049  Score=53.30  Aligned_cols=18  Identities=28%  Similarity=0.567  Sum_probs=11.8

Q ss_pred             cCCCCCChhhHhhhhh-Cc
Q psy8479         112 PCETGLGKSTLMDSLF-NT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf-~~  129 (650)
                      +|.||+|||||++.|. +.
T Consensus        33 ~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           33 SSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             ECSCC----CHHHHHHC--
T ss_pred             ECCCCCCHHHHHHHHHhcC
Confidence            9999999999999999 64

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=91.24  E-value=0.048  Score=52.36  Aligned_cols=21  Identities=19%  Similarity=0.259  Sum_probs=18.5

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.| +|.+|+|||||+|.|++.
T Consensus        33 i~i-~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           33 VNI-MGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             EEE-EECTTSCHHHHHHHHHHH
T ss_pred             EEE-EcCCCCCHHHHHHHHHHH
Confidence            445 999999999999999975

>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=91.20  E-value=0.092  Score=50.15  Aligned_cols=82  Identities=13%  Similarity=0.099  Sum_probs=48.5

Q ss_pred             cccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCC--cccCCcchHHH
Q psy8479         534 TTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPL--AECLKSLDLVC  611 (650)
Q Consensus       534 ~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~pt--gh~l~~~Di~~  611 (650)
                      ....+++|||||+...      . ..+..|+...                +  .+.|+++|+ +..+  ...+..+.-.+
T Consensus        53 ~~~~~~l~Dt~G~~~~------~-~~~~~~~~~~----------------~--~~~~~~i~v-~D~~~~~~~~~~~~~~~  106 (218)
T 1nrj_B           53 DGSGVTLVDFPGHVKL------R-YKLSDYLKTR----------------A--KFVKGLIFM-VDSTVDPKKLTTTAEFL  106 (218)
T ss_dssp             GGSSCEEEECCCCGGG------T-HHHHHHHHHH----------------G--GGEEEEEEE-EETTSCTTCCHHHHHHH
T ss_pred             eCceEEEEECCCcHHH------H-HHHHHHHHhc----------------c--ccCCEEEEE-EECCCChHHHHHHHHHH
Confidence            5578999999999541      1 2334555431                0  247889998 4444  23344333322


Q ss_pred             HHhc-------cCcceEEeeeecCCCCCHHHHHHHHH
Q psy8479         612 MKKL-------DSKVNIIPIIAKADTISKSELQKFKV  641 (650)
Q Consensus       612 mk~l-------~~~vnviPvIaKaD~lt~~e~~~~K~  641 (650)
                      +.-+       ...+-+|.|+.|+|.....++..++.
T Consensus       107 ~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~  143 (218)
T 1nrj_B          107 VDILSITESSCENGIDILIACNKSELFTARPPSKIKD  143 (218)
T ss_dssp             HHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHH
T ss_pred             HHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHH
Confidence            2222       24677999999999988654443333

>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=91.15  E-value=0.065  Score=53.24  Aligned_cols=76  Identities=13%  Similarity=-0.069  Sum_probs=45.6

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..++||||||+++.......+...+..++...+                  ..+|+++|+ +.++.  +.+.+..+++.|
T Consensus        71 ~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~------------------~~~d~il~V-~d~~~--~~~~~~~~~~~l  129 (260)
T 2xtp_A           71 REIVIIDTPDMFSWKDHCEALYKEVQRCYLLSA------------------PGPHVLLLV-TQLGR--YTSQDQQAAQRV  129 (260)
T ss_dssp             EEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHT------------------TCCSEEEEE-EETTC--CCHHHHHHHHHH
T ss_pred             CEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcC------------------CCCcEEEEE-EeCCC--CCHHHHHHHHHH
Confidence            469999999998743211111012222222211                  246889999 65553  666676665555


Q ss_pred             cC------cceEEeeee-cCCCCC
Q psy8479         616 DS------KVNIIPIIA-KADTIS  632 (650)
Q Consensus       616 ~~------~vnviPvIa-KaD~lt  632 (650)
                      ..      ...+|.|+. |+|...
T Consensus       130 ~~~~~~~~~~~~i~vv~nK~Dl~~  153 (260)
T 2xtp_A          130 KEIFGEDAMGHTIVLFTHKEDLNG  153 (260)
T ss_dssp             HHHHCGGGGGGEEEEEECGGGGTT
T ss_pred             HHHhCchhhccEEEEEEcccccCC
Confidence            54      356788888 999874

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=91.11  E-value=0.081  Score=61.10  Aligned_cols=71  Identities=13%  Similarity=0.071  Sum_probs=46.5

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh-
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK-  614 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~-  614 (650)
                      ..++||||||+++.-.    ...-+..|+..                      .|++||+ +.++ +++...++++|+. 
T Consensus       174 ~~l~LiDTPGl~~~~~----~~~~~~~~i~~----------------------aD~vL~V-vda~-~~~s~~e~~~l~~~  225 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEA----RNELSLGYVNN----------------------CHAILFV-MRAS-QPCTLGERRYLENY  225 (695)
T ss_dssp             TTEEEEECCCHHHHHT----CHHHHTHHHHS----------------------SSEEEEE-EETT-STTCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCchhh----HHHHHHHHHHh----------------------CCEEEEE-EeCC-CccchhHHHHHHHH
Confidence            4699999999987321    11122344433                      5789999 5443 4566778877764 


Q ss_pred             ccC-cceEEeeeecCCCCCHH
Q psy8479         615 LDS-KVNIIPIIAKADTISKS  634 (650)
Q Consensus       615 l~~-~vnviPvIaKaD~lt~~  634 (650)
                      +.. ...+|.|+.|+|.+...
T Consensus       226 l~~~~~~iiiVlNK~Dl~~~~  246 (695)
T 2j69_A          226 IKGRGLTVFFLVNAWDQVRES  246 (695)
T ss_dssp             TTTSCCCEEEEEECGGGGGGG
T ss_pred             HHhhCCCEEEEEECccccccc
Confidence            432 34589999999988653

>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=90.95  E-value=0.08  Score=49.65  Aligned_cols=24  Identities=33%  Similarity=0.430  Sum_probs=19.7

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|-.+- +|.+|+|||||++.|.+.
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            453333 999999999999999985

>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=90.86  E-value=0.14  Score=49.58  Aligned_cols=46  Identities=11%  Similarity=-0.120  Sum_probs=28.4

Q ss_pred             ceeeEeeecCCCc-ccCC-cchHHHHHhccC---cceEEeeeecCCCCCHHH
Q psy8479         589 LRCASKNSDLPLA-ECLK-SLDLVCMKKLDS---KVNIIPIIAKADTISKSE  635 (650)
Q Consensus       589 vh~~lyf~i~ptg-h~l~-~~Di~~mk~l~~---~vnviPvIaKaD~lt~~e  635 (650)
                      .+|++|+ +..+. ..+. .-++.+++.+..   ...+|.|+.|+|.+...+
T Consensus       109 ~d~~i~v-~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~~  159 (228)
T 2qu8_A          109 NGVILFI-IDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMDS  159 (228)
T ss_dssp             SEEEEEE-EETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--C
T ss_pred             ccEEEEE-EecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCchh
Confidence            3678888 44433 2222 224556666654   678999999999987543

>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=90.86  E-value=0.06  Score=56.13  Aligned_cols=18  Identities=39%  Similarity=0.545  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|++-
T Consensus        86 vG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           86 VGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             ESSSCHHHHHHHHHHTTS
T ss_pred             ECCCCchHHHHHHHHHcC
Confidence            999999999999999984

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=90.70  E-value=0.06  Score=52.82  Aligned_cols=18  Identities=22%  Similarity=0.086  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        28 iG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           28 LGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             ECCTTSSTTHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999985

>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=90.57  E-value=0.09  Score=56.27  Aligned_cols=18  Identities=33%  Similarity=0.326  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        60 iGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           60 IGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             EcCCCchHHHHHHHHhcC
Confidence            999999999999999985

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=90.48  E-value=0.074  Score=51.23  Aligned_cols=19  Identities=26%  Similarity=0.429  Sum_probs=17.5

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||+|.|+...
T Consensus        44 vG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           44 MGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             EESTTSSHHHHHHHHHHHH
T ss_pred             EcCCCCCHHHHHHHHHHHh
Confidence            9999999999999999763

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=90.37  E-value=0.036  Score=52.85  Aligned_cols=22  Identities=18%  Similarity=0.190  Sum_probs=19.2

Q ss_pred             CceeecCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      -+.+ ||.||+|||||++.|.+.
T Consensus         4 ~v~I-vG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSI-VGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEE-EESCHHHHHHHHHHHHHH
T ss_pred             EEEE-ECCCCCCHHHHHHHHHHH
Confidence            4556 999999999999999984

>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=90.33  E-value=0.13  Score=54.15  Aligned_cols=77  Identities=14%  Similarity=0.154  Sum_probs=47.3

Q ss_pred             ccccccccCCCCCccccccccc------ccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCccc-CCcc
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFS------RAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAEC-LKSL  607 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~------~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~-l~~~  607 (650)
                      ...|++|||||+++.-......      ..-+..|+.                      +.||++++ +.++... ...-
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~----------------------~~d~iilv-v~~~~~~~~~~~  191 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIE----------------------KPNCIILA-ISPANQDLATSD  191 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHH----------------------SSSEEEEE-EEETTSCGGGCH
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhh----------------------cCCeEEEE-eecccCCcCCHH
Confidence            3579999999998853321111      011122222                      24677777 4444333 3355


Q ss_pred             hHHHHHhccC-cceEEeeeecCCCCCHH
Q psy8479         608 DLVCMKKLDS-KVNIIPIIAKADTISKS  634 (650)
Q Consensus       608 Di~~mk~l~~-~vnviPvIaKaD~lt~~  634 (650)
                      ++.+++.+.. ...+|-|+.|+|.+...
T Consensus       192 ~~~l~~~~~~~~~~~i~V~nK~Dl~~~~  219 (360)
T 3t34_A          192 AIKISREVDPSGDRTFGVLTKIDLMDKG  219 (360)
T ss_dssp             HHHHHHHSCTTCTTEEEEEECGGGCCTT
T ss_pred             HHHHHHHhcccCCCEEEEEeCCccCCCc
Confidence            5778888875 35789999999998654

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=90.33  E-value=0.088  Score=53.38  Aligned_cols=24  Identities=29%  Similarity=0.239  Sum_probs=19.5

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|--+- +|.||+|||||++.|.+.
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHh
Confidence            453333 999999999999999984

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=90.21  E-value=0.085  Score=53.69  Aligned_cols=19  Identities=26%  Similarity=0.328  Sum_probs=17.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|+||+|||||++.|.+..
T Consensus        36 ~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           36 LGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             ECCTTSSHHHHHHHHTTSS
T ss_pred             ECCCCCCHHHHHHHHhCCC
Confidence            9999999999999999963

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=90.21  E-value=0.079  Score=50.73  Aligned_cols=24  Identities=29%  Similarity=0.207  Sum_probs=19.4

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+- +|.+|+|||||++.|.+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            453333 999999999999999884

>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=90.17  E-value=0.094  Score=54.17  Aligned_cols=18  Identities=28%  Similarity=0.488  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        70 ~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           70 AGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EESTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999985

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=90.11  E-value=0.083  Score=49.27  Aligned_cols=87  Identities=11%  Similarity=0.080  Sum_probs=53.1

Q ss_pred             cccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCC-c-ccCCcchHHH
Q psy8479         534 TTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPL-A-ECLKSLDLVC  611 (650)
Q Consensus       534 ~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~pt-g-h~l~~~Di~~  611 (650)
                      ....+.+|||||+...      . .....|+...                +  ...||++|+ +..+ . ..+..+. .+
T Consensus        89 ~~~~~~l~Dt~G~~~~------~-~~~~~~~~~~----------------~--~~~~~~i~v-~d~~~~~~~~~~~~-~~  141 (193)
T 2ged_A           89 DGSGVTLVDFPGHVKL------R-YKLSDYLKTR----------------A--KFVKGLIFM-VDSTVDPKKLTTTA-EF  141 (193)
T ss_dssp             CCTTCSEEEETTCCBS------S-CCHHHHHHHH----------------G--GGEEEEEEE-EETTCCHHHHHHHH-HH
T ss_pred             cCCeEEEEECCCCchH------H-HHHHHHHHhh----------------c--ccCCEEEEE-EECCCCchhHHHHH-HH
Confidence            4578999999998652      1 1223444331                1  247899998 5444 1 1222211 12


Q ss_pred             HHh--------ccCcceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         612 MKK--------LDSKVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       612 mk~--------l~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      +..        ....+.+|-|+.|+|.....+...+++.+.+.|
T Consensus       142 ~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~l  185 (193)
T 2ged_A          142 LVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEI  185 (193)
T ss_dssp             HHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHH
T ss_pred             HHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHHHHHHHH
Confidence            222        234678999999999998777777777776654

>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=89.97  E-value=0.1  Score=50.39  Aligned_cols=18  Identities=28%  Similarity=0.630  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+.
T Consensus        14 ~GpsGsGKsTl~~~L~~~   31 (208)
T 3tau_A           14 SGPSGVGKGTVREAVFKD   31 (208)
T ss_dssp             ECCTTSCHHHHHHHHHHS
T ss_pred             ECcCCCCHHHHHHHHHhh
Confidence            999999999999999975

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=89.95  E-value=0.1  Score=49.39  Aligned_cols=18  Identities=28%  Similarity=0.586  Sum_probs=17.0

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+||||+++.|.+.
T Consensus        12 ~G~~GsGKSTl~~~L~~~   29 (207)
T 2j41_A           12 SGPSGVGKGTVRKRIFED   29 (207)
T ss_dssp             ECSTTSCHHHHHHHHHHC
T ss_pred             ECCCCCCHHHHHHHHHHh
Confidence            999999999999999875

>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=89.93  E-value=0.1  Score=54.46  Aligned_cols=18  Identities=33%  Similarity=0.316  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus       132 vGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          132 IGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             ECSSSSSHHHHHHHHHHH
T ss_pred             ECCCCCcHHHHHHHHhhh
Confidence            999999999999999974

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=89.93  E-value=0.084  Score=50.99  Aligned_cols=20  Identities=25%  Similarity=0.360  Sum_probs=18.0

Q ss_pred             eeecCCCCCChhhHhhhhhCc
Q psy8479         109 AYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~  129 (650)
                      .+ +|.+|+|||||++.|.+.
T Consensus         5 ~i-~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            5 FL-TGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             EE-ESCCSSCHHHHHHHHHHH
T ss_pred             EE-ECCCCChHHHHHHHHHhh
Confidence            45 999999999999999985

>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=89.92  E-value=0.075  Score=51.05  Aligned_cols=18  Identities=33%  Similarity=0.289  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        31 ~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           31 FGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EESTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999999985

>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=89.88  E-value=0.13  Score=47.36  Aligned_cols=54  Identities=15%  Similarity=0.043  Sum_probs=34.0

Q ss_pred             CceeeEeeecCCCcc----------cCCcchHHHHHhcc-CcceEEeeeecCCCCCHH--HHHHHHHH
Q psy8479         588 RLRCASKNSDLPLAE----------CLKSLDLVCMKKLD-SKVNIIPIIAKADTISKS--ELQKFKVS  642 (650)
Q Consensus       588 rvh~~lyf~i~ptgh----------~l~~~Di~~mk~l~-~~vnviPvIaKaD~lt~~--e~~~~K~~  642 (650)
                      .+++|+++ +.++..          ++.+.|+++++.+. ..+.+|.|+.|+|.....  ++..+.+.
T Consensus        82 ~~~~v~~v-~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~  148 (190)
T 2cxx_A           82 NIDVAVLV-VDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNVQEVINFLAEK  148 (190)
T ss_dssp             GCCEEEEE-EETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCHHHHHHHHHHH
T ss_pred             cCCEEEEE-EcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcHHHHHHHHHHH
Confidence            46677777 544321          23445666666654 467899999999998853  45444443

>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=89.84  E-value=0.084  Score=56.45  Aligned_cols=22  Identities=27%  Similarity=0.317  Sum_probs=19.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCcC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~  130 (650)
                      +.+ ||.+|+|||||+|.|++..
T Consensus         4 v~I-VG~pnvGKSTL~n~L~~~~   25 (368)
T 2dby_A            4 VGI-VGLPNVGKSTLFNALTRAN   25 (368)
T ss_dssp             EEE-ECCSSSSHHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCC
Confidence            345 9999999999999999874

>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=89.83  E-value=0.087  Score=56.40  Aligned_cols=18  Identities=22%  Similarity=0.279  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        35 lGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           35 LGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             ECSTTSSHHHHHHHHHTS
T ss_pred             ECCCCcHHHHHHHHHHcC
Confidence            999999999999999985

>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=89.78  E-value=0.1  Score=54.29  Aligned_cols=24  Identities=21%  Similarity=0.037  Sum_probs=20.1

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+- +|.||+|||||++.|.+.
T Consensus        89 ~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           89 VPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchHHHHHHHHHhh
Confidence            565444 999999999999999984

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=89.63  E-value=0.25  Score=46.00  Aligned_cols=73  Identities=12%  Similarity=0.038  Sum_probs=43.2

Q ss_pred             ccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHH
Q psy8479         533 TTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCM  612 (650)
Q Consensus       533 ~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~m  612 (650)
                      .....++||||||...      +. .-...|+.                      ..|+++|+++.-....+..+.-.+.
T Consensus        60 ~~~~~~~i~Dt~G~~~------~~-~~~~~~~~----------------------~~d~ii~v~D~~~~~s~~~~~~~~~  110 (199)
T 4bas_A           60 KGRVAFTVFDMGGAKK------FR-GLWETYYD----------------------NIDAVIFVVDSSDHLRLCVVKSEIQ  110 (199)
T ss_dssp             ETTEEEEEEEECCSGG------GG-GGGGGGCT----------------------TCSEEEEEEETTCGGGHHHHHHHHH
T ss_pred             eCCEEEEEEECCCCHh------HH-HHHHHHHh----------------------cCCEEEEEEECCcHHHHHHHHHHHH
Confidence            4568899999999743      11 11111211                      3678888844333333444443333


Q ss_pred             HhccC-----------cceEEeeeecCCCCCHH
Q psy8479         613 KKLDS-----------KVNIIPIIAKADTISKS  634 (650)
Q Consensus       613 k~l~~-----------~vnviPvIaKaD~lt~~  634 (650)
                      .-+..           .+.+|-|+.|+|.....
T Consensus       111 ~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~  143 (199)
T 4bas_A          111 AMLKHEDIRRELPGGGRVPFLFFANKMDAAGAK  143 (199)
T ss_dssp             HHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCC
T ss_pred             HHHhChhhhhcccccCCCCEEEEEECcCCCCCC
Confidence            33332           77899999999998773

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=89.53  E-value=0.098  Score=55.48  Aligned_cols=24  Identities=38%  Similarity=0.502  Sum_probs=19.6

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|-.+- +|.||+|||||+|+|.+.
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhc
Confidence            443333 999999999999999985

>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=89.32  E-value=0.13  Score=55.32  Aligned_cols=18  Identities=33%  Similarity=0.399  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        35 lGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           35 VGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             EcCCCchHHHHHHHHHcC
Confidence            999999999999999995

>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=89.26  E-value=0.13  Score=54.74  Aligned_cols=18  Identities=28%  Similarity=0.246  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        35 lGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           35 LGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             ECSTTSSHHHHHHHHHTS
T ss_pred             EcCCCchHHHHHHHHHCC
Confidence            999999999999999995

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=89.20  E-value=0.13  Score=54.77  Aligned_cols=18  Identities=33%  Similarity=0.399  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        35 lGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           35 LGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCchHHHHHHHHhcC
Confidence            999999999999999995

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=89.14  E-value=0.12  Score=55.08  Aligned_cols=18  Identities=22%  Similarity=0.331  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        47 lGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           47 LGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             ECSTTSSHHHHHHHHHTS
T ss_pred             ECCCCCcHHHHHHHHhCC
Confidence            999999999999999985

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=89.07  E-value=0.14  Score=47.82  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=18.1

Q ss_pred             CCceeecCCCCCChhhHhhhhhC
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFN  128 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~  128 (650)
                      +|+..-+|++|+|||||+.+|..
T Consensus        26 ~g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           26 KGFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SSEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            45322299999999999999865

>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=88.93  E-value=0.14  Score=54.74  Aligned_cols=18  Identities=22%  Similarity=0.279  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        43 lGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           43 LGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCChHHHHHHHHHcC
Confidence            999999999999999985

>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=88.93  E-value=0.13  Score=54.86  Aligned_cols=18  Identities=33%  Similarity=0.414  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        36 lGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           36 IGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EESTTSSHHHHHHHHHTS
T ss_pred             ECCCCchHHHHHHHHhcC
Confidence            999999999999999995

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=88.87  E-value=0.15  Score=57.62  Aligned_cols=18  Identities=33%  Similarity=0.458  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus       387 vG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          387 VGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             ECCTTSSTTHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999984

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=88.85  E-value=0.12  Score=54.28  Aligned_cols=18  Identities=33%  Similarity=0.431  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+|.|.+.
T Consensus       177 ~G~~GsGKTTll~~l~g~  194 (330)
T 2pt7_A          177 CGGTGSGKTTYIKSIMEF  194 (330)
T ss_dssp             EESTTSCHHHHHHHGGGG
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=88.70  E-value=0.14  Score=54.57  Aligned_cols=18  Identities=39%  Similarity=0.488  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus       142 vG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          142 TGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             ECSSSSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999984

>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=88.63  E-value=0.37  Score=43.41  Aligned_cols=54  Identities=9%  Similarity=-0.045  Sum_probs=30.9

Q ss_pred             CceeeEeeecCCCcccCCcchHHHHHhcc----CcceEEeeeecCCCCCHHHHHHHHH
Q psy8479         588 RLRCASKNSDLPLAECLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKV  641 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~~Di~~mk~l~----~~vnviPvIaKaD~lt~~e~~~~K~  641 (650)
                      ..|+++|+++.-....+..++-.+..-+.    ..+.+|-|+.|+|.....+...+.+
T Consensus        74 ~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  131 (171)
T 1upt_A           74 NTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMAN  131 (171)
T ss_dssp             TCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHH
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCCHHHHHH
Confidence            36788888443223334444433333332    4678999999999987533333333

>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=88.59  E-value=0.12  Score=48.55  Aligned_cols=17  Identities=35%  Similarity=0.405  Sum_probs=16.2

Q ss_pred             cCCCCCChhhHhhhhhC
Q psy8479         112 PCETGLGKSTLMDSLFN  128 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~  128 (650)
                      +|.+|+|||||++.|.+
T Consensus         8 ~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            8 TGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             ECSTTSSHHHHHHHHHH
T ss_pred             ECCCCCcHHHHHHHHhc
Confidence            99999999999999975

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=88.57  E-value=0.14  Score=55.14  Aligned_cols=18  Identities=39%  Similarity=0.538  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||+++|.+-
T Consensus        53 lGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           53 LGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EESTTSSHHHHHHHHHTC
T ss_pred             ECCCCChHHHHHHHHhCC
Confidence            999999999999999984

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=88.52  E-value=0.1  Score=55.02  Aligned_cols=20  Identities=30%  Similarity=0.270  Sum_probs=18.2

Q ss_pred             eeecCCCCCChhhHhhhhhCc
Q psy8479         109 AYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~  129 (650)
                      .+ +|.||+|||||++.|.+.
T Consensus       174 ~I-vG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          174 AI-LGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             EE-ECCTTSHHHHHHHHHHHH
T ss_pred             EE-ECCCCCCHHHHHHHHHHH
Confidence            44 999999999999999985

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=88.48  E-value=0.15  Score=57.39  Aligned_cols=18  Identities=28%  Similarity=0.320  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus       375 vG~sGsGKSTll~~l~g~  392 (582)
T 3b5x_A          375 VGRSGSGKSTIANLFTRF  392 (582)
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999984

>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=88.47  E-value=0.33  Score=51.92  Aligned_cols=84  Identities=14%  Similarity=0.042  Sum_probs=50.1

Q ss_pred             cccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHH
Q psy8479         534 TTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMK  613 (650)
Q Consensus       534 ~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk  613 (650)
                      ....+++|||||..+      +. .....++.                      ..++++++ +..+.....+...+.+.
T Consensus        73 ~~~~~~iiDtPGh~~------~~-~~~~~~~~----------------------~~D~~ilV-vda~~~~~~~qt~~~~~  122 (403)
T 3sjy_A           73 FLRRISFIDAPGHEV------LM-ATMLSGAA----------------------LMDGAILV-VAANEPFPQPQTREHFV  122 (403)
T ss_dssp             EEEEEEEEECCCCGG------GH-HHHHHHHT----------------------TCSEEEEE-EETTSCSSCHHHHHHHH
T ss_pred             ccceEEEEECCCcHH------HH-HHHHHHHh----------------------hCCEEEEE-EECCCCCCcHHHHHHHH
Confidence            347899999999633      22 22222221                      26778888 54432221333333333


Q ss_pred             hcc--CcceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         614 KLD--SKVNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       614 ~l~--~~vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      .+.  ....+|.|+.|+|....+++....+.|.+.+
T Consensus       123 ~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l  158 (403)
T 3sjy_A          123 ALGIIGVKNLIIVQNKVDVVSKEEALSQYRQIKQFT  158 (403)
T ss_dssp             HHHHHTCCCEEEEEECGGGSCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCEEEEEECccccchHHHHHHHHHHHHHH
Confidence            322  2236899999999999988777666665543

>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=88.42  E-value=0.12  Score=53.58  Aligned_cols=18  Identities=28%  Similarity=0.283  Sum_probs=17.0

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||.||+|||||++.|.+.
T Consensus       108 vG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          108 VGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             ECSTTSSHHHHHHHHHHH
T ss_pred             ECCCCCcHHHHHHHHHHH
Confidence            999999999999999974

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=88.37  E-value=0.11  Score=64.10  Aligned_cols=18  Identities=33%  Similarity=0.298  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|++-
T Consensus      1111 VG~SGsGKSTL~~lL~rl 1128 (1321)
T 4f4c_A         1111 VGPSGCGKSTVVALLERF 1128 (1321)
T ss_dssp             ECSTTSSTTSHHHHHTTS
T ss_pred             ECCCCChHHHHHHHHhcC
Confidence            999999999999999983

>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=88.28  E-value=0.14  Score=47.94  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.0

Q ss_pred             CceeecCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      ++-+ +|.+|+|||||+++|.+.
T Consensus        40 ~~~l-~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           40 GLTF-VGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             EEEE-CCSSSSSHHHHHHHHHHH
T ss_pred             EEEE-ECCCCCCHHHHHHHHHHH
Confidence            4455 999999999999999875

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=88.23  E-value=0.18  Score=48.34  Aligned_cols=18  Identities=28%  Similarity=0.532  Sum_probs=16.8

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|...
T Consensus        18 ~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           18 CGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             ECCTTSCHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHh
Confidence            999999999999999864

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=88.18  E-value=0.14  Score=50.69  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=20.7

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +|+-+ +|.+|+|||||+++|.+.
T Consensus        50 ~g~ll-~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           50 KGVLL-VGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             SEEEE-ECCTTSSHHHHHHHHHHH
T ss_pred             CeEEE-ECCCCCCHHHHHHHHHHH
Confidence            57777 999999999999999975

>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=88.14  E-value=0.17  Score=48.90  Aligned_cols=21  Identities=38%  Similarity=0.548  Sum_probs=18.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +-+ +|.||+||+||++.|+..
T Consensus         4 IVi-~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVI-SGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHh
Confidence            456 999999999999999865

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=87.97  E-value=0.13  Score=54.60  Aligned_cols=18  Identities=22%  Similarity=0.320  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        32 lGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           32 LGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             ECCCTHHHHHHHHHHHTS
T ss_pred             ECCCCccHHHHHHHHHcC
Confidence            999999999999999985

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=87.84  E-value=0.14  Score=54.48  Aligned_cols=18  Identities=33%  Similarity=0.492  Sum_probs=17.0

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus       129 ~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          129 TGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             ECSTTSCHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHhc
Confidence            999999999999999874

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=87.73  E-value=0.18  Score=49.97  Aligned_cols=24  Identities=21%  Similarity=0.167  Sum_probs=19.0

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+- +|.+|+|||||++.|.+.
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            453333 999999999999999774

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=87.63  E-value=0.14  Score=47.31  Aligned_cols=22  Identities=27%  Similarity=0.167  Sum_probs=19.1

Q ss_pred             CceeecCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      .+.+ +|.+|+|||||+++|.+.
T Consensus        38 ~~~l-~G~~G~GKTtL~~~i~~~   59 (149)
T 2kjq_A           38 FIYV-WGEEGAGKSHLLQAWVAQ   59 (149)
T ss_dssp             EEEE-ESSSTTTTCHHHHHHHHH
T ss_pred             EEEE-ECCCCCCHHHHHHHHHHH
Confidence            3455 999999999999999985

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=87.56  E-value=0.23  Score=48.73  Aligned_cols=24  Identities=17%  Similarity=0.144  Sum_probs=19.7

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+. +|.+|+|||||++.|.+.
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            563333 999999999999999986

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=87.52  E-value=0.18  Score=48.20  Aligned_cols=18  Identities=22%  Similarity=0.335  Sum_probs=16.8

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        35 ~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           35 MGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             ECCTTSCHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHh
Confidence            999999999999999864

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=87.45  E-value=0.12  Score=54.96  Aligned_cols=18  Identities=28%  Similarity=0.366  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.|-
T Consensus        37 lGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           37 LGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             ECSCHHHHHHHHHHHHTS
T ss_pred             ECCCCCcHHHHHHHHhCC
Confidence            999999999999999985

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=87.16  E-value=0.16  Score=57.39  Aligned_cols=18  Identities=50%  Similarity=0.505  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus       375 vG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          375 LGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             ECSSSSSHHHHHHTTTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999985

>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=86.90  E-value=0.21  Score=49.31  Aligned_cols=16  Identities=25%  Similarity=0.306  Sum_probs=15.8

Q ss_pred             cCCCCCChhhHhhhhh
Q psy8479         112 PCETGLGKSTLMDSLF  127 (650)
Q Consensus       112 VG~SGvGKSTlINtLf  127 (650)
                      +|.+|+|||||++.|.
T Consensus        33 ~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           33 LGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             ECCTTSSHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHH
Confidence            9999999999999999

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=86.78  E-value=0.18  Score=51.18  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.8

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +|+-+ +|.+|+|||||+++|.+.
T Consensus        45 ~GvlL-~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           45 AGVLL-AGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             SEEEE-ESSTTSCHHHHHHHHHHH
T ss_pred             CeEEE-ECCCCCcHHHHHHHHHHH
Confidence            67777 999999999999999985

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=86.65  E-value=0.21  Score=51.70  Aligned_cols=18  Identities=28%  Similarity=0.268  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||.+|+|||||++.|.+.
T Consensus       106 vG~nGsGKTTll~~Lag~  123 (302)
T 3b9q_A          106 VGVNGGGKTTSLGKLAHR  123 (302)
T ss_dssp             ECCTTSCHHHHHHHHHHH
T ss_pred             EcCCCCCHHHHHHHHHHH
Confidence            999999999999999985

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=86.34  E-value=0.2  Score=50.36  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=20.7

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +|+-+ +|.+|+|||||+++|.+.
T Consensus        74 ~gvll-~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           74 KGVLL-VGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             CEEEE-ECCTTSSHHHHHHHHHHH
T ss_pred             CeEEE-ECCCcChHHHHHHHHHHH
Confidence            57777 999999999999999985

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=86.00  E-value=0.23  Score=55.39  Aligned_cols=18  Identities=28%  Similarity=0.359  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+|+|.+.
T Consensus       266 ~GptGSGKTTlL~aL~~~  283 (511)
T 2oap_1          266 VGETASGKTTTLNAIMMF  283 (511)
T ss_dssp             EESTTSSHHHHHHHHGGG
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999985

>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=85.80  E-value=1.3  Score=41.08  Aligned_cols=73  Identities=8%  Similarity=0.032  Sum_probs=42.1

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcch---
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLD---  608 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~D---  608 (650)
                      ++..+.+++|||||..+-.   ..+    ..|+.                      ..|+++++++.-....+..+.   
T Consensus        62 ~~~~~~~~i~D~~G~~~~~---~~~----~~~~~----------------------~~d~~i~v~d~~~~~s~~~~~~~~  112 (194)
T 2atx_A           62 GGKQYLLGLYDTAGQEDYD---RLR----PLSYP----------------------MTDVFLICFSVVNPASFQNVKEEW  112 (194)
T ss_dssp             SSCEEEEEEECCCCSSSST---TTG----GGGCT----------------------TCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             CCEEEEEEEEECCCCcchh---HHH----HHhcC----------------------CCCEEEEEEECCCHHHHHHHHHHH
Confidence            4556889999999975410   011    11111                      256788873322222333333   


Q ss_pred             HHHHHhccCcceEEeeeecCCCCCH
Q psy8479         609 LVCMKKLDSKVNIIPIIAKADTISK  633 (650)
Q Consensus       609 i~~mk~l~~~vnviPvIaKaD~lt~  633 (650)
                      +..+++....+.+|-|+.|+|....
T Consensus       113 ~~~~~~~~~~~piilv~nK~Dl~~~  137 (194)
T 2atx_A          113 VPELKEYAPNVPFLLIGTQIDLRDD  137 (194)
T ss_dssp             HHHHHHHSTTCCEEEEEECTTSTTC
T ss_pred             HHHHHHhCCCCCEEEEEEChhhccc
Confidence            3344444457889999999998753

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=85.79  E-value=0.22  Score=45.83  Aligned_cols=21  Identities=29%  Similarity=0.195  Sum_probs=18.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.+|+||||+.+.|.+.
T Consensus         7 i~l-~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            7 IFL-VGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             EEE-ECCTTSCHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHH
Confidence            445 999999999999999875

>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=85.72  E-value=0.45  Score=55.57  Aligned_cols=80  Identities=21%  Similarity=0.166  Sum_probs=51.2

Q ss_pred             ccccccccccCCCCCcccccc------cccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCc
Q psy8479         533 TTTLGRGIVRSPGERKEKNAE------FFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKS  606 (650)
Q Consensus       533 ~~~l~ltivdtpGfg~~~~~~------~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~  606 (650)
                      +....|++|||||++..-...      .-+..-+..|+.                     .+.+++|++ +.. .+++..
T Consensus       147 P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~---------------------~~aDlIL~V-VDA-s~~~~~  203 (772)
T 3zvr_A          147 PHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVT---------------------KENCLILAV-SPA-NSDLAN  203 (772)
T ss_dssp             TTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHT---------------------STTEEEEEE-EET-TSCSSS
T ss_pred             CCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHh---------------------cCCcEEEEE-EcC-CCCcch
Confidence            334589999999999843211      122122233332                     234567777 533 356777


Q ss_pred             chH-HHHHhccC-cceEEeeeecCCCCCHHH
Q psy8479         607 LDL-VCMKKLDS-KVNIIPIIAKADTISKSE  635 (650)
Q Consensus       607 ~Di-~~mk~l~~-~vnviPvIaKaD~lt~~e  635 (650)
                      .|. .+++.|.. ...+|-|+.|+|.+...+
T Consensus       204 ~d~l~ll~~L~~~g~pvIlVlNKiDlv~~~~  234 (772)
T 3zvr_A          204 SDALKIAKEVDPQGQRTIGVITKLDLMDEGT  234 (772)
T ss_dssp             CHHHHHHHHHCTTCSSEEEEEECTTSSCTTC
T ss_pred             hHHHHHHHHHHhcCCCEEEEEeCcccCCcch
Confidence            787 68888875 467899999999997654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=85.72  E-value=0.3  Score=54.62  Aligned_cols=18  Identities=33%  Similarity=0.320  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.|.
T Consensus        53 vG~NGaGKSTLlk~l~Gl   70 (538)
T 1yqt_A           53 VGPNGTGKSTAVKILAGQ   70 (538)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>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=85.71  E-value=0.25  Score=51.87  Aligned_cols=24  Identities=25%  Similarity=0.111  Sum_probs=19.4

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|--+. ||.+|+||||+++.|.+.
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~  152 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANW  152 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            343333 999999999999999985

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=85.69  E-value=0.18  Score=52.42  Aligned_cols=19  Identities=32%  Similarity=0.476  Sum_probs=17.6

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||||.|.+..
T Consensus        10 ~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A           10 TGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EESSSSSCHHHHHHHHHSC
T ss_pred             EecCCCCHHHHHHHHHhhc
Confidence            9999999999999999753

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=85.63  E-value=0.28  Score=50.78  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=18.5

Q ss_pred             CCceeecCCCCCChhhHhhhhhC
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFN  128 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~  128 (650)
                      +|++.-+|++|+|||||+.+|..
T Consensus        24 ~g~~~i~G~NGsGKS~ll~ai~~   46 (322)
T 1e69_A           24 DRVTAIVGPNGSGKSNIIDAIKW   46 (322)
T ss_dssp             SSEEEEECCTTTCSTHHHHHHHH
T ss_pred             CCcEEEECCCCCcHHHHHHHHHH
Confidence            56322299999999999999983

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=85.60  E-value=0.26  Score=54.80  Aligned_cols=18  Identities=28%  Similarity=0.379  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||.+|+|||||++.|.+.
T Consensus       299 VGpNGSGKTTLl~~LAgl  316 (503)
T 2yhs_A          299 VGVNGVGKTTTIGKLARQ  316 (503)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCcccHHHHHHHHHHH
Confidence            999999999999999975

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=85.50  E-value=0.5  Score=43.78  Aligned_cols=47  Identities=13%  Similarity=-0.013  Sum_probs=28.1

Q ss_pred             CceeeEeeecCCCcccCCcchHHHHHhcc----CcceEEeeeecCCCCCHH
Q psy8479         588 RLRCASKNSDLPLAECLKSLDLVCMKKLD----SKVNIIPIIAKADTISKS  634 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~~Di~~mk~l~----~~vnviPvIaKaD~lt~~  634 (650)
                      ..|+++|+++.-....+..+.-.+.+-+.    ..+.+|.|+.|+|.....
T Consensus        89 ~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  139 (189)
T 2x77_A           89 DTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAA  139 (189)
T ss_dssp             TCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCC
T ss_pred             cCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCC
Confidence            46889998443223334433332222222    367899999999998753

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=85.41  E-value=0.26  Score=55.39  Aligned_cols=18  Identities=28%  Similarity=0.303  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus       375 vG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          375 VGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EECTTSSHHHHHHHHTTT
T ss_pred             ECCCCCCHHHHHHHHhhc
Confidence            999999999999999985

>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=85.27  E-value=0.32  Score=46.21  Aligned_cols=47  Identities=17%  Similarity=0.126  Sum_probs=29.1

Q ss_pred             ceeeEeeecCCCcccCCcchHHH---HHhccCcceEEeeeecCCCCCHHH
Q psy8479         589 LRCASKNSDLPLAECLKSLDLVC---MKKLDSKVNIIPIIAKADTISKSE  635 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~Di~~---mk~l~~~vnviPvIaKaD~lt~~e  635 (650)
                      .++++++++.-....+..++-.+   ++.....+.+|.|+.|+|.....+
T Consensus        97 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  146 (207)
T 2fv8_A           97 TDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEH  146 (207)
T ss_dssp             CCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhcccc
Confidence            56788873433233444443333   444445788999999999976543

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=85.25  E-value=0.29  Score=55.01  Aligned_cols=18  Identities=33%  Similarity=0.300  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus       373 vG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          373 VGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             ECSTTSSHHHHHTTTTTS
T ss_pred             ECCCCChHHHHHHHHhcC
Confidence            999999999999999985

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=85.23  E-value=0.33  Score=54.42  Aligned_cols=18  Identities=28%  Similarity=0.462  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        31 iGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           31 LGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999995

>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=85.14  E-value=0.57  Score=43.20  Aligned_cols=44  Identities=16%  Similarity=-0.004  Sum_probs=25.9

Q ss_pred             ceeeEeeecCCCcccCCcchHHHHHhc----cCcceEEeeeecCCCCC
Q psy8479         589 LRCASKNSDLPLAECLKSLDLVCMKKL----DSKVNIIPIIAKADTIS  632 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~Di~~mk~l----~~~vnviPvIaKaD~lt  632 (650)
                      .|+++|+++.-....+..+.-.+..-+    .....+|-|+.|+|...
T Consensus        89 ~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  136 (181)
T 2h17_A           89 TEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  136 (181)
T ss_dssp             CCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCccc
Confidence            578888844222223433322222222    35678999999999876

>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=85.11  E-value=0.99  Score=42.28  Aligned_cols=48  Identities=17%  Similarity=0.155  Sum_probs=29.4

Q ss_pred             ceeeEeeecCCCcc---cCCcchHHHHHh---ccCcceEEeeeecCCCCCHHHHHH
Q psy8479         589 LRCASKNSDLPLAE---CLKSLDLVCMKK---LDSKVNIIPIIAKADTISKSELQK  638 (650)
Q Consensus       589 vh~~lyf~i~ptgh---~l~~~Di~~mk~---l~~~vnviPvIaKaD~lt~~e~~~  638 (650)
                      .|+++|+ +..+..   .+..+. .+++.   ....+-+|-|..|+|.+..++...
T Consensus        96 ~~~~i~v-~d~~~~~~~~~~~~~-~~l~~~~~~~~~~piilv~nK~Dl~~~~~~~~  149 (196)
T 3llu_A           96 TGALIYV-IDAQDDYMEALTRLH-ITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIE  149 (196)
T ss_dssp             CSEEEEE-EETTSCCHHHHHHHH-HHHHHHHHHCTTCEEEEEEECGGGSCHHHHHH
T ss_pred             CCEEEEE-EECCCchHHHHHHHH-HHHHHHHhcCCCCcEEEEEeccccCchhhhhH
Confidence            5788888 434432   112221 23333   356788999999999998765433

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=85.06  E-value=0.25  Score=54.30  Aligned_cols=24  Identities=21%  Similarity=0.217  Sum_probs=19.6

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|--+. +|++|+|||||++.|++.
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCc
Confidence            443333 999999999999999985

>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=85.02  E-value=0.29  Score=46.63  Aligned_cols=24  Identities=33%  Similarity=0.239  Sum_probs=19.6

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+- +|.||+||||+.+.|.+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            454444 999999999999999875

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=84.95  E-value=0.3  Score=46.61  Aligned_cols=22  Identities=23%  Similarity=0.102  Sum_probs=18.9

Q ss_pred             CceeecCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      -+.| +|.||+|||||++.|...
T Consensus         6 ~i~i-~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            6 VWQV-VGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             EEEE-ECCTTSSHHHHHHHHHHH
T ss_pred             EEEE-ECCCCCCHHHHHHHHHHh
Confidence            3456 999999999999999874

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=84.92  E-value=0.29  Score=54.87  Aligned_cols=18  Identities=28%  Similarity=0.418  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|++.
T Consensus       300 ~G~nGsGKSTLl~~l~Gl  317 (538)
T 3ozx_A          300 LGPNGIGKTTFARILVGE  317 (538)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=84.92  E-value=0.27  Score=50.71  Aligned_cols=24  Identities=21%  Similarity=0.059  Sum_probs=19.5

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      +|.-+- +|.+|+|||||++.|.+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            454333 999999999999999884

>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=84.90  E-value=1.3  Score=40.19  Aligned_cols=43  Identities=9%  Similarity=0.051  Sum_probs=25.1

Q ss_pred             ceeeEeeecCCC-cccCCcch--HHHHHhcc-CcceEEeeeecCCCCC
Q psy8479         589 LRCASKNSDLPL-AECLKSLD--LVCMKKLD-SKVNIIPIIAKADTIS  632 (650)
Q Consensus       589 vh~~lyf~i~pt-gh~l~~~D--i~~mk~l~-~~vnviPvIaKaD~lt  632 (650)
                      .|+++|+ +..+ ...+..+.  +..++.+. ..+.+|-|+.|+|...
T Consensus        84 ~d~ii~v-~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~  130 (180)
T 2g6b_A           84 AHALLLL-YDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAH  130 (180)
T ss_dssp             CSEEEEE-EETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTS
T ss_pred             CCEEEEE-EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCc
Confidence            5778888 4333 22222221  22333333 5778999999999874

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=84.80  E-value=0.25  Score=54.75  Aligned_cols=18  Identities=33%  Similarity=0.451  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        35 iG~nGsGKSTLl~~l~Gl   52 (483)
T 3euj_A           35 SGGNGAGKSTTMAGFVTA   52 (483)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999984

>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=84.68  E-value=0.37  Score=52.90  Aligned_cols=18  Identities=33%  Similarity=0.302  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+.++|||||+|.||+.
T Consensus        73 ~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           73 AGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             EESTTSSHHHHHHHHHHH
T ss_pred             ECCCCCcHHHHHHHHhhh
Confidence            999999999999999974

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=84.68  E-value=0.25  Score=53.60  Aligned_cols=18  Identities=33%  Similarity=0.318  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+++|.+.
T Consensus       173 ~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          173 TGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             ECSTTSCHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999985

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=84.56  E-value=0.34  Score=55.42  Aligned_cols=16  Identities=38%  Similarity=0.594  Sum_probs=15.0

Q ss_pred             cCCCCCChhhHhhhhh
Q psy8479         112 PCETGLGKSTLMDSLF  127 (650)
Q Consensus       112 VG~SGvGKSTlINtLf  127 (650)
                      +|.||+|||||+|.|+
T Consensus       354 iGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          354 TGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             ECSTTSSHHHHHTTTH
T ss_pred             EeeCCCCHHHHHHHHH
Confidence            9999999999999875

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=84.41  E-value=0.37  Score=54.79  Aligned_cols=18  Identities=33%  Similarity=0.427  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||+|.|.+.
T Consensus       109 vGpNGaGKSTLLkiL~Gl  126 (608)
T 3j16_B          109 VGTNGIGKSTALKILAGK  126 (608)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCChHHHHHHHHhcC
Confidence            999999999999999995

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=84.21  E-value=0.16  Score=54.08  Aligned_cols=23  Identities=39%  Similarity=0.345  Sum_probs=18.1

Q ss_pred             CCceeecCCCCCChhhHhhhhhC
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFN  128 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~  128 (650)
                      +|+..-+|++|+|||||+++|..
T Consensus        60 ~G~~~lvG~NGaGKStLl~aI~~   82 (415)
T 4aby_A           60 GGFCAFTGETGAGKSIIVDALGL   82 (415)
T ss_dssp             SSEEEEEESHHHHHHHHTHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHH
Confidence            56322299999999999998855

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=84.20  E-value=0.36  Score=44.43  Aligned_cols=22  Identities=32%  Similarity=0.525  Sum_probs=17.3

Q ss_pred             CCceeecCCCCCChhhHhhhhh
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLF  127 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf  127 (650)
                      +|+..-+|.+|+||||++.+|+
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3433229999999999999975

>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=84.19  E-value=0.3  Score=51.18  Aligned_cols=56  Identities=13%  Similarity=0.123  Sum_probs=30.8

Q ss_pred             eeeEEEEEEcCCC-CCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPTG-HGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       196 RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                      ..+++++++.++. ..++.+-...     ...+++.|++|+|.............+++.+..
T Consensus       169 ~aD~vl~Vvd~~~~~~~~~l~~~~-----~~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l~~  225 (341)
T 2p67_A          169 MVDCFISLQIAGGGDDLQGIKKGL-----MEVADLIVINKDDGDNHTNVAIARHMYESALHI  225 (341)
T ss_dssp             TCSEEEEEECC------CCCCHHH-----HHHCSEEEECCCCTTCHHHHHHHHHHHHHHHHH
T ss_pred             hCCEEEEEEeCCccHHHHHHHHhh-----hcccCEEEEECCCCCChHHHHHHHHHHHHHHHh
Confidence            3567888888752 1111111100     134789999999998765554444455544433

>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=84.11  E-value=0.35  Score=44.71  Aligned_cols=18  Identities=22%  Similarity=0.276  Sum_probs=16.7

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+||||+.+.|.+.
T Consensus        14 ~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A           14 MGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             ECSTTSCHHHHHHHHHHH
T ss_pred             EcCCCCCHHHHHHHHHHh
Confidence            999999999999999764

>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=84.09  E-value=0.39  Score=45.57  Aligned_cols=31  Identities=6%  Similarity=0.048  Sum_probs=22.4

Q ss_pred             cCcceEEeeeecCCCCCHHHHHHHHHHHHhh
Q psy8479         616 DSKVNIIPIIAKADTISKSELQKFKVSKTRV  646 (650)
Q Consensus       616 ~~~vnviPvIaKaD~lt~~e~~~~K~~i~~~  646 (650)
                      ...+.+|-|+.|+|..........++.+.+.
T Consensus       113 ~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~  143 (214)
T 2fh5_B          113 KNSPSLLIACNKQDIAMAKSAKLIQQQLEKE  143 (214)
T ss_dssp             TTCCEEEEEEECTTSTTCCCHHHHHHHHHHH
T ss_pred             ccCCCEEEEEECCCCCCcccHHHHHHHHHHH
Confidence            3467899999999998776666666555543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=84.01  E-value=0.34  Score=51.61  Aligned_cols=18  Identities=28%  Similarity=0.268  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||.+|+|||||++.|.+.
T Consensus       163 vG~nGsGKTTll~~Lag~  180 (359)
T 2og2_A          163 VGVNGGGKTTSLGKLAHR  180 (359)
T ss_dssp             ECCTTSCHHHHHHHHHHH
T ss_pred             EcCCCChHHHHHHHHHhh
Confidence            999999999999999985

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=83.85  E-value=0.27  Score=47.07  Aligned_cols=18  Identities=33%  Similarity=0.313  Sum_probs=16.7

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|.+.
T Consensus        28 ~G~~GsGKstl~~~l~~~   45 (201)
T 1rz3_A           28 DGLSRSGKTTLANQLSQT   45 (201)
T ss_dssp             EECTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999999863

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=83.77  E-value=0.33  Score=55.22  Aligned_cols=21  Identities=33%  Similarity=0.385  Sum_probs=18.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.+|+|||||++.|++.
T Consensus       381 v~i-iG~NGsGKSTLlk~l~Gl  401 (608)
T 3j16_B          381 LVM-MGENGTGKTTLIKLLAGA  401 (608)
T ss_dssp             EEE-ESCTTSSHHHHHHHHHTS
T ss_pred             EEE-ECCCCCcHHHHHHHHhcC
Confidence            344 999999999999999995

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=83.60  E-value=0.84  Score=50.96  Aligned_cols=69  Identities=14%  Similarity=0.183  Sum_probs=46.8

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ...++||||||+.+      +. .....|+..                      ++++++. +.++ ++....++.+++.
T Consensus        81 ~~~i~liDTPG~~d------f~-~~~~~~l~~----------------------aD~allV-vDa~-~g~~~~t~~~~~~  129 (528)
T 3tr5_A           81 DYLINLLDTPGHAD------FT-EDTYRTLTA----------------------VDSALMV-IDAA-KGVEPRTIKLMEV  129 (528)
T ss_dssp             TEEEEEECCCCSTT------CC-HHHHHGGGG----------------------CSEEEEE-EETT-TCSCHHHHHHHHH
T ss_pred             CEEEEEEECCCchh------HH-HHHHHHHHh----------------------CCEEEEE-EeCC-CCCCHHHHHHHHH
Confidence            46799999999866      22 222333332                      5778888 5443 3577777777766


Q ss_pred             cc-CcceEEeeeecCCCCCHH
Q psy8479         615 LD-SKVNIIPIIAKADTISKS  634 (650)
Q Consensus       615 l~-~~vnviPvIaKaD~lt~~  634 (650)
                      +. ..+.+|.|+.|.|.....
T Consensus       130 ~~~~~iPiivviNK~Dl~~~~  150 (528)
T 3tr5_A          130 CRLRHTPIMTFINKMDRDTRP  150 (528)
T ss_dssp             HHTTTCCEEEEEECTTSCCSC
T ss_pred             HHHcCCCEEEEEeCCCCcccc
Confidence            54 357889999999997543

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=83.42  E-value=0.58  Score=53.98  Aligned_cols=68  Identities=16%  Similarity=0.168  Sum_probs=46.6

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ...++||||||+.+      +. ..+..++..                      ++++|++ +.++ ++....+..+++.
T Consensus        74 ~~~i~liDTPG~~d------f~-~~~~~~l~~----------------------aD~~llV-vDa~-~g~~~~~~~~~~~  122 (693)
T 2xex_A           74 GHRVNIIDTPGHVD------FT-VEVERSLRV----------------------LDGAVTV-LDAQ-SGVEPQTETVWRQ  122 (693)
T ss_dssp             TEEEEEECCCCCSS------CC-HHHHHHHHH----------------------CSEEEEE-EETT-TBSCHHHHHHHHH
T ss_pred             CeeEEEEECcCCcc------hH-HHHHHHHHH----------------------CCEEEEE-ECCC-CCCcHHHHHHHHH
Confidence            36899999999976      22 233344433                      5678988 5454 3566666666665


Q ss_pred             cc-CcceEEeeeecCCCCCH
Q psy8479         615 LD-SKVNIIPIIAKADTISK  633 (650)
Q Consensus       615 l~-~~vnviPvIaKaD~lt~  633 (650)
                      +. ..+.+|.||.|.|....
T Consensus       123 ~~~~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A          123 ATTYGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             HHHTTCCEEEEEECTTSTTC
T ss_pred             HHHcCCCEEEEEECCCcccc
Confidence            54 36788999999999864

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=83.25  E-value=0.45  Score=54.10  Aligned_cols=18  Identities=28%  Similarity=0.307  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.|.
T Consensus       123 iG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          123 VGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCChHHHHHHHHhCC
Confidence            999999999999999985

>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=83.18  E-value=0.66  Score=42.28  Aligned_cols=45  Identities=13%  Similarity=0.056  Sum_probs=26.4

Q ss_pred             ceeeEeeecCCCcccCCcch---HHHHHhccCcceEEeeeecCCCCCH
Q psy8479         589 LRCASKNSDLPLAECLKSLD---LVCMKKLDSKVNIIPIIAKADTISK  633 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~D---i~~mk~l~~~vnviPvIaKaD~lt~  633 (650)
                      .|+++++++.-....+..+.   +..+++....+.+|.|+.|+|....
T Consensus        80 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  127 (182)
T 3bwd_D           80 ADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDD  127 (182)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTC
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcC
Confidence            57788884422222333332   2334444457889999999997543

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=83.04  E-value=0.37  Score=45.99  Aligned_cols=18  Identities=22%  Similarity=0.316  Sum_probs=16.8

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        29 ~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           29 TGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             ECSTTSSHHHHHHHHHHH
T ss_pred             EcCCCCCHHHHHHHHHHH
Confidence            999999999999999964

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=82.88  E-value=0.47  Score=45.25  Aligned_cols=18  Identities=33%  Similarity=0.329  Sum_probs=17.0

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||.+.|.+.
T Consensus        27 ~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           27 SGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             EESTTSSHHHHHHHHHTT
T ss_pred             ECCCCCCHHHHHHHHHHh
Confidence            999999999999999875

>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=82.82  E-value=0.65  Score=41.55  Aligned_cols=44  Identities=9%  Similarity=-0.059  Sum_probs=26.5

Q ss_pred             ceeeEeeecCCCcccCCcchHHHHHhcc-----CcceEEeeeecCCCCCH
Q psy8479         589 LRCASKNSDLPLAECLKSLDLVCMKKLD-----SKVNIIPIIAKADTISK  633 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~Di~~mk~l~-----~~vnviPvIaKaD~lt~  633 (650)
                      .|+++|+++.-....+..+.- .+..+.     ..+.+|-|..|+|....
T Consensus        68 ~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~  116 (164)
T 1r8s_A           68 TQGLIFVVDSNDRERVNEARE-ELMRMLAEDELRDAVLLVFANKQDLPNA  116 (164)
T ss_dssp             CSEEEEEEETTCGGGHHHHHH-HHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             CCEEEEEEECCCHHHHHHHHH-HHHHHHhchhhcCCeEEEEEECcCCcCC
Confidence            577888844333333443332 333332     36788999999998764

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=82.75  E-value=0.4  Score=46.06  Aligned_cols=21  Identities=24%  Similarity=0.333  Sum_probs=18.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.+|+||||+.+.|.+.
T Consensus         8 i~i-~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            8 ITI-DGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHH
Confidence            345 999999999999999764

>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=82.70  E-value=0.6  Score=43.99  Aligned_cols=47  Identities=15%  Similarity=0.093  Sum_probs=28.5

Q ss_pred             ceeeEeeecCCCcccCCcchHHH---HHhccCcceEEeeeecCCCCCHHH
Q psy8479         589 LRCASKNSDLPLAECLKSLDLVC---MKKLDSKVNIIPIIAKADTISKSE  635 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~Di~~---mk~l~~~vnviPvIaKaD~lt~~e  635 (650)
                      .++++++++.-....+..++-.+   ++.....+.+|.|+.|+|.+...+
T Consensus        97 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~  146 (201)
T 2gco_A           97 TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEH  146 (201)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCcc
Confidence            46788773333233444443233   444445788999999999987543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=82.62  E-value=0.38  Score=47.53  Aligned_cols=23  Identities=22%  Similarity=0.287  Sum_probs=20.3

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +|+-| +|.+|+|||||+++|.+.
T Consensus        46 ~~vll-~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLM-VGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEE-ECCTTSCHHHHHHHHHHH
T ss_pred             CeEEE-ECcCCCCHHHHHHHHHHH
Confidence            56667 999999999999999875

>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=82.47  E-value=1.4  Score=48.62  Aligned_cols=46  Identities=4%  Similarity=-0.228  Sum_probs=32.9

Q ss_pred             CceeeEeeecCCCcccCCc----chHHHHHhccCcceEEeeeecCCCCCHHHH
Q psy8479         588 RLRCASKNSDLPLAECLKS----LDLVCMKKLDSKVNIIPIIAKADTISKSEL  636 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~----~Di~~mk~l~~~vnviPvIaKaD~lt~~e~  636 (650)
                      ..|++||+ +.++. ....    .+..+++.+. ...+|.|+.|+|.....+.
T Consensus       312 ~aD~vl~V-vD~s~-~~s~~~~~~~~~~l~~l~-~~piIvV~NK~Dl~~~~~~  361 (476)
T 3gee_A          312 EADLILYL-LDLGT-ERLDDELTEIRELKAAHP-AAKFLTVANKLDRAANADA  361 (476)
T ss_dssp             SCSEEEEE-EETTT-CSSGGGHHHHHHHHHHCT-TSEEEEEEECTTSCTTTHH
T ss_pred             cCCEEEEE-EECCC-CcchhhhHHHHHHHHhcC-CCCEEEEEECcCCCCccch
Confidence            35788888 43432 3333    5667788777 6889999999999876654

>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=82.38  E-value=0.73  Score=42.74  Aligned_cols=53  Identities=11%  Similarity=-0.101  Sum_probs=28.6

Q ss_pred             ceeeEeeecCCCcccCCcchHHHH---Hhcc---CcceEEeeeecCCCCCHHHHHHHHH
Q psy8479         589 LRCASKNSDLPLAECLKSLDLVCM---KKLD---SKVNIIPIIAKADTISKSELQKFKV  641 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~Di~~m---k~l~---~~vnviPvIaKaD~lt~~e~~~~K~  641 (650)
                      .|+++|+++.-....+..+.-.+.   +...   ..+.+|.|+.|+|.........+++
T Consensus        91 ~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~  149 (190)
T 2h57_A           91 GQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQ  149 (190)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCHHHHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCHHHHHH
Confidence            478888843222222333322221   2111   4678999999999976433333333

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=82.21  E-value=0.54  Score=46.86  Aligned_cols=22  Identities=27%  Similarity=0.298  Sum_probs=18.1

Q ss_pred             CCceee-cCCCCCChhhHhhhhh
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLF  127 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf  127 (650)
                      +|.... +|.+|+||||+.+.|.
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHH
Confidence            343333 9999999999999999

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=82.15  E-value=1.1  Score=50.91  Aligned_cols=70  Identities=17%  Similarity=0.261  Sum_probs=44.8

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      ++....+++|||||+.+      +. ..+..++..                      ++++++.++.-.  +.....+..
T Consensus        67 ~g~~~~l~liDTPGh~d------F~-~ev~~~l~~----------------------aD~aILVVDa~~--gv~~qt~~~  115 (599)
T 3cb4_D           67 DGETYQLNFIDTPGHVD------FS-YEVSRSLAA----------------------CEGALLVVDAGQ--GVEAQTLAN  115 (599)
T ss_dssp             TSCEEEEEEEECCCCGG------GH-HHHHHHHHH----------------------CSEEEEEEETTT--CCCTHHHHH
T ss_pred             CCCeEEEEEEECCCchH------HH-HHHHHHHHH----------------------CCEEEEEEECCC--CCCHHHHHH
Confidence            35568999999999965      33 344445444                      356788744333  344444444


Q ss_pred             HH-hccCcceEEeeeecCCCCC
Q psy8479         612 MK-KLDSKVNIIPIIAKADTIS  632 (650)
Q Consensus       612 mk-~l~~~vnviPvIaKaD~lt  632 (650)
                      +. .+...+.+|+|+.|.|...
T Consensus       116 ~~~~~~~~ipiIvViNKiDl~~  137 (599)
T 3cb4_D          116 CYTAMEMDLEVVPVLNKIDLPA  137 (599)
T ss_dssp             HHHHHHTTCEEEEEEECTTSTT
T ss_pred             HHHHHHCCCCEEEeeeccCccc
Confidence            33 2345678999999999876

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=82.12  E-value=0.21  Score=47.62  Aligned_cols=21  Identities=33%  Similarity=0.371  Sum_probs=17.8

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.| +|.+|+||||+++.|...
T Consensus         3 I~i-~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            3 IAI-EGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEE-EEEEEEEHHHHHHHHHHH
T ss_pred             EEE-EcCCCCCHHHHHHHHHHH
Confidence            345 899999999999999753

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=82.07  E-value=0.42  Score=48.41  Aligned_cols=18  Identities=28%  Similarity=0.397  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus        41 ~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           41 TSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EESTTSSHHHHHHHHHHH
T ss_pred             EeCCCCCHHHHHHHHHHH
Confidence            999999999999999875

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=81.80  E-value=0.24  Score=49.31  Aligned_cols=18  Identities=33%  Similarity=0.464  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||+++|.+.
T Consensus        33 ~GpnGsGKSTll~~i~g~   50 (227)
T 1qhl_A           33 SGGNGAGKSTTMAAFVTA   50 (227)
T ss_dssp             HSCCSHHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHhcc
Confidence            999999999999999985

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=81.79  E-value=0.47  Score=45.07  Aligned_cols=21  Identities=19%  Similarity=0.227  Sum_probs=18.2

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.+|+||||+.+.|.+.
T Consensus        21 I~l-~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           21 IVV-MGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             EEE-ECSTTSCHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHH
Confidence            455 999999999999999764

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=81.73  E-value=0.48  Score=43.12  Aligned_cols=18  Identities=22%  Similarity=-0.016  Sum_probs=16.5

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+||||+.+.|...
T Consensus         7 ~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            7 EGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             ECSSSSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            899999999999999754

>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=81.56  E-value=0.49  Score=42.75  Aligned_cols=17  Identities=29%  Similarity=0.284  Sum_probs=15.7

Q ss_pred             eeecCCCCCChhhHhhhh
Q psy8479         109 AYKPCETGLGKSTLMDSL  126 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtL  126 (650)
                      -+ +|.+|+||||+.+.|
T Consensus         5 ~l-~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            5 LI-TGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EE-ECCTTSCHHHHHHHH
T ss_pred             EE-ECCCCCCHHHHHHHH
Confidence            45 999999999999999

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=81.52  E-value=0.46  Score=49.77  Aligned_cols=18  Identities=28%  Similarity=0.195  Sum_probs=16.5

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+.
T Consensus        98 ~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           98 AGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999998764

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=81.39  E-value=0.48  Score=53.88  Aligned_cols=18  Identities=28%  Similarity=0.449  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus       388 ~G~NGsGKSTLlk~l~Gl  405 (607)
T 3bk7_A          388 VGPNGIGKTTFVKMLAGV  405 (607)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999995

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=81.34  E-value=0.48  Score=52.97  Aligned_cols=18  Identities=28%  Similarity=0.449  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus       318 ~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          318 VGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=81.27  E-value=0.41  Score=59.01  Aligned_cols=18  Identities=28%  Similarity=0.307  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|++-
T Consensus       422 vG~sGsGKSTl~~ll~g~  439 (1284)
T 3g5u_A          422 VGNSGCGKSTTVQLMQRL  439 (1284)
T ss_dssp             ECCSSSSHHHHHHHTTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999984

>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=81.12  E-value=0.96  Score=41.28  Aligned_cols=45  Identities=7%  Similarity=-0.020  Sum_probs=26.5

Q ss_pred             CceeeEeeecCCCcccCCcchHHHHHhc-----cCcceEEeeeecCCCCCH
Q psy8479         588 RLRCASKNSDLPLAECLKSLDLVCMKKL-----DSKVNIIPIIAKADTISK  633 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~~Di~~mk~l-----~~~vnviPvIaKaD~lt~  633 (650)
                      ..|+++|+++.-....+..+.- .+..+     ...+.+|-|+.|+|....
T Consensus        85 ~~d~ii~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (183)
T 1moz_A           85 DTAAVIFVVDSTDKDRMSTASK-ELHLMLQEEELQDAALLVFANKQDQPGA  134 (183)
T ss_dssp             TEEEEEEEEETTCTTTHHHHHH-HHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             cCCEEEEEEECCCHHHHHHHHH-HHHHHHcChhhCCCeEEEEEECCCCCCC
Confidence            3688998844222323333322 22222     356789999999998653

>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=81.01  E-value=1.1  Score=41.44  Aligned_cols=44  Identities=16%  Similarity=-0.004  Sum_probs=26.1

Q ss_pred             ceeeEeeecCCCcccCCcchHHHHHhc----cCcceEEeeeecCCCCC
Q psy8479         589 LRCASKNSDLPLAECLKSLDLVCMKKL----DSKVNIIPIIAKADTIS  632 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~Di~~mk~l----~~~vnviPvIaKaD~lt  632 (650)
                      .|+++|+++.-....+..+.-.+..-+    ...+.+|-|+.|+|...
T Consensus        84 ~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  131 (187)
T 1zj6_A           84 TEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE  131 (187)
T ss_dssp             CCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             CCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcC
Confidence            678888844322333444433222222    25678999999999876

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=80.98  E-value=0.45  Score=46.00  Aligned_cols=19  Identities=26%  Similarity=0.186  Sum_probs=17.5

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|++|+|||||+..|.+.-
T Consensus        30 ~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           30 FGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             ECCTTSSHHHHHHHHHHHT
T ss_pred             ECCCCCcHHHHHHHHHHHH
Confidence            9999999999999999853

>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=80.96  E-value=0.55  Score=42.88  Aligned_cols=73  Identities=10%  Similarity=0.032  Sum_probs=42.5

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcch---
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLD---  608 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~D---  608 (650)
                      .+..+.|++|||||...       ++.-...|                    +  ...|+++++++.-....+..+.   
T Consensus        49 ~~~~~~~~i~Dt~G~~~-------~~~~~~~~--------------------~--~~~d~~i~v~d~~~~~s~~~~~~~~   99 (186)
T 1mh1_A           49 DGKPVNLGLWDTAGQED-------YDRLRPLS--------------------Y--PQTDVSLICFSLVSPASFENVRAKW   99 (186)
T ss_dssp             TTEEEEEEEECCCCSGG-------GTTTGGGG--------------------C--TTCSEEEEEEETTCHHHHHHHHHTH
T ss_pred             CCEEEEEEEEECCCCHh-------HHHHHHHh--------------------c--cCCcEEEEEEECCChhhHHHHHHHH
Confidence            35668899999999843       10010111                    1  1357788884433333344443   


Q ss_pred             HHHHHhccCcceEEeeeecCCCCCH
Q psy8479         609 LVCMKKLDSKVNIIPIIAKADTISK  633 (650)
Q Consensus       609 i~~mk~l~~~vnviPvIaKaD~lt~  633 (650)
                      +..++.....+.+|.|+.|+|....
T Consensus       100 ~~~~~~~~~~~piilv~nK~Dl~~~  124 (186)
T 1mh1_A          100 YPEVRHHCPNTPIILVGTKLDLRDD  124 (186)
T ss_dssp             HHHHHHHSTTSCEEEEEECHHHHTC
T ss_pred             HHHHHHhCCCCCEEEEeEccccccc
Confidence            2334444447889999999998654

>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=80.92  E-value=0.99  Score=51.28  Aligned_cols=70  Identities=21%  Similarity=0.266  Sum_probs=44.4

Q ss_pred             CccccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHH
Q psy8479         532 ATTTLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVC  611 (650)
Q Consensus       532 ~~~~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~  611 (650)
                      ++....+++|||||+.+      +. ..+..++..                      .+++++.++.-.  +..+..+..
T Consensus        69 dg~~~~inliDTPGh~d------F~-~ev~r~l~~----------------------aD~aILVVDa~~--gv~~qt~~~  117 (600)
T 2ywe_A           69 DGNTYKLHLIDTPGHVD------FS-YEVSRALAA----------------------CEGALLLIDASQ--GIEAQTVAN  117 (600)
T ss_dssp             TSCEEEEEEECCCCSGG------GH-HHHHHHHHT----------------------CSEEEEEEETTT--BCCHHHHHH
T ss_pred             CCCeEEEEEEECCCcHh------HH-HHHHHHHHh----------------------CCEEEEEEECCC--CccHHHHHH
Confidence            35568999999999976      22 343444433                      466888844333  344444444


Q ss_pred             HH-hccCcceEEeeeecCCCCC
Q psy8479         612 MK-KLDSKVNIIPIIAKADTIS  632 (650)
Q Consensus       612 mk-~l~~~vnviPvIaKaD~lt  632 (650)
                      ++ .+...+.+|+|+.|.|...
T Consensus       118 ~~~a~~~~ipiIvviNKiDl~~  139 (600)
T 2ywe_A          118 FWKAVEQDLVIIPVINKIDLPS  139 (600)
T ss_dssp             HHHHHHTTCEEEEEEECTTSTT
T ss_pred             HHHHHHCCCCEEEEEeccCccc
Confidence            32 2345677999999999875

>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=80.54  E-value=1.5  Score=41.14  Aligned_cols=42  Identities=5%  Similarity=-0.013  Sum_probs=23.5

Q ss_pred             ceeeEeeecCCC-cccCCcch--HHHHHhc-cCcceEEeeeecCCCC
Q psy8479         589 LRCASKNSDLPL-AECLKSLD--LVCMKKL-DSKVNIIPIIAKADTI  631 (650)
Q Consensus       589 vh~~lyf~i~pt-gh~l~~~D--i~~mk~l-~~~vnviPvIaKaD~l  631 (650)
                      .|+++|+ +..+ ...+..+.  +..++.. ...+.+|.|+.|+|..
T Consensus        93 ~d~ii~v-~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~  138 (213)
T 3cph_A           93 AMGIILV-YDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME  138 (213)
T ss_dssp             CSEEEEE-EETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCS
T ss_pred             CCEEEEE-EECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc
Confidence            5678887 4333 22232222  1222222 2367899999999973

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=80.47  E-value=0.69  Score=43.91  Aligned_cols=17  Identities=24%  Similarity=-0.101  Sum_probs=16.6

Q ss_pred             cCCCCCChhhHhhhhhC
Q psy8479         112 PCETGLGKSTLMDSLFN  128 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~  128 (650)
                      +|++|+|||||++.|.+
T Consensus        26 ~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           26 YGPYASGKTTLALQTGL   42 (220)
T ss_dssp             ECSTTSSHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            99999999999999998

>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=80.46  E-value=0.77  Score=42.24  Aligned_cols=48  Identities=8%  Similarity=-0.056  Sum_probs=27.2

Q ss_pred             CceeeEeeecCCCcccCCcchHHHHHhc-----cCcceEEeeeecCCCCCHHHH
Q psy8479         588 RLRCASKNSDLPLAECLKSLDLVCMKKL-----DSKVNIIPIIAKADTISKSEL  636 (650)
Q Consensus       588 rvh~~lyf~i~ptgh~l~~~Di~~mk~l-----~~~vnviPvIaKaD~lt~~e~  636 (650)
                      ..|+++|+++.-....+..+.- .+..+     ...+.+|-|+.|+|.......
T Consensus        85 ~~d~ii~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~  137 (186)
T 1ksh_A           85 STDGLIWVVDSADRQRMQDCQR-ELQSLLVEERLAGATLLIFANKQDLPGALSC  137 (186)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHH-HHHHHHTCGGGTTCEEEEEEECTTSTTCCCH
T ss_pred             CCCEEEEEEECcCHHHHHHHHH-HHHHHHhChhcCCCcEEEEEeCccCCCCCCH
Confidence            3578888844222323333322 22222     245788999999998765333

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=80.36  E-value=0.7  Score=45.73  Aligned_cols=23  Identities=22%  Similarity=0.276  Sum_probs=20.1

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +|+-| .|.+|+|||+|+++|.+.
T Consensus        45 ~~vll-~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           45 KGVLL-VGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             SCCCC-BCSSCSSHHHHHHHHHHH
T ss_pred             ceEEE-ECCCCCcHHHHHHHHHHH
Confidence            56666 999999999999999875

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=80.34  E-value=0.48  Score=50.07  Aligned_cols=19  Identities=37%  Similarity=0.555  Sum_probs=17.9

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+|||||++.|.+..
T Consensus        77 iG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           77 FAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EECTTSSHHHHHHHHHHHS
T ss_pred             ECCCCCCHHHHHHHHhcCC
Confidence            9999999999999999973

>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=80.32  E-value=1.1  Score=47.81  Aligned_cols=78  Identities=12%  Similarity=0.071  Sum_probs=45.3

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      ...+++|||||+.+      +. .....|+.                      ..++++++ +.++ ++..+...+.+..
T Consensus        74 ~~~~~iiDtpG~~~------f~-~~~~~~~~----------------------~aD~~ilV-vda~-~g~~~qt~~~l~~  122 (405)
T 2c78_A           74 KRHYSHVDCPGHAD------YI-KNMITGAA----------------------QMDGAILV-VSAA-DGPMPQTREHILL  122 (405)
T ss_dssp             SCEEEEEECCCSGG------GH-HHHHHHHT----------------------TCSSEEEE-EETT-TCCCHHHHHHHHH
T ss_pred             CeEEEEEECCChHH------HH-HHHHHHHH----------------------HCCEEEEE-EECC-CCCcHHHHHHHHH
Confidence            46789999999875      22 22222222                      24668888 5443 3455555555544


Q ss_pred             ccC-cce-EEeeeecCCCCC-HHHHHHHHHHH
Q psy8479         615 LDS-KVN-IIPIIAKADTIS-KSELQKFKVSK  643 (650)
Q Consensus       615 l~~-~vn-viPvIaKaD~lt-~~e~~~~K~~i  643 (650)
                      +.. .+. +|.|+.|.|... .+.+...+..+
T Consensus       123 ~~~~~ip~iivviNK~Dl~~~~~~~~~~~~~~  154 (405)
T 2c78_A          123 ARQVGVPYIVVFMNKVDMVDDPELLDLVEMEV  154 (405)
T ss_dssp             HHHTTCCCEEEEEECGGGCCCHHHHHHHHHHH
T ss_pred             HHHcCCCEEEEEEECccccCcHHHHHHHHHHH
Confidence            431 234 889999999985 33333333333

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=80.27  E-value=0.58  Score=57.67  Aligned_cols=18  Identities=33%  Similarity=0.333  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|++-
T Consensus      1065 vG~sGsGKSTl~~~l~g~ 1082 (1284)
T 3g5u_A         1065 VGSSGCGKSTVVQLLERF 1082 (1284)
T ss_dssp             ECSSSTTHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999984

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=80.26  E-value=0.37  Score=57.74  Aligned_cols=18  Identities=39%  Similarity=0.466  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|+|.
T Consensus       705 iGpNGSGKSTLLklLaGl  722 (986)
T 2iw3_A          705 IGPNGAGKSTLINVLTGE  722 (986)
T ss_dssp             CSCCCHHHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhCC
Confidence            999999999999999995

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=80.07  E-value=0.57  Score=48.17  Aligned_cols=18  Identities=28%  Similarity=0.322  Sum_probs=16.5

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||.+.|.+.
T Consensus        37 ~G~sGsGKSTla~~L~~~   54 (290)
T 1odf_A           37 SGPQGSGKSFTSIQIYNH   54 (290)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999998764

---

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	650
d2es4d1	280	a.137.15.1 (D:53-332) Lipase chaperone LifO (LipB)	1e-08
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	4e-08
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	4e-08
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	5e-08
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	2e-07
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	2e-06
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	3e-06
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	3e-06
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	1e-04
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	1e-04
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	6e-07
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	6e-07
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	9e-07
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	9e-07
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	9e-07
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	1e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	2e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	2e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	2e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	3e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	3e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	3e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	3e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	4e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	6e-06
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	9e-05
d1sa0e_	138	a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus	6e-04
d1siga_	334	a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 5	7e-05
d1siga_	334	a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 5	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	1e-04
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	3e-04
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	4e-04
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.001
d2ayua1	301	d.305.1.1 (A:70-370) Nucleosome assembly protein,	0.003
d1ofcx3	102	a.187.1.1 (X:697-798) HAND domain of the nucleosom	2e-04
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.001
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.002
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.004
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.004
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.004
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.004
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.004
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.004
d1qkla_	127	a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId:	0.004

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 53.2 bits (127), Expect = 4e-08
 Identities = 13/60 (21%), Positives = 33/60 (55%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             E++E   +E  ++  E+ E +  +  +E+E     + +E+E+  +E  ++E + ++NE
Sbjct: 233 MMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNE 292

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.8 bits (126), Expect = 4e-08
 Identities = 11/60 (18%), Positives = 31/60 (51%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             +E  ++  E+ E +  +  +E+E     + +E+E+  +E  ++E    + E ++L+ +
Sbjct: 240 SYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEIQDLQTK 299

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.8 bits (126), Expect = 5e-08
 Identities = 12/61 (19%), Positives = 32/61 (52%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +E++E   +E  ++  E+ E +  +  +E+E     + +E+E+  +E  ++E    + E 
Sbjct: 234 MEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKEGFQKESRIMKNEI 293

Query: 404 E 404
           +
Sbjct: 294 Q 294

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 50.5 bits (120), Expect = 2e-07
 Identities = 15/83 (18%), Positives = 42/83 (50%), Gaps = 4/83 (4%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           +   E + + E+  E++E   +E  ++  E+ E +  +  +E+E     + +E+++L  E
Sbjct: 221 KMLHEMQRKNEQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE 280

Query: 405 GHCDFVKLREMLIRTNMEDMREK 427
           G     +    +++  ++D++ K
Sbjct: 281 GF----QKESRIMKNEIQDLQTK 299

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.4 bits (112), Expect = 2e-06
 Identities = 12/60 (20%), Positives = 27/60 (45%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
            +   +   E + + E+  E++E   +E  ++  E+ E +  +  +E+E     K  E E
Sbjct: 216 AQASAKMLHEMQRKNEQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQE 275

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.4 bits (112), Expect = 3e-06
 Identities = 15/89 (16%), Positives = 36/89 (40%)

Query: 339 KYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 398
           +     E+E E E  + E  +   +   E + + E+  E++E   +E  ++  E+ E + 
Sbjct: 197 QTLTEKEKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQLTEKMENDR 256

Query: 399 KELENEGHCDFVKLREMLIRTNMEDMREK 427
            +L  E         +   +   E  +++
Sbjct: 257 VQLLKEQERTLALKLQEQEQLLKEGFQKE 285

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.4 bits (112), Expect = 3e-06
 Identities = 13/77 (16%), Positives = 29/77 (37%)

Query: 328 IDKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           +   +            E E E  + E  +   +   E + + E+  E++E   +E  ++
Sbjct: 188 MTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSYQEHLKQ 247

Query: 388 EEEEEEEEEEEKELENE 404
             E+ E +  +   E E
Sbjct: 248 LTEKMENDRVQLLKEQE 264

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 1e-04
 Identities = 16/104 (15%), Positives = 40/104 (38%), Gaps = 2/104 (1%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G++ EE  +   + +E   +   + ++   E+E+E E E  + E  +   +   E +   
Sbjct: 171 GIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRKN 230

Query: 403 NEGHCDFVKLREMLIRTNMEDMRE--KTHCRHYELYRKKRLEEE 444
            +      +  +  ++   E M        +  E     +L+E+
Sbjct: 231 EQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQ 274

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 1e-04
 Identities = 18/116 (15%), Positives = 51/116 (43%), Gaps = 4/116 (3%)

Query: 329 DKNLYSFFDCKYFNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
            K + +    + +   +E   +   + ++   E+E+E E E  + E  +   +   E + 
Sbjct: 169 RKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQR 228

Query: 389 EEEEEEEEEEKELENEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
           + E+  E++E+  +        +L E +    ++ ++E+      +L  +++L +E
Sbjct: 229 KNEQMMEQKERSYQEH----LKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE 280

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 47.2 bits (112), Expect = 6e-07
 Identities = 13/57 (22%), Positives = 25/57 (43%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
              EE     +  +E+  ++ E  +E  E       E  +E+++  EE  + +E KE
Sbjct: 82  KAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVRKNKELKE 138

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.8 bits (111), Expect = 6e-07
 Identities = 13/60 (21%), Positives = 26/60 (43%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  ++  EE     +  +E+  ++ E  +E  E       E  +E+++  EE  K  E +
Sbjct: 78  EVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVRKNKELK 137

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.4 bits (110), Expect = 9e-07
 Identities = 14/58 (24%), Positives = 26/58 (44%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           E+ E E E  ++  EE     +  +E+  ++ E  +E  E       E  +E++K  E
Sbjct: 71  EKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAE 128

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.4 bits (110), Expect = 9e-07
 Identities = 13/60 (21%), Positives = 25/60 (41%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E E  ++  EE     +  +E+  ++ E  +E  E       E  +E+++  EE     E
Sbjct: 76  EREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVRKNKE 135

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.4 bits (110), Expect = 9e-07
 Identities = 24/99 (24%), Positives = 46/99 (46%), Gaps = 8/99 (8%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEG 405
           +++ E  EE  + +E E  +   E+ E E E  ++  EE     +  +E+  +K   N+ 
Sbjct: 48  QKKLEAAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNK- 106

Query: 406 HCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLEEE 444
                + RE  +   +E ++EK   +H E  RK +  +E
Sbjct: 107 -----ENREAHLAAMLERLQEKD--KHAEEVRKNKELKE 138

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 46.4 bits (110), Expect = 1e-06
 Identities = 14/61 (22%), Positives = 26/61 (42%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           L E+ E E E  ++  EE     +  +E+  ++ E  +E  E       E  +E+ +   
Sbjct: 69  LAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAE 128

Query: 404 E 404
           E
Sbjct: 129 E 129

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 45.6 bits (108), Expect = 2e-06
 Identities = 12/60 (20%), Positives = 25/60 (41%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           E  +   E+ E E E  ++  EE     +  +E+  ++ E  +E  E       + L+ +
Sbjct: 64  ELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEK 123

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 45.3 bits (107), Expect = 2e-06
 Identities = 12/59 (20%), Positives = 26/59 (44%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            E E E  ++  EE     +  +E+  ++ E  +E  E       E  +E+++  +E+ 
Sbjct: 73  REHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVR 131

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 45.3 bits (107), Expect = 2e-06
 Identities = 12/56 (21%), Positives = 22/56 (39%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           E E  +   E+ E E E  ++  EE     +  +E+  ++ E  +E  E       
Sbjct: 62  EAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAML 117

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 45.3 bits (107), Expect = 3e-06
 Identities = 12/58 (20%), Positives = 24/58 (41%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
            +E E  +   E+ E E E  ++  EE     +  +E+  ++ E  +E  E     + 
Sbjct: 60  YQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAML 117

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 45.3 bits (107), Expect = 3e-06
 Identities = 14/58 (24%), Positives = 25/58 (43%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           +E E  +   E+ E E E  ++  EE     +  +E+  ++ E  +E  E      LE
Sbjct: 61  QEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLE 118

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 44.9 bits (106), Expect = 3e-06
 Identities = 13/60 (21%), Positives = 25/60 (41%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             + +E E  +   E+ E E E  ++  EE     +  +E+  ++ E  +E  E  L   
Sbjct: 57  RRKYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAM 116

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 44.9 bits (106), Expect = 3e-06
 Identities = 14/70 (20%), Positives = 29/70 (41%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
             +   E+ E E E  ++  EE     +  +E+  ++ E  +E  E       E+  E +
Sbjct: 65  LLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKD 124

Query: 405 GHCDFVKLRE 414
            H + V+  +
Sbjct: 125 KHAEEVRKNK 134

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 44.5 bits (105), Expect = 4e-06
 Identities = 13/59 (22%), Positives = 25/59 (42%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           L+   E+ E E E  ++  EE     +  +E+  ++ E  +E  E       E  +E +
Sbjct: 66  LKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLERLQEKD 124

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 44.1 bits (104), Expect = 6e-06
 Identities = 13/60 (21%), Positives = 25/60 (41%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + +E E  +   E+ E E E  ++  EE     +  +E+  ++ E  +E  E       E
Sbjct: 59  KYQEAELLKHLAEKREHEREVIQKAIEENNNFIKMAKEKLAQKMESNKENREAHLAAMLE 118

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 40.6 bits (95), Expect = 9e-05
 Identities = 18/89 (20%), Positives = 38/89 (42%), Gaps = 8/89 (8%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREM 415
           EE +++ E  EE  + +E E  +   E+ E E E  ++  EE           F+K+ + 
Sbjct: 45  EEIQKKLEAAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNN--------FIKMAKE 96

Query: 416 LIRTNMEDMREKTHCRHYELYRKKRLEEE 444
            +   ME  +E        +  + + +++
Sbjct: 97  KLAQKMESNKENREAHLAAMLERLQEKDK 125

>d1sa0e_ a.137.10.1 (E:) Stathmin 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 138

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Stathmin
family: Stathmin
domain: Stathmin 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.3 bits (89), Expect = 6e-04
 Identities = 11/49 (22%), Positives = 24/49 (48%)

Query: 341 FNGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           F  + +E+  ++ E  +E  E       E  +E+++  EE  + +E +E
Sbjct: 90  FIKMAKEKLAQKMESNKENREAHLAAMLERLQEKDKHAEEVRKNKELKE 138

>d1siga_ a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 562]} Length = 334

class: All alpha proteins
fold: Sigma2 domain of RNA polymerase sigma factors
superfamily: Sigma2 domain of RNA polymerase sigma factors
family: Sigma2 domain of RNA polymerase sigma factors
domain: Sigma70
species: Escherichia coli [TaxId: 562]

 Score = 43.0 bits (100), Expect = 7e-05
 Identities = 17/100 (17%), Positives = 42/100 (42%), Gaps = 1/100 (1%)

Query: 343 GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELE 402
           G  +   EE+          E  +E+ +++E+E+EE+ +++  +++   + E   EK  E
Sbjct: 52  GFVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAE 111

Query: 403 NEGHCDFVKLREMLIRTNMEDMREKTHCRHYELYRKKRLE 442
                   +        +    +E+      E++++ RL 
Sbjct: 112 LRAQYVVTRDTIKAKGRSHATAQEEILK-LSEVFKQFRLV 150

>d1siga_ a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 562]} Length = 334

class: All alpha proteins
fold: Sigma2 domain of RNA polymerase sigma factors
superfamily: Sigma2 domain of RNA polymerase sigma factors
family: Sigma2 domain of RNA polymerase sigma factors
domain: Sigma70
species: Escherichia coli [TaxId: 562]

 Score = 38.7 bits (89), Expect = 0.001
 Identities = 13/101 (12%), Positives = 33/101 (32%)

Query: 362 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNM 421
            +   EE+          E  +E+ +++E+E+EE+ + +  ++ +    +L         
Sbjct: 54  VDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELR 113

Query: 422 EDMREKTHCRHYELYRKKRLEEESNVIGSNFRWSDFSAKTR 462
                       +       +EE   +   F+      K  
Sbjct: 114 AQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQF 154

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 41.9 bits (98), Expect = 1e-04
 Identities = 13/44 (29%), Positives = 25/44 (56%)

Query: 342 NGLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 385
           +G E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 71  SGQEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.8 bits (95), Expect = 3e-04
 Identities = 12/47 (25%), Positives = 25/47 (53%)

Query: 363 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDF 409
           +E+ + E+  + +E  E   E E   +EEE+ + + +E + +G   F
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVKGIPSF 119

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 40.4 bits (94), Expect = 4e-04
 Identities = 13/46 (28%), Positives = 26/46 (56%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELEN 403
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ K + +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVKGIPS 118

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/43 (27%), Positives = 24/43 (55%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ + 
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVKG 115

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 345 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 386
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 346 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 387
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 388
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 389
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 391
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 392
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 352 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 354 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 355 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.2 bits (91), Expect = 0.001
 Identities = 12/42 (28%), Positives = 24/42 (57%)

Query: 356 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 397
           +E+ + E+  + +E  E   E E   +EEE+ + + EEE+ +
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVK 114

>d2ayua1 d.305.1.1 (A:70-370) Nucleosome assembly protein, NAP {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 301

class: Alpha and beta proteins (a+b)
fold: NAP-like
superfamily: NAP-like
family: NAP-like
domain: Nucleosome assembly protein, NAP
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.7 bits (87), Expect = 0.003
 Identities = 13/61 (21%), Positives = 25/61 (40%)

Query: 364 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGHCDFVKLREMLIRTNMED 423
           +E+ + E+  + +E  E   E E   +EEE+ + + E E         L  +     + D
Sbjct: 73  QEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVKGIPSFWLTALENLPIVCD 132

Query: 424 M 424
            
Sbjct: 133 T 133

>d1ofcx3 a.187.1.1 (X:697-798) HAND domain of the nucleosome remodeling ATPase ISWI {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 102

class: All alpha proteins
fold: HAND domain of the nucleosome remodeling ATPase ISWI
superfamily: HAND domain of the nucleosome remodeling ATPase ISWI
family: HAND domain of the nucleosome remodeling ATPase ISWI
domain: HAND domain of the nucleosome remodeling ATPase ISWI
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 38.7 bits (90), Expect = 2e-04
 Identities = 16/75 (21%), Positives = 34/75 (45%), Gaps = 1/75 (1%)

Query: 332 LYSFFDCKYFN-GLEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 390
                D ++F   L E  ++E     +    +  +  E   +  + + EE+ + +E E  
Sbjct: 26  QPIVQDFQFFPPRLFELLDQEIYYFRKTVGYKVPKNTELGSDATKVQREEQRKIDEAEPL 85

Query: 391 EEEEEEEEKELENEG 405
            EEE +E++ L ++G
Sbjct: 86  TEEEIQEKENLLSQG 100

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (86), Expect = 0.001
 Identities = 12/49 (24%), Positives = 25/49 (51%)

Query: 358 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENEGH 406
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E+   N+  
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQKR 51

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (84), Expect = 0.002
 Identities = 11/49 (22%), Positives = 26/49 (53%)

Query: 351 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +  +++
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQKR 51

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 0.004
 Identities = 11/48 (22%), Positives = 25/48 (52%)

Query: 353 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKE 400
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +  ++
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQK 50

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 0.004
 Identities = 11/48 (22%), Positives = 24/48 (50%)

Query: 357 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEKELENE 404
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +   +
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQK 50

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 0.004
 Identities = 11/50 (22%), Positives = 26/50 (52%)

Query: 344 LEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 393
           + + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +  ++
Sbjct: 1   MSDNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQK 50

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 0.004
 Identities = 11/50 (22%), Positives = 25/50 (50%)

Query: 350 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEK 399
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +  ++  
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQKRI 52

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 0.004
 Identities = 11/48 (22%), Positives = 25/48 (52%)

Query: 347 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 394
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +  ++
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQK 50

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 0.004
 Identities = 11/48 (22%), Positives = 25/48 (52%)

Query: 348 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 395
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +  ++
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQK 50

>d1qkla_ a.143.1.2 (A:) RPB6 {Human (Homo sapiens) [TaxId: 9606]} Length = 127

class: All alpha proteins
fold: RPB6/omega subunit-like
superfamily: RPB6/omega subunit-like
family: RPB6
domain: RPB6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (82), Expect = 0.004
 Identities = 11/48 (22%), Positives = 25/48 (52%)

Query: 349 EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE 396
           + E+  + ++ ++ EE+E  ++ E  EEE +E  E     E  +  ++
Sbjct: 3   DNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQK 50

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	650
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.26
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.05
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.94
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.83
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.69
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.62
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.58
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.58
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.57
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.55
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.51
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.33
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.11
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.09
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.96
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.91
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.85
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.83
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	97.8
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	97.79
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	97.79
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.77
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	97.77
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.76
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	97.75
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	97.74
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	97.73
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	97.73
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.71
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	97.71
d2fh5b1	207	Signal recognition particle receptor beta-subunit	97.71
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	97.7
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	97.68
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	97.68
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	97.67
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.67
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.65
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.64
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	97.61
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	97.61
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.58
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	97.57
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	97.55
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.54
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.53
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	97.53
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	97.52
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	97.52
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	97.51
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	97.51
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	97.5
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	97.48
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	97.48
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.48
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.47
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.46
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	97.42
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.34
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.34
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.33
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.33
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	97.31
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	97.28
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	97.27
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	97.27
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	97.25
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	97.24
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	97.21
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	97.18
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	97.17
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	97.14
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	97.09
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	97.04
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	96.95
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	96.52
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.18
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	96.04
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	95.98
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.77
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	94.82
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	94.57
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.12
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.1
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	94.09
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.01
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.84
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.78
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	93.77
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.76
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.66
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.65
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.57
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	93.42
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.39
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	93.16
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.86
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.85
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.84
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	92.77
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	92.7
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.56
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.55
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.48
d1g2912	240	Maltose transport protein MalK, N-terminal domain	92.47
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	92.46
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	92.46
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	92.43
d2awna2	232	Maltose transport protein MalK, N-terminal domain	92.42
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	92.18
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	91.94
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	91.85
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	91.74
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	91.53
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.52
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	91.01
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	90.3
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	89.59
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	88.95
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	88.48
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	88.38
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	88.12
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	88.05
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	87.9
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	87.1
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	86.7
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	86.6
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	86.56
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	86.3
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	85.93
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	85.84
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	85.55
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	85.26
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.07
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	85.01
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	84.98
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	84.91
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	84.56
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	84.32
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	84.2
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	83.21
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.63
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	82.56
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	81.19
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	81.07
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	80.79
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	80.48
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	80.23

>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=99.26  E-value=3.2e-12  Score=121.31  Aligned_cols=145  Identities=16%  Similarity=0.162  Sum_probs=83.5

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEE-----EeeCCceeecchhHHHHHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTY-----ELQENNVKLKEDSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~-----~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      -+.+ ||.+|+|||||||+|++.+..+..+..+..|..+.....     .++..++......+....     .+..++..
T Consensus        25 ~I~l-vG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~-----~~~~~~~~   98 (195)
T d1svia_          25 EIAL-AGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVSKSERE-----AWGRMIET   98 (195)
T ss_dssp             EEEE-EEBTTSSHHHHHHHHHTC-------------CCEEEEEETTTEEEEECCCBCCCSSCHHHHH-----HHHHHHHH
T ss_pred             EEEE-ECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccccceEEEEEeeccccccccccc-----hhhhHHhh
Confidence            4667 999999999999999997765554444444443322111     111111111111111111     11111111


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHH-CCC
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTS-NGV  259 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~-~~I  259 (650)
                      ..   +.     ....++++|++. ..+++++.+.++++.|.. .++++.|+||+|++++.++..+.+.+++.+.. .+.
T Consensus        99 ~~---~~-----~~~~~~vi~viD-~~~~~~~~~~~~~~~l~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~l~~~~~~  169 (195)
T d1svia_          99 YI---TT-----REELKAVVQIVD-LRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPED  169 (195)
T ss_dssp             HH---HH-----CTTEEEEEEEEE-TTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTS
T ss_pred             hh---cc-----ccchhhhhhhhh-ccccccccccccccccccccCcceechhhccccCHHHHHHHHHHHHHHhcccCCC
Confidence            11   10     112456666665 457899999999999985 57999999999999999999988888888866 355


Q ss_pred             cEEeCCC
Q psy8479         260 HIYEFPT  266 (650)
Q Consensus       260 ~if~f~~  266 (650)
                      .++.+..
T Consensus       170 ~~~~~SA  176 (195)
T d1svia_         170 ELILFSS  176 (195)
T ss_dssp             EEEECCT
T ss_pred             CEEEEeC
Confidence            6777653

>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=99.05  E-value=4e-10  Score=104.70  Aligned_cols=121  Identities=15%  Similarity=0.215  Sum_probs=74.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEE---EE-eeCCceeecchhHHHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHT---YE-LQENNVKLKEDSFKSIVDYIDNQFEAYLQEEL  183 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~---~~-l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~  183 (650)
                      +.| ||.+|+|||||||+|++.+..  .+..++.|..+....   +. ++-.|+.............+..++..|+....
T Consensus         3 I~l-vG~~nvGKSsLin~l~~~~~~--~~~~~g~T~~~~~~~~~~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (184)
T d2cxxa1           3 IIF-AGRSNVGKSTLIYRLTGKKVR--RGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNA   79 (184)
T ss_dssp             EEE-EEBTTSSHHHHHHHHHSCCCS--SSSSTTCTTSCEEEEETTEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHG
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCce--eeCCCCEeecccccccccceecccCCceeccccccccccccchhhhhhhhhcc
Confidence            456 999999999999999998753  344555554432211   11 12223222222223333333333333332211


Q ss_pred             hhhhcccccCCceeeEEEEEEcCC----------CCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHH
Q psy8479         184 KIKRSLNTYHDNRIHVCLYFICPT----------GHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSE  242 (650)
Q Consensus       184 ~i~R~~~~~~D~RVH~cLYfI~ps----------~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~E  242 (650)
                         +        .+++++|++..+          ..++...|+++++.|.. ..|+|.|++|+|+++..+
T Consensus        80 ---~--------~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p~iiv~NK~D~~~~~~  138 (184)
T d2cxxa1          80 ---K--------NIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNVQ  138 (184)
T ss_dssp             ---G--------GCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCHH
T ss_pred             ---c--------ccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCCEEEEEeeeehhhhHH
Confidence               1        246788888653          25789999999999975 679999999999997654

>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=98.95  E-value=3.7e-10  Score=112.87  Aligned_cols=139  Identities=18%  Similarity=0.154  Sum_probs=83.2

Q ss_pred             cCccCCCCCCcccccc-------ccc-CCCCceee-cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCC
Q psy8479          85 RCWVNTRTPPPNFLEK-------SWN-FIPGKAYK-PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQEN  155 (650)
Q Consensus        85 ~~~vG~~~lp~Q~~rk-------~~~-~k~g~~Fn-VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~  155 (650)
                      +.++|+..+|.+...+       ..+ .+.++..- +|++|+|||||||+|+|.+.... +..++.|.....+.+.+.+.
T Consensus         2 ~~~~~~~~~~~~~~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~~~~v-s~~~~~T~~~~~~~~~~~g~   80 (257)
T d1h65a_           2 REWSGINTFAPATQTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSI-SPFQSEGPRPVMVSRSRAGF   80 (257)
T ss_dssp             EECGGGGGSCHHHHHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSCCSCC-CSSSCCCSSCEEEEEEETTE
T ss_pred             chhhhHhhhhHHHHHHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCCceee-cCCCCcceeEEEEEEEeccE
Confidence            3578888898643321       111 01222222 99999999999999999876543 22233333222222333222


Q ss_pred             ceeec--------chhHHHHHHHHHHHHHHHHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhccC--
Q psy8479         156 NVKLK--------EDSFKSIVDYIDNQFEAYLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDSK--  225 (650)
Q Consensus       156 g~~L~--------~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~~--  225 (650)
                      .+.+.        ......+...+              .+   ...+..+|++||++..+..++...|..+++.|...  
T Consensus        81 ~i~viDTPGl~~~~~~~~~~~~~i--------------~~---~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg  143 (257)
T d1h65a_          81 TLNIIDTPGLIEGGYINDMALNII--------------KS---FLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFG  143 (257)
T ss_dssp             EEEEEECCCSEETTEECHHHHHHH--------------HH---HTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHC
T ss_pred             EEEEEeeecccCCcchHHHHHHHH--------------HH---HHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcc
Confidence            22222        11111222111              11   13456789999999988888999999998888742  


Q ss_pred             ----CCeeeeeecccCCCHH
Q psy8479         226 ----VNIIPIIAKADTISKS  241 (650)
Q Consensus       226 ----vnvIPVItKAD~Lt~~  241 (650)
                          -|+|.|+||+|.+.++
T Consensus       144 ~~~~~~~ivv~t~~D~~~~~  163 (257)
T d1h65a_         144 KGIWNKAIVALTHAQFSPPD  163 (257)
T ss_dssp             GGGGGGEEEEEECCSCCCGG
T ss_pred             hhhhhCEEEEEECcccCCcC
Confidence                3899999999998644

>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=98.94  E-value=2.3e-09  Score=99.77  Aligned_cols=151  Identities=17%  Similarity=0.225  Sum_probs=81.4

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEE--------eeCCceeecchhHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYE--------LQENNVKLKEDSFKSIVDYIDNQFEAYL  179 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~--------l~e~g~~L~~~~w~~Ii~yI~~qf~~yL  179 (650)
                      +.+ ||.+|+|||||||+|++.+... .+..++.|.......+.        ++..|+......+....   ..+..   
T Consensus         8 I~l-vG~~~~GKSSLin~l~~~~~~~-~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~---~~~~~---   79 (178)
T d1wf3a1           8 VAI-VGKPNVGKSTLLNNLLGVKVAP-ISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFM---DQEVY---   79 (178)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHTSCCSC-CCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHH---HHHHH---
T ss_pred             EEE-ECCCCCCHHHHHHHHhCCCcee-ecccCCcccccccceeeeeeeeeeecccccccccccccchhc---ccccc---
Confidence            455 9999999999999999986433 22223322222111111        22222221111121111   11110   


Q ss_pred             HHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc---CCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         180 QEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS---KVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       180 ~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~---~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                             +.   +.  ..+++||++..+ +++...|..+++.|..   ..|+|.|++|+|++...+.  ..+.+.+.+  
T Consensus        80 -------~~---~~--~ad~il~v~D~~-~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~~~~--~~~~~~~~~--  142 (178)
T d1wf3a1          80 -------EA---LA--DVNAVVWVVDLR-HPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPEE--AMKAYHELL--  142 (178)
T ss_dssp             -------HH---TS--SCSEEEEEEETT-SCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSSHHH--HHHHHHHTS--
T ss_pred             -------cc---cc--cccceeeeechh-hhhcccccchhhheeccccchhhhhhhcccccccCHHH--HHHHHHhhc--
Confidence                   11   11  246889988764 6788888777777753   5689999999999875432  122232222  


Q ss_pred             CCCcEEeCCC-CchhHHHHHHHhhhccCCC
Q psy8479         257 NGVHIYEFPT-DDETMSDVNAAMTIFSSIP  285 (650)
Q Consensus       257 ~~I~if~f~~-d~~~~~~~~~~~~~~~~~P  285 (650)
                      ...++|.+.. ....+.++...+...  +|
T Consensus       143 ~~~~~~~iSA~~~~gi~~L~~~i~~~--lp  170 (178)
T d1wf3a1         143 PEAEPRMLSALDERQVAELKADLLAL--MP  170 (178)
T ss_dssp             TTSEEEECCTTCHHHHHHHHHHHHTT--CC
T ss_pred             ccCceEEEecCCCCCHHHHHHHHHHh--CC
Confidence            1345666643 333455555555444  55

>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=98.83  E-value=4.2e-09  Score=96.83  Aligned_cols=59  Identities=19%  Similarity=0.262  Sum_probs=46.6

Q ss_pred             CCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC--CcEEeC
Q psy8479         206 PTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNG--VHIYEF  264 (650)
Q Consensus       206 ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~--I~if~f  264 (650)
                      ...++....+..++..+. ...++++|++|+|++...+.......+++.+....  ++++..
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~i~v  168 (188)
T d1puia_         107 DIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETF  168 (188)
T ss_dssp             ETTSCCCHHHHHHHHHHHHTTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEEC
T ss_pred             cccccchhHHHHHHHHhhhccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcEEEE
Confidence            345778888888888886 46799999999999999999988888888887654  345544

>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=98.69  E-value=1.8e-08  Score=91.38  Aligned_cols=111  Identities=12%  Similarity=0.105  Sum_probs=58.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----chhHHHHHHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----EDSFKSIVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~~~w~~Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      +|++|+|||||||+|++.+... .+..++.+.......+...+..+.+.     ...+.....+...+...+       .
T Consensus         7 vG~~nvGKSsLin~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~-------~   78 (161)
T d2gj8a1           7 AGRPNAGKSSLLNALAGREAAI-VTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQE-------I   78 (161)
T ss_dssp             EESTTSSHHHHHHHHHTSCCSC-CCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHH-------H
T ss_pred             ECCCCCCHHHHHHHHhCCCceE-eecccccccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHH-------H
Confidence            9999999999999999987543 22333333222222233333222222     111111111111110011       0


Q ss_pred             hcccccCCceeeEEEEEEcCCC-CCCCcch--HHHHHHhccCCCeeeeeecccCC
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTG-HGLKSLD--LVCMKKLDSKVNIIPIIAKADTI  238 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lD--I~~mk~L~~~vnvIPVItKAD~L  238 (650)
                      +        ..++|+|++.... ..+...+  .++++.+...+++|.|++|+|..
T Consensus        79 ~--------~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~  125 (161)
T d2gj8a1          79 E--------QADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADIT  125 (161)
T ss_dssp             H--------TCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHH
T ss_pred             H--------hccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhh
Confidence            1        1346788876653 2333333  45677777788999999999954

>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=98.62  E-value=6.8e-08  Score=90.23  Aligned_cols=134  Identities=19%  Similarity=0.239  Sum_probs=75.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCC-----CCCCcEEEEEEEEEeeCCceeec-chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSP-----HSLPSVKLKAHTYELQENNVKLK-EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~-----~~~~T~~I~~~~~~l~e~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||..|+|||||+|+|++.........     ..+.|..+....+.+.+.++.+. ....   .+        |+..-.  
T Consensus        11 iG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~---~~--------~~~~~~--   77 (179)
T d1wb1a4          11 FGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGH---AD--------LIRAVV--   77 (179)
T ss_dssp             EECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSH---HH--------HHHHHH--
T ss_pred             EeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccc---cc--------cccchh--
Confidence            99999999999999997543322111     11112222212222222222222 1111   11        221111  


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC----CCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSN----GVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~----~I~  260 (650)
                       +.+     ...+++++++..+ .++.+.+.+++..+.. .+|+|.|++|.|....++.......+...++..    +++
T Consensus        78 -~~l-----~~~d~~ilv~d~~-~g~~~~~~~~~~~~~~~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (179)
T d1wb1a4          78 -SAA-----DIIDLALIVVDAK-EGPKTQTGEHMLILDHFNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSS  150 (179)
T ss_dssp             -HHT-----TSCCEEEEEEETT-TCSCHHHHHHHHHHHHTTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCC
T ss_pred             -hhh-----hhccccccccccc-cccchhhhhhhhhhhhcCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCe
Confidence             111     1246778777654 6888888888888874 689999999999999988776666555555442    356


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      ++...
T Consensus       151 iv~iS  155 (179)
T d1wb1a4         151 IIPIS  155 (179)
T ss_dssp             EEECC
T ss_pred             EEEEE
Confidence            66654

>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=98.58  E-value=9.8e-08  Score=88.47  Aligned_cols=133  Identities=13%  Similarity=0.154  Sum_probs=69.5

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEe---------eCCceeecchhHHHHHHHHHHHHHH
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYEL---------QENNVKLKEDSFKSIVDYIDNQFEA  177 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l---------~e~g~~L~~~~w~~Ii~yI~~qf~~  177 (650)
                      .++| +|++|+|||||||+|++.+....  ...+.|...+......         +-.|+.-....+..+.       ..
T Consensus         3 ~Vai-vG~~nvGKSTLin~L~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~-------~~   72 (180)
T d1udxa2           3 DVGL-VGYPNAGKSSLLAAMTRAHPKIA--PYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLG-------LE   72 (180)
T ss_dssp             SEEE-ECCGGGCHHHHHHHHCSSCCEEC--CCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSC-------HH
T ss_pred             EEEE-ECCCCCCHHHHHHHHhCCCCcee--ccCCCceeeeeceeeecCCCeEEEcCCCeeecCchHHHHHH-------HH
Confidence            5778 99999999999999999765322  1122222111111111         1112110111121111       12


Q ss_pred             HHHHHHhhhhcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhc------cCCCeeeeeecccCCCHHHHHHHHHHHH
Q psy8479         178 YLQEELKIKRSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLD------SKVNIIPIIAKADTISKSELQKFKTNIM  251 (650)
Q Consensus       178 yL~eE~~i~R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~------~~vnvIPVItKAD~Lt~~El~~~K~~I~  251 (650)
                      ++...    +        ..++++|.+... +.........++++.      ...|+|.|++|+|++..++...    +.
T Consensus        73 ~l~~~----~--------~~~~~~~~~d~~-~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~~~~----~~  135 (180)
T d1udxa2          73 FLRHI----A--------RTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKA----LA  135 (180)
T ss_dssp             HHHHH----T--------SSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHH----HH
T ss_pred             HHHHH----H--------hhhhhhhhcccc-cccccchhhhhhhhhccccccchhhhhhhhhhhhhhhHHHHHH----HH
Confidence            22111    1        123566666643 233222222333332      2358999999999999887654    44


Q ss_pred             HHHHHCCCcEEeCCC
Q psy8479         252 TELTSNGVHIYEFPT  266 (650)
Q Consensus       252 ~~L~~~~I~if~f~~  266 (650)
                      +.+...++++|....
T Consensus       136 ~~~~~~~~~~~~iSA  150 (180)
T d1udxa2         136 DALAREGLAVLPVSA  150 (180)
T ss_dssp             HHHHTTTSCEEECCT
T ss_pred             HHHHhcCCeEEEEEc
Confidence            556677888987763

>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=98.58  E-value=1.9e-07  Score=85.70  Aligned_cols=85  Identities=14%  Similarity=0.264  Sum_probs=49.8

Q ss_pred             ceeeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHH-HHHHHHHHHHHHHHCCCcEEeCCC-CchhH
Q psy8479         195 NRIHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSE-LQKFKTNIMTELTSNGVHIYEFPT-DDETM  271 (650)
Q Consensus       195 ~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~E-l~~~K~~I~~~L~~~~I~if~f~~-d~~~~  271 (650)
                      ..+.++++.+..  ++.......+...|. ...++++|++|+|.+...+ +......+.+.+  ..+++|.... ....+
T Consensus        84 ~~~~~~l~~~d~--~~~~~~~~~~~~~l~~~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~--~~~~~~~vSA~~g~gi  159 (179)
T d1egaa1          84 GDVELVIFVVEG--TRWTPDDEMVLNKLREGKAPVILAVNKVDNVQEKADLLPHLQFLASQM--NFLDIVPISAETGLNV  159 (179)
T ss_dssp             CCEEEEEEEEET--TCCCHHHHHHHHHHHSSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTS--CCSEEEECCTTTTTTH
T ss_pred             hhcceeEEEEec--CccchhHHHHHHHhhhccCceeeeeeeeeccchhhhhhhHhhhhhhhc--CCCCEEEEeCcCCCCH
Confidence            445667777765  345555555666655 5679999999999886643 333333333222  2356776653 22345


Q ss_pred             HHHHHHhhhccCCC
Q psy8479         272 SDVNAAMTIFSSIP  285 (650)
Q Consensus       272 ~~~~~~~~~~~~~P  285 (650)
                      .++...+...  +|
T Consensus       160 ~~L~~~i~~~--lp  171 (179)
T d1egaa1         160 DTIAAIVRKH--LP  171 (179)
T ss_dssp             HHHHHHHHTT--CC
T ss_pred             HHHHHHHHHh--CC
Confidence            5666666555  55

>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=98.57  E-value=4.6e-08  Score=90.80  Aligned_cols=68  Identities=13%  Similarity=0.123  Sum_probs=45.7

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHH--HHHHHHHHHHHHHH-CCCcEEeCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSE--LQKFKTNIMTELTS-NGVHIYEFP  265 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~E--l~~~K~~I~~~L~~-~~I~if~f~  265 (650)
                      +++++|++..+ ++..+.+..++..+. ...++|+|++|+|.+...+  +..+.+.+.+.+.. ..++++...
T Consensus        92 ~dvii~v~d~~-~~~~~~~~~~~~~~~~~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vS  163 (186)
T d1mkya2          92 ADVVVIVLDAT-QGITRQDQRMAGLMERRGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTS  163 (186)
T ss_dssp             CSEEEEEEETT-TCCCHHHHHHHHHHHHTTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECB
T ss_pred             CCEEEEeeccc-ccchhhHHHHHHHHHHcCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEe
Confidence            46788888764 788888888888886 4669999999999886554  23344444444432 234555543

>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=98.55  E-value=2.9e-08  Score=91.35  Aligned_cols=42  Identities=19%  Similarity=0.305  Sum_probs=33.2

Q ss_pred             eEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCH
Q psy8479         198 HVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISK  240 (650)
Q Consensus       198 H~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~  240 (650)
                      ++++|++.++ ++....+..+++.|.. ..|+|.|++|+|.+..
T Consensus        82 d~i~~~~~~~-~~~~~~~~~~~~~l~~~~~pviiv~NK~Dl~~~  124 (171)
T d1mkya1          82 DLVLFVVDGK-RGITKEDESLADFLRKSTVDTILVANKAENLRE  124 (171)
T ss_dssp             SEEEEEEETT-TCCCHHHHHHHHHHHHHTCCEEEEEESCCSHHH
T ss_pred             cEEEEeeccc-ccccccccccccccccccccccccchhhhhhhh
Confidence            4677777754 6788888888888874 6799999999998744

>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=98.51  E-value=8.7e-08  Score=101.37  Aligned_cols=111  Identities=19%  Similarity=0.180  Sum_probs=62.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC---CCCCCCCcEEEEEEEEEeeC-Cceeec-chhHHHHHHHHHHHHHHHHHHHHhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST---PSPHSLPSVKLKAHTYELQE-NNVKLK-EDSFKSIVDYIDNQFEAYLQEELKIK  186 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~---~s~~~~~T~~I~~~~~~l~e-~g~~L~-~~~w~~Ii~yI~~qf~~yL~eE~~i~  186 (650)
                      +|++|+|||||||+|+|......   ++...+.|..+..  |...+ .++.|. ..++...    ...-+.|+.+. .  
T Consensus        62 ~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~--~~~~~~~~~~l~DtPG~~~~----~~~~~~~~~~~-~--  132 (400)
T d1tq4a_          62 TGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP--YKHPNIPNVVFWDLPGIGST----NFPPDTYLEKM-K--  132 (400)
T ss_dssp             EECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEE--EECSSCTTEEEEECCCGGGS----SCCHHHHHHHT-T--
T ss_pred             ECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeee--eeccCCCeEEEEeCCCcccc----cccHHHHHHHh-h--
Confidence            99999999999999999754332   1222222333322  22111 123332 1111000    00012333221 1  


Q ss_pred             hcccccCCceeeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHH
Q psy8479         187 RSLNTYHDNRIHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKS  241 (650)
Q Consensus       187 R~~~~~~D~RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~  241 (650)
                             -.+.+++|++..   .+++..|++++++|.. ..+++.|++|+|.+...
T Consensus       133 -------~~~~d~~l~~~~---~~~~~~d~~l~~~l~~~~k~~~~V~nK~D~~~~~  178 (400)
T d1tq4a_         133 -------FYEYDFFIIISA---TRFKKNDIDIAKAISMMKKEFYFVRTKVDSDITN  178 (400)
T ss_dssp             -------GGGCSEEEEEES---SCCCHHHHHHHHHHHHTTCEEEEEECCHHHHHHH
T ss_pred             -------hhcceEEEEecC---CCCCHHHHHHHHHHHHcCCCEEEEEeCcccccch
Confidence                   113456666654   6799999999999986 57999999999986444

>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=98.33  E-value=4.8e-08  Score=88.34  Aligned_cols=47  Identities=15%  Similarity=0.306  Sum_probs=34.4

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQK  245 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~  245 (650)
                      .++++|++.++ .+....++.+...+ ...+++.+++|.|..+......
T Consensus        81 ad~ii~v~d~~-~~~~~~~~~~~~~~-~~~~~i~~~~k~d~~~~~~~~~  127 (160)
T d1xzpa2          81 ADIVLFVLDAS-SPLDEEDRKILERI-KNKRYLVVINKVDVVEKINEEE  127 (160)
T ss_dssp             CSEEEEEEETT-SCCCHHHHHHHHHH-TTSSEEEEEEECSSCCCCCHHH
T ss_pred             CCEEEEEEeCC-CCcchhhhhhhhhc-ccccceeeeeeccccchhhhHH
Confidence            36888888876 46666777766665 4558999999999998655433

>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=98.11  E-value=1.4e-06  Score=81.65  Aligned_cols=27  Identities=22%  Similarity=0.290  Sum_probs=23.1

Q ss_pred             CCceeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +-+.+ ||.+|+|||||||.|++.+...
T Consensus         4 p~V~l-vG~~n~GKTSLln~l~~~~~~~   30 (209)
T d1nrjb_           4 PSIII-AGPQNSGKTSLLTLLTTDSVRP   30 (209)
T ss_dssp             CEEEE-ECSTTSSHHHHHHHHHHSSCCC
T ss_pred             CEEEE-ECCCCCCHHHHHHHHhCCCCCC
Confidence            56677 9999999999999999987543

>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=98.09  E-value=4.9e-06  Score=76.82  Aligned_cols=24  Identities=21%  Similarity=0.156  Sum_probs=21.6

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCC
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~  131 (650)
                      .+++ ||++|+|||||||+|++.+.
T Consensus         3 ~Vai-iG~~nvGKSSLin~L~~~~~   26 (185)
T d1lnza2           3 DVGL-VGFPSVGKSTLLSVVSSAKP   26 (185)
T ss_dssp             CEEE-ESSTTSSHHHHHHHSEEECC
T ss_pred             eEEE-ECCCCCCHHHHHHHHhCCCC
Confidence            5678 99999999999999999875

>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=97.96  E-value=9.6e-06  Score=73.32  Aligned_cols=142  Identities=16%  Similarity=0.205  Sum_probs=71.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|||||||||.|.+.++.....++.+  .......+.+.+..+.+.      ...+..+.       ..|       
T Consensus         6 vG~~~vGKTsLi~r~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~-------~~~-------   69 (164)
T d1yzqa1           6 LGEQSVGKTSLITRFMYDSFDNTYQATIG--IDFLSKTMYLEDRTIRLQLWDTAGQERFRSLI-------PSY-------   69 (164)
T ss_dssp             EESTTSSHHHHHHHHHHSCCCSSCCCCCS--EEEEEEEEECSSCEEEEEEEEECCSGGGGGGH-------HHH-------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCcccccee--eeccceeeccCCCceeeeecccCCcchhccch-------HHH-------
Confidence            99999999999999998765543222222  222222333333334443      12222211       111       


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcch---HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLD---LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lD---I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                            +.+  .++++++...+. ..+..+.   .++.+.....++++.|.+|+|.....+  ...+.+.+..+.+++.+
T Consensus        70 ------~~~--~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~--~~~~~~~~~~~~~~~~~  139 (164)
T d1yzqa1          70 ------IRD--SAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQ--VSIEEGERKAKELNVMF  139 (164)
T ss_dssp             ------HTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCC--SCHHHHHHHHHHTTCEE
T ss_pred             ------hhc--cceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhh--hhHHHHHHHHHHcCCEE
Confidence                  111  246666665432 1122211   222223335679999999999643222  12234445556678888


Q ss_pred             EeCCC-CchhHHHHHHHhh
Q psy8479         262 YEFPT-DDETMSDVNAAMT  279 (650)
Q Consensus       262 f~f~~-d~~~~~~~~~~~~  279 (650)
                      |.... ......++-..+.
T Consensus       140 ~e~SAk~g~~v~e~f~~i~  158 (164)
T d1yzqa1         140 IETSAKAGYNVKQLFRRVA  158 (164)
T ss_dssp             EECCTTTCTTHHHHHHHHH
T ss_pred             EEecCCCCcCHHHHHHHHH
Confidence            87763 2233444444443

>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=97.91  E-value=2.1e-05  Score=71.65  Aligned_cols=125  Identities=14%  Similarity=0.199  Sum_probs=64.8

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .| ||.+|+|||||||.|.+..+......+.+  ..+....+......+.+.      .+.+..+.              
T Consensus         9 ~v-vG~~~vGKTsLi~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~--------------   71 (169)
T d3raba_           9 LI-IGNSSVGKTSFLFRYADDSFTPAFVSTVG--IDFKVKTIYRNDKRIKLQIWDTAGQERYRTIT--------------   71 (169)
T ss_dssp             EE-ECSTTSSHHHHHHHHHHSCCCSSCCCCCS--EEEEEEEEEETTEEEEEEEEEECCSGGGHHHH--------------
T ss_pred             EE-ECCCCcCHHHHHHHHHcCCCCcccccccc--cceeeEEEEeecceEEEEEEECCCchhhHHHH--------------
Confidence            44 99999999999999998765543322332  233222333333333333      11222222              


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHHh-ccCCCeeeeeecccCC-----CHHHHHHHHHHHHHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKKL-DSKVNIIPIIAKADTI-----SKSELQKFKTNIMTE  253 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~L-~~~vnvIPVItKAD~L-----t~~El~~~K~~I~~~  253 (650)
                          ..  .+.  ..++++++...+.. .+..+.  +..++.. ....+++.|.+|+|..     +.++...       .
T Consensus        72 ----~~--~~~--~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~-------~  136 (169)
T d3raba_          72 ----TA--YYR--GAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQ-------L  136 (169)
T ss_dssp             ----HT--TTT--TCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHH-------H
T ss_pred             ----HH--HHh--cCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHH-------H
Confidence                11  111  24678888775431 122211  1222222 2456888899999964     3333322       2


Q ss_pred             HHHCCCcEEeCC
Q psy8479         254 LTSNGVHIYEFP  265 (650)
Q Consensus       254 L~~~~I~if~f~  265 (650)
                      .+..++++|...
T Consensus       137 ~~~~~~~~~e~S  148 (169)
T d3raba_         137 ADHLGFEFFEAS  148 (169)
T ss_dssp             HHHHTCEEEECB
T ss_pred             HHHcCCEEEEec
Confidence            344577887765

>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=97.85  E-value=2.5e-06  Score=78.05  Aligned_cols=125  Identities=14%  Similarity=0.236  Sum_probs=63.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|+|||||||.|.+.++... ..+.    .++...+  ...++.+.      ...+....       ..|+      
T Consensus        22 vG~~~vGKSsLi~~l~~~~~~~~-~~~~----~~~~~~i--~~~~~~~~i~d~~g~~~~~~~~-------~~~~------   81 (176)
T d1fzqa_          22 LGLDNAGKTTLLKQLASEDISHI-TPTQ----GFNIKSV--QSQGFKLNVWDIGGQRKIRPYW-------RSYF------   81 (176)
T ss_dssp             EESTTSSHHHHHHHHCCSCCEEE-EEET----TEEEEEE--EETTEEEEEEECSSCGGGHHHH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHhcCCCCcc-eeee----eeeEEEe--ccCCeeEeEeeccccccchhHH-------HHHh------
Confidence            99999999999999998764221 1111    1222222  22334333      22222221       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCCHHHHHHHHHHHHHH-HHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTISKSELQKFKTNIMTE-LTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~-L~~~~I  259 (650)
                       +        ..|+++|++..+.. .+......+...+.    ..+|++.|.+|+|.....+.....+.+... +...+.
T Consensus        82 -~--------~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  152 (176)
T d1fzqa_          82 -E--------NTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVW  152 (176)
T ss_dssp             -T--------TCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCE
T ss_pred             -h--------ccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHHHHHHHHHHHHHHhcCC
Confidence             1        13678888876532 22222222222222    246899999999998765544444333211 122344


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       153 ~~~~~S  158 (176)
T d1fzqa_         153 QIQSCS  158 (176)
T ss_dssp             EEEECC
T ss_pred             EEEEEe
Confidence            566554

>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=97.83  E-value=1.1e-05  Score=71.72  Aligned_cols=24  Identities=21%  Similarity=0.152  Sum_probs=20.7

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .| ||.+|+|||||||.|.+..+..
T Consensus         9 ~i-vG~~~vGKSSLi~~~~~~~~~~   32 (169)
T d1upta_           9 LI-LGLDGAGKTTILYRLQVGEVVT   32 (169)
T ss_dssp             EE-ECSTTSSHHHHHHHHHHSSCCC
T ss_pred             EE-ECCCCCCHHHHHHHHhCCCCcc
Confidence            44 9999999999999999987543

>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=97.80  E-value=1.9e-05  Score=73.27  Aligned_cols=105  Identities=14%  Similarity=0.150  Sum_probs=58.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|||||||||.|++..+.....++.+....   ..+.+.+..+.|.      .+.+..+.                 
T Consensus        15 vG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~~~~---~~~~~~~~~~~l~i~D~~g~e~~~~~~-----------------   74 (185)
T d2atxa1          15 VGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYA---VSVTVGGKQYLLGLYDTAGQEDYDRLR-----------------   74 (185)
T ss_dssp             EECTTSSHHHHHHHHHHSSCCCSCCCSSCCCEE---EEEESSSCEEEEEEECCCCSSSSTTTG-----------------
T ss_pred             ECCCCCCHHHHHHHHhhCCCCCcCCCceeeeee---EEEeeCCceEEeecccccccchhhhhh-----------------
Confidence            999999999999999987654432222222111   1223333333333      11111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC----CCCcchHHHHHHhccCCCeeeeeecccCCCHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH----GLKSLDLVCMKKLDSKVNIIPIIAKADTISKS  241 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h----~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~  241 (650)
                        .   ..-...|+++++...+.+    .+....+..++.....+++|.|.+|+|.....
T Consensus        75 --~---~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~  129 (185)
T d2atxa1          75 --P---LSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDP  129 (185)
T ss_dssp             --G---GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCH
T ss_pred             --h---hcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccch
Confidence              1   111235788998886542    12233345555556677999999999976543

>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=97.79  E-value=1.4e-05  Score=72.53  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ||.+|||||||||.|++..+..
T Consensus         9 iG~~~vGKTsli~~l~~~~~~~   30 (166)
T d1ctqa_           9 VGAGGVGKSALTIQLIQNHFVD   30 (166)
T ss_dssp             EESTTSSHHHHHHHHHHCCCCC
T ss_pred             ECCCCCCHHHHHHHHHhCCCCC
Confidence            9999999999999999876544

>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=97.79  E-value=1.1e-05  Score=73.01  Aligned_cols=131  Identities=14%  Similarity=0.184  Sum_probs=65.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec----chhHHHHHHHHHHHHHHHHHHHHhhhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK----EDSFKSIVDYIDNQFEAYLQEELKIKR  187 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~----~~~w~~Ii~yI~~qf~~yL~eE~~i~R  187 (650)
                      +|.+|+|||||||.|++.++........+.....  ..+.+....+.+.    ...+..-.    .....|         
T Consensus         8 iG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~---------   72 (165)
T d1z06a1           8 IGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRE--RAVDIDGERIKIQLWDTAGQERFRK----SMVQHY---------   72 (165)
T ss_dssp             ECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEE--EEEEETTEEEEEEEEECCCSHHHHT----TTHHHH---------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCccCcccccccce--eeeeeeccceEEEEEeccCchhhcc----ccceee---------
Confidence            9999999999999999876655433333322222  2233332222222    00000000    000011         


Q ss_pred             cccccCCceeeEEEEEEcCCC----CCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEE
Q psy8479         188 SLNTYHDNRIHVCLYFICPTG----HGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIY  262 (650)
Q Consensus       188 ~~~~~~D~RVH~cLYfI~ps~----h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if  262 (650)
                          +.  ..|+++++...+.    +.+...-.++++.+. ..++++.|.+|+|.....+  --.+.+.+..+.+++++|
T Consensus        73 ----~~--~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~--v~~~~~~~~~~~~~~~~~  144 (165)
T d1z06a1          73 ----YR--NVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQ--VPTDLAQKFADTHSMPLF  144 (165)
T ss_dssp             ----HT--TCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCC--SCHHHHHHHHHHTTCCEE
T ss_pred             ----ec--CCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccc--hhHHHHHHHHHHCCCEEE
Confidence                11  2467777776543    122222223333333 4679999999999643211  111223344456788888


Q ss_pred             eCC
Q psy8479         263 EFP  265 (650)
Q Consensus       263 ~f~  265 (650)
                      ...
T Consensus       145 e~S  147 (165)
T d1z06a1         145 ETS  147 (165)
T ss_dssp             ECC
T ss_pred             EEe
Confidence            665

>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=97.77  E-value=7.1e-05  Score=67.83  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=19.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|||||||||.|++..+..
T Consensus         8 iG~~~vGKTsLi~r~~~~~f~~   29 (171)
T d2erxa1           8 FGAGGVGKSSLVLRFVKGTFRE   29 (171)
T ss_dssp             ECCTTSSHHHHHHHHHTCCCCS
T ss_pred             ECCCCCCHHHHHHHHHhCCCCC
Confidence            9999999999999999876543

>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=97.77  E-value=9.9e-06  Score=73.21  Aligned_cols=101  Identities=13%  Similarity=0.174  Sum_probs=54.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      ||.+|+|||||||.|.+..+..     ..+|..+....+  ..+++.+.   ...+..+.               ...+.
T Consensus         8 vG~~~~GKTsLi~~l~~~~~~~-----~~~t~~~~~~~~--~~~~~~~~~~D~~G~~~~~---------------~~~~~   65 (165)
T d1ksha_           8 LGLDNAGKTTILKKFNGEDVDT-----ISPTLGFNIKTL--EHRGFKLNIWDVGGQKSLR---------------SYWRN   65 (165)
T ss_dssp             ECSTTSSHHHHHHHHTTCCCSS-----CCCCSSEEEEEE--EETTEEEEEEEECCSHHHH---------------TTGGG
T ss_pred             ECCCCCCHHHHHHHHcCCCCCc-----ccceEeeeeeec--cccccceeeeecCcchhhh---------------hHHHh
Confidence            9999999999999998865422     223333333333  33444443   11111110               01111


Q ss_pred             ccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCC
Q psy8479         189 LNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTI  238 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~L  238 (650)
                        .+  ...|+++|++..+.. .+...-..+.+.+.    ..++++.|.+|+|.-
T Consensus        66 --~~--~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~  116 (165)
T d1ksha_          66 --YF--ESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLP  116 (165)
T ss_dssp             --GC--TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTST
T ss_pred             --hh--hhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccc
Confidence              11  235688888875432 23333333333433    356999999999974

>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=1.9e-05  Score=72.03  Aligned_cols=128  Identities=19%  Similarity=0.214  Sum_probs=67.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|||||||||.|.+..+.....  +..+..+....+.+.+..+.|.      .+.+..+.                 
T Consensus        11 vG~~~vGKTsLi~~l~~~~f~~~~~--~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~-----------------   71 (171)
T d2ew1a1          11 IGNAGVGKTCLVRRFTQGLFPPGQG--ATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSIT-----------------   71 (171)
T ss_dssp             EESTTSSHHHHHHHHHHSSCCTTCC--CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH-----------------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCccc--ccccceEEEEEEEECCEEEEEEEEECCCchhhHHHH-----------------
Confidence            9999999999999999876544322  2233444444555554444443      11222221                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcch---HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLD---LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lD---I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       ..  .+.+  .++++++...+. ..+..+.   ..+.+.....++++.|.+|+|.....+.  ....+.+..+.+++.+
T Consensus        72 -~~--~~~~--~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v--~~~~~~~~~~~~~~~~  144 (171)
T d2ew1a1          72 -QS--YYRS--ANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREV--SQQRAEEFSEAQDMYY  144 (171)
T ss_dssp             -GG--GSTT--CSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSS--CHHHHHHHHHHHTCCE
T ss_pred             -HH--HHhc--cceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccch--hhhHHHHHHHhCCCEE
Confidence             11  1222  356666665432 2222222   1122222356789999999996532211  1122333344567777


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       145 ~~~S  148 (171)
T d2ew1a1         145 LETS  148 (171)
T ss_dssp             EECC
T ss_pred             EEEc
Confidence            7665

>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=97.75  E-value=4.6e-05  Score=69.47  Aligned_cols=22  Identities=27%  Similarity=0.359  Sum_probs=19.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +|.+|||||||||.|++.++..
T Consensus        10 vG~~~vGKTsli~~~~~~~f~~   31 (168)
T d1u8za_          10 VGSGGVGKSALTLQFMYDEFVE   31 (168)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCS
T ss_pred             ECCCCcCHHHHHHHHHhCCCCc
Confidence            9999999999999998766544

>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=97.74  E-value=5.4e-05  Score=68.50  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=20.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      ||.+|||||||||.|.+.++...
T Consensus         9 vG~~~vGKTsLi~r~~~~~f~~~   31 (167)
T d1kaoa_           9 LGSGGVGKSALTVQFVTGTFIEK   31 (167)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCSC
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCc
Confidence            99999999999999998765544

>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=97.73  E-value=1.9e-05  Score=72.06  Aligned_cols=130  Identities=18%  Similarity=0.151  Sum_probs=67.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ +|.+|||||||||.|.+..+.....++.+.  ......+......+.+.      ...+..+.              
T Consensus         9 ~l-vG~~~vGKTsll~~~~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------------   71 (174)
T d2bmea1           9 LV-IGNAGTGKSCLLHQFIEKKFKDDSNHTIGV--EFGSKIINVGGKYVKLQIWDTAGQERFRSVT--------------   71 (174)
T ss_dssp             EE-EESTTSSHHHHHHHHHHSSCCTTCCCCSEE--EEEEEEEEETTEEEEEEEEEECCSGGGHHHH--------------
T ss_pred             EE-ECCCCcCHHHHHHHHHhCCCCccccccccc--ceeeEEEEecCcceeEEEEECCCchhhhhhH--------------
Confidence            44 999999999999999877654332222221  11111222222222222      11111111              


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC----CCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH----GLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h----~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~  258 (650)
                          +.  ..  ...++.+++...+..    .+...-..+++......+++.|.+|+|.-...+  .....+......++
T Consensus        72 ----~~--~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~--~~~~~~~~~~~~~~  141 (174)
T d2bmea1          72 ----RS--YY--RGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADRE--VTFLEASRFAQENE  141 (174)
T ss_dssp             ----HT--TS--TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCC--SCHHHHHHHHHHTT
T ss_pred             ----HH--Hh--hhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhc--hhhhHHHHHHHhCC
Confidence                11  11  235688888886532    122222333344445679999999999643222  22233334445678


Q ss_pred             CcEEeCC
Q psy8479         259 VHIYEFP  265 (650)
Q Consensus       259 I~if~f~  265 (650)
                      +.++...
T Consensus       142 ~~~~e~S  148 (174)
T d2bmea1         142 LMFLETS  148 (174)
T ss_dssp             CEEEECC
T ss_pred             CEEEEee
Confidence            8888765

>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=97.73  E-value=2.3e-05  Score=71.18  Aligned_cols=23  Identities=35%  Similarity=0.585  Sum_probs=20.2

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      ||.+|||||||||.|.+..+...
T Consensus        10 vG~~~vGKTsli~rl~~~~f~~~   32 (167)
T d1z0ja1          10 LGDTGVGKSSIMWRFVEDSFDPN   32 (167)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCTT
T ss_pred             ECCCCcCHHHHHHHHHhCCCCcc
Confidence            99999999999999998776543

>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=97.71  E-value=2.5e-05  Score=71.55  Aligned_cols=131  Identities=15%  Similarity=0.205  Sum_probs=64.5

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      +.+ ||.+|||||||||.|.+..+........+.+  .....+.+.+..+.+.      .+.+..+.       ..+   
T Consensus         7 i~v-vG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~-------~~~---   73 (175)
T d2f9la1           7 VVL-IGDSGVGKSNLLSRFTRNEFNLESKSTIGVE--FATRSIQVDGKTIKAQIWDTAGQERYRRIT-------SAY---   73 (175)
T ss_dssp             EEE-ESSTTSSHHHHHHHHHHSCCCC---CCCSCE--EEEEEEEETTEEEEEEEEECSSGGGTTCCC-------HHH---
T ss_pred             EEE-ECCCCcCHHHHHHHHHhCCCCCcccccccce--eeeEEEEECCEEEEEEecccCCcHHHHHHH-------HHH---
Confidence            345 9999999999999999876554433333322  2222333443333332      11111110       000   


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHC
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSN  257 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~  257 (650)
                                +.  ..++++++...+.. .+....   ..+.+.....++++.|.+|+|......  ............+
T Consensus        74 ----------~~--~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~--~~~~~~~~~~~~~  139 (175)
T d2f9la1          74 ----------YR--GAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRA--VPTDEARAFAEKN  139 (175)
T ss_dssp             ----------HT--TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCC--SCHHHHHHHHHHT
T ss_pred             ----------hh--ccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeeccccccc--chHHHHHHhhccc
Confidence                      11  13466666664321 121111   112222334579999999999753321  1122233444567


Q ss_pred             CCcEEeCC
Q psy8479         258 GVHIYEFP  265 (650)
Q Consensus       258 ~I~if~f~  265 (650)
                      +..+|...
T Consensus       140 ~~~~~e~S  147 (175)
T d2f9la1         140 NLSFIETS  147 (175)
T ss_dssp             TCEEEECC
T ss_pred             CceEEEEe
Confidence            77888775

>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=97.71  E-value=1.5e-05  Score=73.59  Aligned_cols=104  Identities=14%  Similarity=0.188  Sum_probs=56.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|||||||||.|++..+.....++.+....   ..+.+....+.+.      ...+..+.                 
T Consensus        11 iG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~~---~~~~~~~~~~~~~~~d~~g~~~~~~~~-----------------   70 (183)
T d1mh1a_          11 VGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS---ANVMVDGKPVNLGLWDTAGQEDYDRLR-----------------   70 (183)
T ss_dssp             ECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEEE---EEEEETTEEEEEEEECCCCSGGGTTTG-----------------
T ss_pred             ECCCCCCHHHHHHHHHhCCCCcccccceeecee---eeeeccCcceEEEeecccccccchhhh-----------------
Confidence            999999999999999987765543333332211   1233333333333      11111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcc---hHHHHHHhccCCCeeeeeecccCCCH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSL---DLVCMKKLDSKVNIIPIIAKADTISK  240 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~l---DI~~mk~L~~~vnvIPVItKAD~Lt~  240 (650)
                       ..  .+.  ..|+++++..-+. ..+..+   -...++.....++++.|.+|+|....
T Consensus        71 -~~--~~~--~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~  124 (183)
T d1mh1a_          71 -PL--SYP--QTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD  124 (183)
T ss_dssp             -GG--GCT--TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTC
T ss_pred             -hh--ccc--ccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhh
Confidence             00  122  2468888887543 122222   23334444456799999999997544

>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=97.71  E-value=1.7e-05  Score=74.59  Aligned_cols=25  Identities=16%  Similarity=0.231  Sum_probs=21.2

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      +.+ +|..|+|||||+|.|++.+...
T Consensus         3 V~i-vG~~~~GKTsLl~~l~~~~~~~   27 (207)
T d2fh5b1           3 VLF-VGLCDSGKTLLFVRLLTGQYRD   27 (207)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHHSCCCC
T ss_pred             EEE-ECCCCCCHHHHHHHHHcCCCCc
Confidence            456 9999999999999999876543

>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=97.70  E-value=0.00012  Score=66.40  Aligned_cols=132  Identities=15%  Similarity=0.216  Sum_probs=67.0

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      .+ ||.+||||||||+.|.+..+.....++++  ..+....+...+..+.+.      ...+..+..       .|    
T Consensus         7 ~v-vG~~~vGKTsLi~~~~~~~f~~~~~~t~~--~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~-------~~----   72 (170)
T d1ek0a_           7 VL-LGEAAVGKSSIVLRFVSNDFAENKEPTIG--AAFLTQRVTINEHTVKFEIWDTAGQERFASLAP-------MY----   72 (170)
T ss_dssp             EE-ECSTTSSHHHHHHHHHHSCCCTTCCCCSS--EEEEEEEEEETTEEEEEEEEEECCSGGGGGGHH-------HH----
T ss_pred             EE-ECCCCcCHHHHHHHHHhCCCCcccccccc--ceeeccccccccccccccccccCCchhHHHHHH-------HH----
Confidence            45 99999999999999998776554332222  223323333333334443      222332221       11    


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CCCcchH---HHHHHhccCCCeeeeeecccCCCHHH-HHHHHHHHHHHHHHC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLDL---VCMKKLDSKVNIIPIIAKADTISKSE-LQKFKTNIMTELTSN  257 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI---~~mk~L~~~vnvIPVItKAD~Lt~~E-l~~~K~~I~~~L~~~  257 (650)
                               +.  ..|+++++...+.. .+..+..   ++.+......++++|.+|+|...... ..-....+++..+.+
T Consensus        73 ---------~~--~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~  141 (170)
T d1ek0a_          73 ---------YR--NAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEK  141 (170)
T ss_dssp             ---------HT--TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHH
T ss_pred             ---------Hh--ccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHc
Confidence                     11  24677777765431 1222211   12222334679999999998542110 000111223333456


Q ss_pred             CCcEEeCC
Q psy8479         258 GVHIYEFP  265 (650)
Q Consensus       258 ~I~if~f~  265 (650)
                      ++.+|...
T Consensus       142 ~~~~~e~S  149 (170)
T d1ek0a_         142 GLLFFETS  149 (170)
T ss_dssp             TCEEEECC
T ss_pred             CCEEEEec
Confidence            78888775

>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=97.68  E-value=5.4e-05  Score=69.06  Aligned_cols=23  Identities=30%  Similarity=0.608  Sum_probs=19.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      ||.+|||||||||.|.+.++...
T Consensus        12 vG~~~vGKSSli~~~~~~~~~~~   34 (174)
T d1wmsa_          12 LGDGGVGKSSLMNRYVTNKFDTQ   34 (174)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCC-
T ss_pred             ECCCCCCHHHHHHHHHhCCCCCc
Confidence            99999999999999998765543

>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=97.68  E-value=4.3e-05  Score=69.49  Aligned_cols=129  Identities=17%  Similarity=0.169  Sum_probs=65.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+||||||||+.|.+.++.....++.+  ..+....+......+.+.      ...+..+..       .|+      
T Consensus        12 vG~~~vGKTsLi~~l~~~~f~~~~~~t~~--~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~-------~~~------   76 (170)
T d1r2qa_          12 LGESAVGKSSLVLRFVKGQFHEFQESTIG--AAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAP-------MYY------   76 (170)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCTTCCCCSS--EEEEEEEEEETTEEEEEEEEEECCSGGGGGGHH-------HHH------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCcccccccc--cccccceeeccceEEEEEeccCCCchhhhhhHH-------HHh------
Confidence            99999999999999998765544332222  222211222222222222      122222221       111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCCC----CCcchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGHG----LKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h~----Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       +        ..++++++...+.+.    +...-..+.+.....++++.|.+|+|.-...+.  -...+.+....+++.+
T Consensus        77 -~--------~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v--~~e~~~~~~~~~~~~~  145 (170)
T d1r2qa_          77 -R--------GAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAV--DFQEAQSYADDNSLLF  145 (170)
T ss_dssp             -T--------TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCS--CHHHHHHHHHHTTCEE
T ss_pred             -h--------CcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccc--cHHHHHHHHHhcCCEE
Confidence             1        245777777654321    122223334444567899999999995322111  0112233334567888


Q ss_pred             EeCCC
Q psy8479         262 YEFPT  266 (650)
Q Consensus       262 f~f~~  266 (650)
                      |....
T Consensus       146 ~e~SA  150 (170)
T d1r2qa_         146 METSA  150 (170)
T ss_dssp             EECCT
T ss_pred             EEeeC
Confidence            87763

>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=97.67  E-value=3.1e-05  Score=70.75  Aligned_cols=127  Identities=17%  Similarity=0.229  Sum_probs=66.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|+|||||||.+.+..+.....++.+.  .. ...+.+.+..+.+.      ...+..+.       ..|+      
T Consensus        10 vG~~~vGKTsll~~~~~~~~~~~~~~t~~~--~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~-------~~~~------   73 (169)
T d1x1ra1          10 VGDGGVGKSALTIQFFQKIFVPDYDPTIED--SY-LKHTEIDNQWAILDVLDTAGQEEFSAMR-------EQYM------   73 (169)
T ss_dssp             ECCTTSSHHHHHHHHHHSSCCTTCCTTCCE--EE-EEEEEETTEEEEEEEEECCSCGGGCSSH-------HHHH------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCcccCcceee--cc-ccccccccccccccccccccccccccch-------hhhh------
Confidence            999999999999999987654432222211  11 11233333333333      11222222       1122      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC----CCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH----GLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h----~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       |        ..|+++++...+..    .++..--.+++... ..+++|.|.+|+|.....+..  .+.+.+....+++.
T Consensus        74 -~--------~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~--~e~~~~~~~~~~~~  142 (169)
T d1x1ra1          74 -R--------TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVT--RDQGKEMATKYNIP  142 (169)
T ss_dssp             -H--------HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSC--HHHHHHHHHHHTCC
T ss_pred             -h--------hccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceee--hhhHHHHHHHcCCE
Confidence             1        13577777765421    22222233344433 356899999999965442211  12234444566788


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       143 ~~e~S  147 (169)
T d1x1ra1         143 YIETS  147 (169)
T ss_dssp             EEEEB
T ss_pred             EEEEc
Confidence            88665

>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=97.67  E-value=2.9e-05  Score=70.78  Aligned_cols=127  Identities=17%  Similarity=0.195  Sum_probs=64.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|||||||||.|.+..+.....++.+   ......+.+.+..+.+.      ...+..+.       ..|+      
T Consensus        11 vG~~~vGKTsLi~r~~~~~f~~~~~~t~~---~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~-------~~~~------   74 (171)
T d2erya1          11 VGGGGVGKSALTIQFIQSYFVTDYDPTIE---DSYTKQCVIDDRAARLDILDTAGQEEFGAMR-------EQYM------   74 (171)
T ss_dssp             EECTTSSHHHHHHHHHHSCCCSSCCTTCC---EEEEEEEEETTEEEEEEEEECC----CCHHH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHHhCCCCcccCcccc---cceeeeeeecccccccccccccccccccccc-------cccc------
Confidence            99999999999999998765443222222   12222344444334443      11111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCC----CCCCcchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG----HGLKSLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~----h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +.        .|+.+++...+.    ..+.....++++... ...++|.|.+|+|.-.....  ....+.+..+..++.
T Consensus        75 -~~--------~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v--~~~~~~~~~~~~~~~  143 (171)
T d2erya1          75 -RT--------GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQV--TQEEGQQLARQLKVT  143 (171)
T ss_dssp             -HH--------CSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSS--CHHHHHHHHHHTTCE
T ss_pred             -cc--------cceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccc--hHHHHHHHHHHcCCE
Confidence             11        256666665432    223333334444443 35689999999996322111  111233344567888


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       144 ~~e~S  148 (171)
T d2erya1         144 YMEAS  148 (171)
T ss_dssp             EEECB
T ss_pred             EEEEc
Confidence            77664

>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=97.65  E-value=9.7e-05  Score=66.79  Aligned_cols=128  Identities=20%  Similarity=0.233  Sum_probs=65.0

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|||||||||.|.+..+........+.+  +....+.+.+..+.+.      ...+..+..       .|+      
T Consensus        10 vG~~~vGKTsli~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~-------~~~------   74 (166)
T d1z0fa1          10 IGDMGVGKSCLLHQFTEKKFMADCPHTIGVE--FGTRIIEVSGQKIKLQIWDTAGQERFRAVTR-------SYY------   74 (166)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCSSCTTSCCCC--EEEEEEEETTEEEEEEEEECTTGGGTCHHHH-------HHH------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCccccccccc--ceeEEEEECCEEEEEEEeccCCchhHHHHHH-------HHh------
Confidence            9999999999999999876554332222222  2223344444444443      112222221       111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHHHH-hccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCMKK-LDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~mk~-L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       +        ..++++++...+.. .+..+.  +..++. .....+++.|.+|+|.-....  ...+.+....+..++++
T Consensus        75 -~--------~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~--~~~~~~~~~~~~~~~~~  143 (166)
T d1z0fa1          75 -R--------GAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRD--VTYEEAKQFAEENGLLF  143 (166)
T ss_dssp             -H--------TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCC--SCHHHHHHHHHHTTCEE
T ss_pred             -c--------CCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcc--cHHHHHHHHHHHcCCEE
Confidence             1        13467777765432 111111  222222 234668999999999632211  11223344445667877


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      |...
T Consensus       144 ~e~S  147 (166)
T d1z0fa1         144 LEAS  147 (166)
T ss_dssp             EECC
T ss_pred             EEEe
Confidence            7765

>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=97.64  E-value=4.2e-05  Score=69.17  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=20.2

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|||||||||.|.+..+..
T Consensus         6 ~l-iG~~~vGKSsLi~rl~~~~~~~   29 (164)
T d1z2aa1           6 VV-VGNGAVGKSSMIQRYCKGIFTK   29 (164)
T ss_dssp             EE-ECSTTSSHHHHHHHHHHCCCCC
T ss_pred             EE-ECCCCcCHHHHHHHHHhCCCCc
Confidence            45 9999999999999999765544

>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=97.61  E-value=3.3e-05  Score=69.99  Aligned_cols=131  Identities=12%  Similarity=0.096  Sum_probs=64.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHH
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      +.+ +|.+|||||||||.|.+..+.....++.+.  .+ ...+.+.+..+.|.      ...+..+.             
T Consensus         7 v~l-iG~~~vGKTsLl~~~~~~~f~~~~~~t~~~--~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~-------------   69 (167)
T d1xtqa1           7 IAI-LGYRSVGKSSLTIQFVEGQFVDSYDPTIEN--TF-TKLITVNGQEYHLQLVDTAGQDEYSIFP-------------   69 (167)
T ss_dssp             EEE-EESTTSSHHHHHHHHHHSCCCSCCCSSCCE--EE-EEEEEETTEEEEEEEEECCCCCTTCCCC-------------
T ss_pred             EEE-ECCCCcCHHHHHHHHHhCCCCcccCcceec--cc-ceEEecCcEEEEeeeccccccccccccc-------------
Confidence            344 999999999999999976654432222221  11 12233433333333      11111111             


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHH
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTS  256 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~  256 (650)
                           ..  .+.  ..++++++...+.. .+..+.   .++++.+. ..++++.|.+|+|.....+..  .+.+++..+.
T Consensus        70 -----~~--~~~--~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~--~~~~~~~a~~  138 (167)
T d1xtqa1          70 -----QT--YSI--DINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVIS--YEEGKALAES  138 (167)
T ss_dssp             -----GG--GTS--SCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSC--HHHHHHHHHH
T ss_pred             -----ch--hhh--hhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchh--HHHHHHHHHH
Confidence                 11  122  35677777764321 122211   12334443 357999999999974321110  1122223345


Q ss_pred             CCCcEEeCCC
Q psy8479         257 NGVHIYEFPT  266 (650)
Q Consensus       257 ~~I~if~f~~  266 (650)
                      +++.+|....
T Consensus       139 ~~~~~~e~Sa  148 (167)
T d1xtqa1         139 WNAAFLESSA  148 (167)
T ss_dssp             HTCEEEECCT
T ss_pred             cCCEEEEEec
Confidence            5777776653

>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=2.2e-05  Score=71.89  Aligned_cols=127  Identities=19%  Similarity=0.214  Sum_probs=64.4

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|||||||||.|.+..+.....+..   .......+.+.+..+.|.      ...+..+.       ..|+      
T Consensus        12 vG~~~vGKTsLi~r~~~~~f~~~~~~t~---~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~-------~~~~------   75 (173)
T d2fn4a1          12 VGGGGVGKSALTIQFIQSYFVSDYDPTI---EDSYTKICSVDGIPARLDILDTAGQEEFGAMR-------EQYM------   75 (173)
T ss_dssp             EECTTSSHHHHHHHHHHSSCCSSCCTTC---CEEEEEEEEETTEEEEEEEEECCCTTTTSCCH-------HHHH------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCccccccc---ccceeeEeccCCeeeeeecccccccccccccc-------chhh------
Confidence            9999999999999999876554322221   111122333333333333      11111111       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCC---cchHHHHHHhc-cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLK---SLDLVCMKKLD-SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk---~lDI~~mk~L~-~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                       +        ..|+++++...+.. .+.   .....+++... ..+++|.|.+|+|.-...+  .....+......+++.
T Consensus        76 -~--------~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~--~~~~~~~~~~~~~~~~  144 (173)
T d2fn4a1          76 -R--------AGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQ--VPRSEASAFGASHHVA  144 (173)
T ss_dssp             -H--------HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCC--SCHHHHHHHHHHTTCE
T ss_pred             -c--------cceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccc--cchhhhhHHHHhcCCE
Confidence             1        13677777765421 121   21222333332 4679999999999642211  1112334444567888


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       145 ~~e~S  149 (173)
T d2fn4a1         145 YFEAS  149 (173)
T ss_dssp             EEECB
T ss_pred             EEEEe
Confidence            77665

>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=97.58  E-value=3.2e-05  Score=69.96  Aligned_cols=100  Identities=18%  Similarity=0.279  Sum_probs=53.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec-----c-hhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK-----E-DSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~-----~-~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      +|.+|+|||||||.|.+.++....    .+|..++...+..  +++.+.     . ..+....       ..|+      
T Consensus         8 ~G~~~~GKTsLl~~l~~~~~~~~~----~~T~~~~~~~~~~--~~~~~~i~D~~G~~~~~~~~-------~~~~------   68 (164)
T d1zd9a1           8 VGLQYSGKTTFVNVIASGQFNEDM----IPTVGFNMRKITK--GNVTIKLWDIGGQPRFRSMW-------ERYC------   68 (164)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCSC----CCCCSEEEEEEEE--TTEEEEEEEECCSHHHHTTH-------HHHH------
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCcc----cccceeeeeeeee--eeEEEEEeeccccccccccc-------cccc------
Confidence            999999999999999887654322    2233343333322  233332     1 1111110       1111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                               ...|+.+|++..+.+ .+...-..+.+.+.    ..++++.|.+|.|...
T Consensus        69 ---------~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~  118 (164)
T d1zd9a1          69 ---------RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG  118 (164)
T ss_dssp             ---------TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT
T ss_pred             ---------cccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccch
Confidence                     135678888875432 23333233333333    3568999999999753

>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=97.57  E-value=3e-05  Score=70.17  Aligned_cols=127  Identities=17%  Similarity=0.220  Sum_probs=63.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|+|||||||.|++..+.....++.+.+.  ....+.+.+..+.+.      .+.+..+..       .|+      
T Consensus         8 vG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~--~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~-------~~~------   72 (166)
T d1g16a_           8 IGDSGVGKSCLLVRFVEDKFNPSFITTIGIDF--KIKTVDINGKKVKLQIWDTAGQERFRTITT-------AYY------   72 (166)
T ss_dssp             EESTTSSHHHHHHHHHHCCCCC-------CCE--EEEEEESSSCEEEEEEECCTTGGGTSCCCH-------HHH------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCccCCccceeE--EEEEEEECCEEEEEEEEECCCchhhHHHHH-------HHH------
Confidence            99999999999999998765443222333222  222344444444443      111222110       111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcE
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHI  261 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~i  261 (650)
                       +        ..+++++++..+.. .+..+.   ..+.+......+++++.+|.|........   ..+.+....+++++
T Consensus        73 -~--------~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~~~~~---~~~~~~~~~~~~~~  140 (166)
T d1g16a_          73 -R--------GAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRVVTA---DQGEALAKELGIPF  140 (166)
T ss_dssp             -T--------TEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCCSCH---HHHHHHHHHHTCCE
T ss_pred             -h--------cCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhhhhhH---HHHHHHHHhcCCeE
Confidence             1        24678888876532 111222   11222222355788888888876433222   23333445568888


Q ss_pred             EeCC
Q psy8479         262 YEFP  265 (650)
Q Consensus       262 f~f~  265 (650)
                      +...
T Consensus       141 ~~~S  144 (166)
T d1g16a_         141 IESS  144 (166)
T ss_dssp             EECB
T ss_pred             EEEC
Confidence            8765

>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=97.55  E-value=4.2e-05  Score=70.05  Aligned_cols=107  Identities=18%  Similarity=0.165  Sum_probs=58.0

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      -+ +|.+||||||||+.|.+..+.....++.+   ......+.+....+.+.      ...+..+.              
T Consensus         6 vv-vG~~~vGKTsLi~~~~~~~f~~~~~~t~~---~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~--------------   67 (177)
T d1kmqa_           6 VI-VGDGACGKTCLLIVNSKDQFPEVYVPTVF---ENYVADIEVDGKQVELALWDTAGLEDYDRLR--------------   67 (177)
T ss_dssp             EE-EESTTSSHHHHHHHHHHSCCCSSCCCCSE---EEEEEEEEETTEEEEEEEEEECCSGGGTTTG--------------
T ss_pred             EE-ECCCCcCHHHHHHHHHhCCCCCCcCCcee---eeccccccccccceeeeccccCccchhcccc--------------
Confidence            35 99999999999999998765443222211   11111223333333333      11222211              


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CC---CcchHHHHHHhccCCCeeeeeecccCCCHH
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GL---KSLDLVCMKKLDSKVNIIPIIAKADTISKS  241 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~L---k~lDI~~mk~L~~~vnvIPVItKAD~Lt~~  241 (650)
                          +.  .+.+  .|+++++...+.. .+   ...-+..++.....++++.|.+|+|.....
T Consensus        68 ----~~--~~~~--~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~  122 (177)
T d1kmqa_          68 ----PL--SYPD--TDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDE  122 (177)
T ss_dssp             ----GG--GCTT--CSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCH
T ss_pred             ----hh--hccc--chhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchh
Confidence                11  1222  3677777765431 12   222244455555678999999999987544

>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=97.54  E-value=4.7e-05  Score=68.87  Aligned_cols=27  Identities=11%  Similarity=0.019  Sum_probs=21.6

Q ss_pred             CCceee-cCCCCCChhhHhhhhhCcCCC
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~~~~~  132 (650)
                      +++... ||.+|+|||||||.|.+.+..
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl~~~~~~   41 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQFSMNEVV   41 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHTTSCE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            344344 999999999999999997654

>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=97.53  E-value=0.00099  Score=61.88  Aligned_cols=86  Identities=15%  Similarity=0.157  Sum_probs=54.2

Q ss_pred             eeEEEEEEcCCCCCC-CcchHHHHHHhcc--CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCC---CcEEeCCC-Cch
Q psy8479         197 IHVCLYFICPTGHGL-KSLDLVCMKKLDS--KVNIIPIIAKADTISKSELQKFKTNIMTELTSNG---VHIYEFPT-DDE  269 (650)
Q Consensus       197 VH~cLYfI~ps~h~L-k~lDI~~mk~L~~--~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~---I~if~f~~-d~~  269 (650)
                      .++++.++... .+. ...-.+.+..+..  .-++|++++|.|.....+.......+.+.+...+   +.+++... ..+
T Consensus       102 ~d~~ilvvda~-~g~~~~~t~e~~~~~~~~~~~~iiv~inK~D~~d~~~~~~~~~~~~~~~~~~~~~~~~iIpiSA~~G~  180 (195)
T d1kk1a3         102 MDGAILVIAAN-EPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISALHGA  180 (195)
T ss_dssp             CSEEEEEEETT-SCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTB
T ss_pred             ccccccccchh-hhhhhhhhHHHHHHHHHhcCccceeeeecccchhhHHHHHHHHHHHHHhccccCCCCeEEEEECCCCC
Confidence            34667777654 343 4444444544442  2368999999999999988888888888887654   44554432 233


Q ss_pred             hHHHHHHHhhhccCCC
Q psy8479         270 TMSDVNAAMTIFSSIP  285 (650)
Q Consensus       270 ~~~~~~~~~~~~~~~P  285 (650)
                      ...++.+.+...  +|
T Consensus       181 ni~~Ll~~I~~~--iP  194 (195)
T d1kk1a3         181 NIDVLVKAIEDF--IP  194 (195)
T ss_dssp             SHHHHHHHHHHH--SC
T ss_pred             CHHHHHHHHHHH--Cc
Confidence            355566666655  66

>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=97.53  E-value=4.2e-05  Score=71.39  Aligned_cols=131  Identities=19%  Similarity=0.137  Sum_probs=68.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      ||..|||||||||.|++..+.....++.+.+..  ...+.+.+..+.+.   ...+..        |       ..+...
T Consensus        12 vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~--~~~i~~~~~~~~l~i~Dt~G~e~--------~-------~~~~~~   74 (194)
T d2bcgy1          12 IGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFK--IKTVELDGKTVKLQIWDTAGQER--------F-------RTITSS   74 (194)
T ss_dssp             EESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEE--EEEEEETTEEEEEEEECCTTTTT--------T-------TCCCGG
T ss_pred             ECCCCcCHHHHHHHHhhCCCCCCcCCccceeEE--EEEEEEeeEEEEEEEEECCCchh--------h-------HHHHHH
Confidence            999999999999999977654433333333322  12333333334433   111100        0       000000


Q ss_pred             ccccCCceeeEEEEEEcCCCCC-CCcch---HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeC
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHG-LKSLD---LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEF  264 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~-Lk~lD---I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f  264 (650)
                        .+  ...|++++++.++... +....   ..+.+.....++++.|.+|+|.......  ............++.+|..
T Consensus        75 --~~--~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~e~  148 (194)
T d2bcgy1          75 --YY--RGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVV--EYDVAKEFADANKMPFLET  148 (194)
T ss_dssp             --GG--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCS--CHHHHHHHHHHTTCCEEEC
T ss_pred             --Hh--ccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccch--hHHHHhhhhhccCcceEEE
Confidence              11  2357899999876321 11111   1122334456799999999997643221  1223334445677888776


Q ss_pred             C
Q psy8479         265 P  265 (650)
Q Consensus       265 ~  265 (650)
                      .
T Consensus       149 S  149 (194)
T d2bcgy1         149 S  149 (194)
T ss_dssp             C
T ss_pred             e
Confidence            5

>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=97.52  E-value=6.4e-05  Score=69.36  Aligned_cols=105  Identities=12%  Similarity=0.176  Sum_probs=57.7

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEE  182 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE  182 (650)
                      -| +|.+||||||||+.+....+.....++.   .......+.+.+..+.+.      ...+..+.              
T Consensus         6 vl-iG~~~vGKTsli~r~~~~~f~~~~~~t~---~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------------   67 (179)
T d1m7ba_           6 VV-VGDSQCGKTALLHVFAKDCFPENYVPTV---FENYTASFEIDTQRIELSLWDTSGSPYYDNVR--------------   67 (179)
T ss_dssp             EE-EESTTSSHHHHHHHHHHSCCCSSCCCCS---EEEEEEEEECSSCEEEEEEEEECCSGGGTTTG--------------
T ss_pred             EE-ECCCCcCHHHHHHHHHhCCCCCccCCce---eecccccccccceEEeeccccccccccccccc--------------
Confidence            35 9999999999999999876644322221   122223344444444443      11111111              


Q ss_pred             HhhhhcccccCCceeeEEEEEEcCCCC-CCCc---chHHHHHHhccCCCeeeeeecccCCC
Q psy8479         183 LKIKRSLNTYHDNRIHVCLYFICPTGH-GLKS---LDLVCMKKLDSKVNIIPIIAKADTIS  239 (650)
Q Consensus       183 ~~i~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~---lDI~~mk~L~~~vnvIPVItKAD~Lt  239 (650)
                          +.  .+.  ..|+++++..-+.. .+..   .-...++.....+++|.|.+|+|...
T Consensus        68 ----~~--~~~--~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~  120 (179)
T d1m7ba_          68 ----PL--SYP--DSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRT  120 (179)
T ss_dssp             ----GG--GCT--TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGG
T ss_pred             ----cc--hhh--hhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccc
Confidence                11  122  34678887765432 1122   12333444556789999999999743

>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=97.52  E-value=6.5e-05  Score=69.13  Aligned_cols=24  Identities=29%  Similarity=0.591  Sum_probs=20.5

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~  133 (650)
                      .+ +|.+|||||||||.|++.++..
T Consensus         6 ~v-vG~~~vGKSSLi~~l~~~~f~~   29 (184)
T d1vg8a_           6 II-LGDSGVGKTSLMNQYVNKKFSN   29 (184)
T ss_dssp             EE-ECCTTSSHHHHHHHHHHSCCCS
T ss_pred             EE-ECCCCcCHHHHHHHHHhCCCCC
Confidence            45 9999999999999999876544

>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=97.51  E-value=7.6e-05  Score=67.79  Aligned_cols=128  Identities=14%  Similarity=0.220  Sum_probs=64.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCC-CCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTP-SPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELK  184 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~-s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~  184 (650)
                      ||.+|||||||||.|.+..+.... ..+.+  ..+....+.+.+..+.|.      .+.+..+.                
T Consensus        12 vG~~~vGKTsli~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~----------------   73 (170)
T d2g6ba1          12 VGDSGVGKTCLLVRFKDGAFLAGTFISTVG--IDFRNKVLDVDGVKVKLQMWDTAGQERFRSVT----------------   73 (170)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCCCCCCCCCS--CEEEEEEEEETTEEEEEEEEECCCC-----------------------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCcccccceee--eeeEEEEEEecCcEEEEEEEECCCchhhHHHH----------------
Confidence            999999999999999887654321 22222  223222333333334443      11111111                


Q ss_pred             hhhcccccCCceeeEEEEEEcCCCCC-CCcch---HHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCc
Q psy8479         185 IKRSLNTYHDNRIHVCLYFICPTGHG-LKSLD---LVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVH  260 (650)
Q Consensus       185 i~R~~~~~~D~RVH~cLYfI~ps~h~-Lk~lD---I~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~  260 (650)
                            ...-...+++++++..+... +..+.   ....+......++++|.+|.|.....+..  .+.+....+.++++
T Consensus        74 ------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~--~~~~~~~~~~~~~~  145 (170)
T d2g6ba1          74 ------HAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVK--REDGEKLAKEYGLP  145 (170)
T ss_dssp             -------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSC--HHHHHHHHHHHTCC
T ss_pred             ------HHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhccccc--HHHHHHHHHHcCCE
Confidence                  01112346788888754311 11111   12223334566899999999976532211  12233334556788


Q ss_pred             EEeCC
Q psy8479         261 IYEFP  265 (650)
Q Consensus       261 if~f~  265 (650)
                      +|...
T Consensus       146 ~~e~S  150 (170)
T d2g6ba1         146 FMETS  150 (170)
T ss_dssp             EEECC
T ss_pred             EEEEe
Confidence            88775

>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=97.51  E-value=0.0001  Score=66.90  Aligned_cols=25  Identities=24%  Similarity=0.502  Sum_probs=21.2

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      .+ ||.+|||||||||.|++.++...
T Consensus         6 ~~-vG~~~vGKSsLi~~~~~~~~~~~   30 (175)
T d1ky3a_           6 II-LGDSGVGKTSLMHRYVNDKYSQQ   30 (175)
T ss_dssp             EE-ECCTTSSHHHHHHHHHHSCCCTT
T ss_pred             EE-ECCCCcCHHHHHHHHHcCCCCCc
Confidence            45 99999999999999998776554

>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=97.50  E-value=7.9e-05  Score=67.75  Aligned_cols=20  Identities=25%  Similarity=0.184  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|||||||||.|.+...
T Consensus         7 vG~~~vGKTsLi~~~~~~~~   26 (168)
T d2gjsa1           7 LGAPGVGKSALARIFGGVED   26 (168)
T ss_dssp             ECCTTSSHHHHHHHHHTC--
T ss_pred             ECCCCcCHHHHHHHHhCCcc
Confidence            99999999999999998654

>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=97.48  E-value=0.00016  Score=65.31  Aligned_cols=123  Identities=15%  Similarity=0.139  Sum_probs=62.7

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+||||||||+.|.+..+.....++.+.  ......+.+.+..+.+.      ...+..+.                 
T Consensus         9 vG~~~vGKTsLi~r~~~~~f~~~~~~t~~~--~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~-----------------   69 (167)
T d1z08a1           9 LGEGCVGKTSLVLRYCENKFNDKHITTLGA--SFLTKKLNIGGKRVNLAIWDTAGQERFHALG-----------------   69 (167)
T ss_dssp             ECCTTSCHHHHHHHHHHCCCCSSCCCCCSC--EEEEEEEESSSCEEEEEEEECCCC------------------------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCccccccccc--chheeeeccCCccceeeeeccCCcceecccc-----------------
Confidence            999999999999999987655432222222  22112222222223332      11111111                 


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch--HHHH-HHhccCCCeeeeeecccCC-----CHHHHHHHHHHHHHHHHH
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD--LVCM-KKLDSKVNIIPIIAKADTI-----SKSELQKFKTNIMTELTS  256 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD--I~~m-k~L~~~vnvIPVItKAD~L-----t~~El~~~K~~I~~~L~~  256 (650)
                       +.    .=...|+++++...+.. .+..+.  +..+ .......+++.|.+|+|..     +.+|.       .+..+.
T Consensus        70 -~~----~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~-------~~~a~~  137 (167)
T d1z08a1          70 -PI----YYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEA-------ESYAES  137 (167)
T ss_dssp             -CC----SSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHH-------HHHHHH
T ss_pred             -hh----hccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHH-------HHHHHH
Confidence             11    11235688888876532 122221  1112 2223566888889999964     44443       334455


Q ss_pred             CCCcEEeCC
Q psy8479         257 NGVHIYEFP  265 (650)
Q Consensus       257 ~~I~if~f~  265 (650)
                      +++.+|...
T Consensus       138 ~~~~~~e~S  146 (167)
T d1z08a1         138 VGAKHYHTS  146 (167)
T ss_dssp             TTCEEEEEB
T ss_pred             cCCeEEEEe
Confidence            678877664

>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=97.48  E-value=4.1e-05  Score=70.19  Aligned_cols=126  Identities=17%  Similarity=0.231  Sum_probs=67.1

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+|+|||||||.|.+..+........+  ..+....+.+....+.+.      ...+..+..       .|+      
T Consensus        13 vG~~~vGKTsli~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~-------~~~------   77 (177)
T d1x3sa1          13 IGESGVGKSSLLLRFTDDTFDPELAATIG--VDFKVKTISVDGNKAKLAIWDTAGQERFRTLTP-------SYY------   77 (177)
T ss_dssp             ECSTTSSHHHHHHHHHHSCCCTTCCCCCS--EEEEEEEEEETTEEEEEEEEEECSSGGGCCSHH-------HHH------
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCcccccee--ecceeEEEEEeccccEEEEEECCCchhhHHHHH-------HHH------
Confidence            99999999999999998765444333322  233223344443333333      122222211       111      


Q ss_pred             hhcccccCCceeeEEEEEEcCCC-CCCCcchHHHHHHhc-----cCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTG-HGLKSLDLVCMKKLD-----SKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGV  259 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~mk~L~-----~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I  259 (650)
                               ...++++|++..+. ..+... ..++..+.     ...+++.|.+|.|.....   -....+++..+.+++
T Consensus        78 ---------~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~---v~~~~~~~~~~~~~~  144 (177)
T d1x3sa1          78 ---------RGAQGVILVYDVTRRDTFVKL-DNWLNELETYCTRNDIVNMLVGNKIDKENRE---VDRNEGLKFARKHSM  144 (177)
T ss_dssp             ---------TTCCEEEEEEETTCHHHHHTH-HHHHHHHTTCCSCSCCEEEEEEECTTSSSCC---SCHHHHHHHHHHTTC
T ss_pred             ---------hcCCEEEEEEECCCccccccc-hhhhhhhcccccccceeeEEEeecccccccc---ccHHHHHHHHHHCCC
Confidence                     12457888887543 122222 22333332     234777888999976432   122334455667888


Q ss_pred             cEEeCC
Q psy8479         260 HIYEFP  265 (650)
Q Consensus       260 ~if~f~  265 (650)
                      .+|...
T Consensus       145 ~~~e~S  150 (177)
T d1x3sa1         145 LFIEAS  150 (177)
T ss_dssp             EEEECC
T ss_pred             EEEEEe
Confidence            888775

>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=97.48  E-value=2e-05  Score=72.03  Aligned_cols=43  Identities=7%  Similarity=0.066  Sum_probs=28.2

Q ss_pred             eeEEEEEEcCCCC-CCCcchHHHHHHhc----cCCCeeeeeecccCCC
Q psy8479         197 IHVCLYFICPTGH-GLKSLDLVCMKKLD----SKVNIIPIIAKADTIS  239 (650)
Q Consensus       197 VH~cLYfI~ps~h-~Lk~lDI~~mk~L~----~~vnvIPVItKAD~Lt  239 (650)
                      .++++|++..+.+ .+..+...+...+.    ...+++.|++|+|...
T Consensus        80 ~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~  127 (173)
T d1e0sa_          80 TQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD  127 (173)
T ss_dssp             CCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             cceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccc
Confidence            5688898886542 33434444444444    3569999999999753

>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=97.47  E-value=7.1e-05  Score=71.25  Aligned_cols=61  Identities=13%  Similarity=0.175  Sum_probs=45.6

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCC-eeeeeecccCCCHHH-HHHHHHHHHHHHHHCC
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVN-IIPIIAKADTISKSE-LQKFKTNIMTELTSNG  258 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vn-vIPVItKAD~Lt~~E-l~~~K~~I~~~L~~~~  258 (650)
                      .++++.+|... .|+++.+.+.+..+.. .++ +|.+|+|.|.+...+ +..+++.|++.|...+
T Consensus        91 aD~avlVvda~-~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~  154 (204)
T d2c78a3          91 MDGAILVVSAA-DGPMPQTREHILLARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE  154 (204)
T ss_dssp             CSSEEEEEETT-TCCCHHHHHHHHHHHHTTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEEECC-CCCcHHHHHHHHHHHHcCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcC
Confidence            45678888764 7899999998888875 565 677899999986544 4566777877776643

>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=97.46  E-value=0.00015  Score=68.78  Aligned_cols=62  Identities=19%  Similarity=0.298  Sum_probs=45.6

Q ss_pred             eeeEEEEEEcCCCCCCCcchHHHHHHhcc-CC-CeeeeeecccCCCHHHH-HHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGHGLKSLDLVCMKKLDS-KV-NIIPIIAKADTISKSEL-QKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt~~El-~~~K~~I~~~L~~~~  258 (650)
                      ..++++..|... .|+++.+.+.+..+.. .+ ++|++++|.|.+..++. ...++.|+..|...+
T Consensus        89 ~aD~allVVda~-~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~  153 (196)
T d1d2ea3          89 PLDGCILVVAAN-DGPMPQTREHLLLARQIGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFG  153 (196)
T ss_dssp             CCSEEEEEEETT-TCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTT
T ss_pred             hcCeEEEEEEcC-CCCchhHHHHHHHHHHhcCCcEEEEEecccccccHHHHHHHHHHHHHHHHHhC
Confidence            356888888765 6899999888888765 44 78999999999875553 446667777766543

>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=97.42  E-value=0.00021  Score=65.02  Aligned_cols=22  Identities=32%  Similarity=0.524  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ||.+|||||||||.|.+.++..
T Consensus         9 vG~~~vGKTsli~r~~~~~~~~   30 (173)
T d2a5ja1           9 IGDTGVGKSCLLLQFTDKRFQP   30 (173)
T ss_dssp             ESSTTSSHHHHHHHHHHSCCCC
T ss_pred             ECCCCcCHHHHHHHHhcCCCCC
Confidence            9999999999999999876544

>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=97.34  E-value=0.00011  Score=70.71  Aligned_cols=43  Identities=14%  Similarity=0.208  Sum_probs=36.8

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCCCH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTISK  240 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~Lt~  240 (650)
                      .+++++++... .++++.+...++.+. ..+|+|.|++|.|.+..
T Consensus        94 ~D~~ilVvda~-~g~~~~~~~~~~~~~~~~~p~iivlNK~D~~~~  137 (227)
T d1g7sa4          94 ADLAILIVDIN-EGFKPQTQEALNILRMYRTPFVVAANKIDRIHG  137 (227)
T ss_dssp             CSEEEEEEETT-TCCCHHHHHHHHHHHHTTCCEEEEEECGGGSTT
T ss_pred             cceEEEEEecc-cCcccchhHHHHHhhcCCCeEEEEEECccCCCc
Confidence            57888888865 799999999999998 46799999999998753

>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=97.34  E-value=5.9e-05  Score=66.51  Aligned_cols=25  Identities=20%  Similarity=0.108  Sum_probs=21.3

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      .+ +|++|+|||||||.|++.++..+
T Consensus         4 vl-vG~~~vGKSsLi~~l~~~~~~~~   28 (160)
T d1r8sa_           4 LM-VGLDAAGKTTILYKLKLGEIVTT   28 (160)
T ss_dssp             EE-ECSTTSSHHHHHHHHHHHCSSCC
T ss_pred             EE-ECCCCCCHHHHHHHHhcCCCCcc
Confidence            35 99999999999999998876544

>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=97.33  E-value=4.5e-05  Score=74.26  Aligned_cols=27  Identities=19%  Similarity=0.179  Sum_probs=22.1

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      -..| +|.||||||||||+|.+.....+
T Consensus        97 t~~~-~G~SGVGKSTLiN~L~~~~~~~T  123 (225)
T d1u0la2          97 ISTM-AGLSGVGKSSLLNAINPGLKLRV  123 (225)
T ss_dssp             EEEE-ECSTTSSHHHHHHHHSTTCCCC-
T ss_pred             eEEE-ECCCCCCHHHHHHhhcchhhhhc
Confidence            3456 99999999999999998766554

>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=97.33  E-value=0.0001  Score=64.54  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=20.3

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCC
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~  132 (650)
                      .+ ||++|+|||||||.|.+.++.
T Consensus         4 ~l-iG~~nvGKSSLln~l~~~~~~   26 (166)
T d2qtvb1           4 LF-LGLDNAGKTTLLHMLKNDRLA   26 (166)
T ss_dssp             EE-ECSTTSSHHHHHHHHHHSCCC
T ss_pred             EE-ECCCCCCHHHHHHHHhCCCCC
Confidence            45 999999999999999998754

>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=97.31  E-value=0.00021  Score=64.48  Aligned_cols=102  Identities=18%  Similarity=0.200  Sum_probs=54.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHHHHhh
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQEELKI  185 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~eE~~i  185 (650)
                      ||.+||||||||+.|....+.....++.+.   .....+.+....+.+.      ...+..+.       ..|+.     
T Consensus         9 vG~~~vGKTsli~r~~~~~f~~~~~~t~~~---~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~-------~~~~~-----   73 (167)
T d1c1ya_           9 LGSGGVGKSALTVQFVQGIFVEKYDPTIED---SYRKQVEVDCQQCMLEILDTAGTEQFTAMR-------DLYMK-----   73 (167)
T ss_dssp             ECSTTSSHHHHHHHHHHCCCCCSCCCCSEE---EEEEEEESSSCEEEEEEEEECSSCSSTTHH-------HHHHH-----
T ss_pred             ECCCCCCHHHHHHHHHcCCCCCccCCcccc---ccceeEEeeeeEEEeccccccCcccccccc-------ccccc-----
Confidence            999999999999999987755432222211   1111223333334333      22233332       12221     


Q ss_pred             hhcccccCCceeeEEEEEEcCCCC-CCCcch---HHHHHHhc-cCCCeeeeeecccCC
Q psy8479         186 KRSLNTYHDNRIHVCLYFICPTGH-GLKSLD---LVCMKKLD-SKVNIIPIIAKADTI  238 (650)
Q Consensus       186 ~R~~~~~~D~RVH~cLYfI~ps~h-~Lk~lD---I~~mk~L~-~~vnvIPVItKAD~L  238 (650)
                                ..|+++++...+.+ .+..+.   ..+++... ..+++|.|.+|+|.-
T Consensus        74 ----------~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~  121 (167)
T d1c1ya_          74 ----------NGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLE  121 (167)
T ss_dssp             ----------HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCG
T ss_pred             ----------ccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcc
Confidence                      13678887775432 222222   22333222 467999999999964

>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=97.28  E-value=0.0001  Score=67.27  Aligned_cols=130  Identities=11%  Similarity=0.192  Sum_probs=62.8

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcE--EEEEEEEEeeCCceeecchhHHHHHHHHHHHHHHHHHHHHhhhhcc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSV--KLKAHTYELQENNVKLKEDSFKSIVDYIDNQFEAYLQEELKIKRSL  189 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~--~I~~~~~~l~e~g~~L~~~~w~~Ii~yI~~qf~~yL~eE~~i~R~~  189 (650)
                      ||.+|||||||||.|++..+....    .+|+  .+....+.+.+..+.+.  -|..--.   ..       ...+.+. 
T Consensus         9 vG~~~vGKTsli~~~~~~~f~~~~----~~Ti~~~~~~~~~~~~~~~~~l~--i~D~~g~---~~-------~~~~~~~-   71 (170)
T d1i2ma_           9 VGDGGTGKTTFVKRHLTGEFEKKY----VATLGVEVHPLVFHTNRGPIKFN--VWDTAGQ---EK-------FGGLRDG-   71 (170)
T ss_dssp             EECTTSSHHHHHHTTC-----CCE----EEETTEEEEEEEECBTTCCEEEE--EEECTTH---HH-------HSSCGGG-
T ss_pred             ECCCCcCHHHHHHHHHhCCCCccc----ccceecccccccccccccccccc--ccccccc---cc-------cceecch-
Confidence            999999999999999987644321    1222  22222333333334443  1110000   00       0011111 


Q ss_pred             cccCCceeeEEEEEEcCCC-CCCCcchHHH--HHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEeCC
Q psy8479         190 NTYHDNRIHVCLYFICPTG-HGLKSLDLVC--MKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYEFP  265 (650)
Q Consensus       190 ~~~~D~RVH~cLYfI~ps~-h~Lk~lDI~~--mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~f~  265 (650)
                       .+.  ..|+++++...+. ..+..+.-.+  +......++++.|.+|+|.-.....    .........+++.+|...
T Consensus        72 -~~~--~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~----~~~~~~~~~~~~~~~e~S  143 (170)
T d1i2ma_          72 -YYI--QAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVK----AKSIVFHRKKNLQYYDIS  143 (170)
T ss_dssp             -GTT--TCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSCSCCT----TTSHHHHSSCSSEEEEEB
T ss_pred             -hcc--cccchhhccccccccccchhHHHHHHHhhccCCCceeeecchhhhhhhhhh----hHHHHHHHHcCCEEEEEe
Confidence             122  2467777776543 2344433222  2223457899999999997543211    112234455777777654

>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=97.27  E-value=0.0001  Score=67.81  Aligned_cols=21  Identities=24%  Similarity=0.515  Sum_probs=18.9

Q ss_pred             cCCCCCChhhHhhhhhCcCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFE  132 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~  132 (650)
                      ||.+|||||||||.|.+..+.
T Consensus        11 vG~~~vGKTsLi~~l~~~~~~   31 (186)
T d2f7sa1          11 LGDSGVGKTTFLYRYTDNKFN   31 (186)
T ss_dssp             ESCTTSSHHHHHHHHHCSCCC
T ss_pred             ECCCCcCHHHHHHHHhcCCCC
Confidence            999999999999999987653

>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=97.27  E-value=2.6e-05  Score=71.33  Aligned_cols=130  Identities=18%  Similarity=0.199  Sum_probs=49.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEEEEEEeeCCceeec---chhHHHHHHHHHHHHHHHHHHHHhhhhc
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKAHTYELQENNVKLK---EDSFKSIVDYIDNQFEAYLQEELKIKRS  188 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~~~~~l~e~g~~L~---~~~w~~Ii~yI~~qf~~yL~eE~~i~R~  188 (650)
                      ||.+|+||||||+.|.+..+.....  +..+..+....+.+.+..+.+.   ..++.        .|.       .+...
T Consensus        12 vG~~~vGKTsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e--------~~~-------~~~~~   74 (173)
T d2fu5c1          12 IGDSGVGKTCVLFRFSEDAFNSTFI--STIGIDFKIRTIELDGKRIKLQIWDTAGQE--------RFR-------TITTA   74 (173)
T ss_dssp             ECCCCC----------------CHH--HHHCEEEEEEEEEETTEEEEEEEEEC------------------------CCT
T ss_pred             ECCCCcCHHHHHHHHHhCCCCCccC--ccccceEEEEEEEECCEEEEEEEEECCCch--------hhH-------HHHHH
Confidence            9999999999999999765433211  1112233333344433334443   11110        000       01111


Q ss_pred             ccccCCceeeEEEEEEcCCCCCCCcchH-----HHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEe
Q psy8479         189 LNTYHDNRIHVCLYFICPTGHGLKSLDL-----VCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYE  263 (650)
Q Consensus       189 ~~~~~D~RVH~cLYfI~ps~h~Lk~lDI-----~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~  263 (650)
                        .+.  ..+++++++..+. +..-..+     .+........++++|.+|.|.....+...  ..+.......++++|.
T Consensus        75 --~~~--~~~~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~--~~~~~~~~~~~~~~~e  147 (173)
T d2fu5c1          75 --YYR--GAMGIMLVYDITN-EKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSK--ERGEKLALDYGIKFME  147 (173)
T ss_dssp             --TTT--TCSEEEEEEETTC-HHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCH--HHHHHHHHHHTCEEEE
T ss_pred             --hcc--CCCEEEEEEECCC-hhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHH--HHHHHHHHhcCCEEEE
Confidence              122  2467888887542 1111111     11122234579999999999875433211  2233344556788887


Q ss_pred             CC
Q psy8479         264 FP  265 (650)
Q Consensus       264 f~  265 (650)
                      ..
T Consensus       148 ~S  149 (173)
T d2fu5c1         148 TS  149 (173)
T ss_dssp             CC
T ss_pred             Ee
Confidence            65

>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=97.25  E-value=0.00017  Score=66.75  Aligned_cols=103  Identities=16%  Similarity=0.139  Sum_probs=55.9

Q ss_pred             eeecCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEEEE-EEEEeeCCceeec------chhHHHHHHHHHHHHHHHHHH
Q psy8479         109 AYKPCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKLKA-HTYELQENNVKLK------EDSFKSIVDYIDNQFEAYLQE  181 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I~~-~~~~l~e~g~~L~------~~~w~~Ii~yI~~qf~~yL~e  181 (650)
                      .+ +|.+||||||||+.|++..+.....    +|+.... ..+.+.+..+.+.      ...+..+.             
T Consensus         7 vl-lG~~~vGKTSli~r~~~~~f~~~~~----~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~-------------   68 (191)
T d2ngra_           7 VV-VGDGAVGKTCLLISYTTNKFPSEYV----PTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLR-------------   68 (191)
T ss_dssp             EE-EESTTSSHHHHHHHHHHSCCCSSCC----CCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTG-------------
T ss_pred             EE-ECCCCcCHHHHHHHHHhCCCCCCcC----CceeeecceeEeeCCceeeeeccccccchhhhhhh-------------
Confidence            44 9999999999999999876543322    2222221 1223333333443      11111111             


Q ss_pred             HHhhhhcccccCCceeeEEEEEEcCCCC-CC---CcchHHHHHHhccCCCeeeeeecccCC
Q psy8479         182 ELKIKRSLNTYHDNRIHVCLYFICPTGH-GL---KSLDLVCMKKLDSKVNIIPIIAKADTI  238 (650)
Q Consensus       182 E~~i~R~~~~~~D~RVH~cLYfI~ps~h-~L---k~lDI~~mk~L~~~vnvIPVItKAD~L  238 (650)
                           +.  .+.  ..|+++++...+.. .+   ...-+..++.....++++.|.+|+|..
T Consensus        69 -----~~--~~~--~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~  120 (191)
T d2ngra_          69 -----PL--SYP--QTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLR  120 (191)
T ss_dssp             -----GG--GCT--TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGG
T ss_pred             -----hh--ccc--ccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEecccccc
Confidence                 11  122  34678888775432 22   222234444444678999999999975

>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=97.24  E-value=0.00019  Score=65.72  Aligned_cols=25  Identities=20%  Similarity=0.085  Sum_probs=19.8

Q ss_pred             Cceee-cCCCCCChhhHhhhhhCcCC
Q psy8479         107 GKAYK-PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       107 g~~Fn-VG~SGvGKSTlINtLf~~~~  131 (650)
                      .+.+- ||.+|||||||||.|.+...
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~~~~   42 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQIGEV   42 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCSEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCC
Confidence            33333 99999999999999987543

>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=97.21  E-value=0.0044  Score=57.87  Aligned_cols=86  Identities=15%  Similarity=0.157  Sum_probs=55.0

Q ss_pred             eeEEEEEEcCCCCCC-CcchHHHHHHhcc-CC-CeeeeeecccCCCHHHHHHHHHHHHHHHHHCC---CcEEeCCC-Cch
Q psy8479         197 IHVCLYFICPTGHGL-KSLDLVCMKKLDS-KV-NIIPIIAKADTISKSELQKFKTNIMTELTSNG---VHIYEFPT-DDE  269 (650)
Q Consensus       197 VH~cLYfI~ps~h~L-k~lDI~~mk~L~~-~v-nvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~---I~if~f~~-d~~  269 (650)
                      .++++.++... .++ ...-.+.+..+.. .+ ++|.+++|.|.....+.......+.+.+....   +.++.... ...
T Consensus       110 ad~ailvVda~-~gi~~~~t~e~~~~~~~~~i~~iIV~vNK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~p~ipiSA~~g~  188 (205)
T d2qn6a3         110 MDGAILVVAAN-EPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKI  188 (205)
T ss_dssp             CSEEEEEEETT-SCSSCHHHHHHHHHHHHTTCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTB
T ss_pred             ccccccccccc-ccccchhHHHHHHHHHHcCCceeeeccccCCCccchHHHHHHHHHHHHhccccCCCCeEEEEeCCCCC
Confidence            56788888765 455 4444555655553 33 78889999999999988888788877776543   44444332 222


Q ss_pred             hHHHHHHHhhhccCCC
Q psy8479         270 TMSDVNAAMTIFSSIP  285 (650)
Q Consensus       270 ~~~~~~~~~~~~~~~P  285 (650)
                      ...++.+.+...  +|
T Consensus       189 nI~~L~e~i~~~--ip  202 (205)
T d2qn6a3         189 NIDSLIEGIEEY--IK  202 (205)
T ss_dssp             SHHHHHHHHHHH--SC
T ss_pred             ChHHHHHHHHhh--CC
Confidence            344555555555  55

>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=97.18  E-value=0.00061  Score=61.58  Aligned_cols=22  Identities=27%  Similarity=0.366  Sum_probs=19.5

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ||.+|||||||||.+++..+..
T Consensus         8 vG~~~vGKTsli~r~~~~~f~~   29 (168)
T d2atva1           8 FGRAGVGKSALVVRFLTKRFIW   29 (168)
T ss_dssp             ECCTTSSHHHHHHHHHHSCCCS
T ss_pred             ECCCCCCHHHHHHHHHhCCCCC
Confidence            9999999999999999876543

>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=97.17  E-value=0.00036  Score=69.09  Aligned_cols=28  Identities=21%  Similarity=0.350  Sum_probs=24.4

Q ss_pred             CCceeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      +.+.+ ||..++|||||||+|+|.+++..
T Consensus        27 P~ivv-vG~~SsGKSsliNaLlg~~~lP~   54 (299)
T d2akab1          27 PQIAV-VGGQSAGKSSVLENFVGRDFLPR   54 (299)
T ss_dssp             CEEEE-EEBTTSCHHHHHHHHHTSCCSCC
T ss_pred             CeEEE-EcCCCCCHHHHHHHHhCCCcCCC
Confidence            45677 99999999999999999987754

>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=97.14  E-value=0.00049  Score=68.44  Aligned_cols=27  Identities=15%  Similarity=0.252  Sum_probs=23.5

Q ss_pred             CceeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      -+.+ ||..+.|||||||+|+|.+++..
T Consensus        26 ~ivV-vG~~ssGKSSliNaLlG~~~lP~   52 (306)
T d1jwyb_          26 QIVV-VGSQSSGKSSVLENIVGRDFLPR   52 (306)
T ss_dssp             EEEE-EECSSSSHHHHHHHHHTSCCCCC
T ss_pred             eEEE-EeCCCCCHHHHHHHHhCCCCCCC
Confidence            3566 99999999999999999988754

>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=97.09  E-value=0.0006  Score=61.97  Aligned_cols=20  Identities=35%  Similarity=0.351  Sum_probs=18.1

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|||||||||.|.+...
T Consensus         9 vG~~~vGKTsLi~~~~~~~~   28 (172)
T d2g3ya1           9 IGEQGVGKSTLANIFAGVHD   28 (172)
T ss_dssp             ECCTTSSHHHHHHHHHCCCC
T ss_pred             ECCCCcCHHHHHHHHHhCcC
Confidence            99999999999999997653

>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=97.04  E-value=0.00019  Score=64.51  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=17.6

Q ss_pred             cCCCCCChhhHhhhhhCcCCCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSFES  133 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~  133 (650)
                      ||.+|+|||||||.|.+..+..
T Consensus        19 vG~~~vGKTsLl~~l~~~~~~~   40 (186)
T d1f6ba_          19 LGLDNAGKTTLLHMLKDDRLGQ   40 (186)
T ss_dssp             EEETTSSHHHHHHHHSCC----
T ss_pred             ECCCCCCHHHHHHHHhCCCCcc
Confidence            9999999999999999876543

>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=96.95  E-value=7.9e-05  Score=72.74  Aligned_cols=41  Identities=20%  Similarity=0.273  Sum_probs=26.3

Q ss_pred             ccCCCCCCcccccccccCCCCceeecCCCCCChhhHhhhhhCcCCCCC
Q psy8479          87 WVNTRTPPPNFLEKSWNFIPGKAYKPCETGLGKSTLMDSLFNTSFEST  134 (650)
Q Consensus        87 ~vG~~~lp~Q~~rk~~~~k~g~~FnVG~SGvGKSTlINtLf~~~~~~~  134 (650)
                      .-|+..|-..+..      +-..| +|.||||||||||+|.+.....+
T Consensus        85 ~~gl~~L~~~l~~------~~~vl-~G~SGVGKSSLiN~L~~~~~~~t  125 (231)
T d1t9ha2          85 QDSLADIIPHFQD------KTTVF-AGQSGVGKSSLLNAISPELGLRT  125 (231)
T ss_dssp             HTTCTTTGGGGTT------SEEEE-EESHHHHHHHHHHHHCC------
T ss_pred             hhHHHHHHHhhcc------ceEEE-ECCCCccHHHHHHhhccHhHhhh
Confidence            3577777655521      23356 99999999999999999755554

>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=96.52  E-value=0.0019  Score=59.18  Aligned_cols=20  Identities=25%  Similarity=0.448  Sum_probs=18.7

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+|||||||||.+++..+
T Consensus        11 lG~~~vGKTsLi~~~~~~~f   30 (175)
T d2bmja1          11 LGDARSGKSSLIHRFLTGSY   30 (175)
T ss_dssp             ECCTTTTHHHHHHHHHHSCC
T ss_pred             ECCCCCCHHHHHHHHHhCCC
Confidence            99999999999999998765

>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=96.18  E-value=0.002  Score=63.44  Aligned_cols=33  Identities=18%  Similarity=0.168  Sum_probs=19.3

Q ss_pred             cCCCCCChhhHhhhhhCcCCCCCCCCCCCCcEEE
Q psy8479         112 PCETGLGKSTLMDSLFNTSFESTPSPHSLPSVKL  145 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~~~~~s~~~~~T~~I  145 (650)
                      ||..|||||||||+|.+.+.. .++..||.|..+
T Consensus       118 vG~PNvGKSsliN~L~~~~~~-~~~~~pG~Tr~~  150 (273)
T d1puja_         118 IGIPNVGKSTLINRLAKKNIA-KTGDRPGITTSQ  150 (273)
T ss_dssp             EESTTSSHHHHHHHHHTSCCC-------------
T ss_pred             EecCccchhhhhhhhhccceE-EECCcccccccc
Confidence            999999999999999998644 456667766544

>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=96.04  E-value=0.00087  Score=65.56  Aligned_cols=78  Identities=15%  Similarity=0.090  Sum_probs=54.3

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..+++||||||++.    ......+...+..                ...+..+|+.||+ +..+...+...|..+++.|
T Consensus        80 ~~i~viDTPGl~~~----~~~~~~~~~~i~~----------------~~~~~~~~~il~v-~~~~~~r~~~~~~~~l~~l  138 (257)
T d1h65a_          80 FTLNIIDTPGLIEG----GYINDMALNIIKS----------------FLLDKTIDVLLYV-DRLDAYRVDNLDKLVAKAI  138 (257)
T ss_dssp             EEEEEEECCCSEET----TEECHHHHHHHHH----------------HTTTCEECEEEEE-EESSCCCCCHHHHHHHHHH
T ss_pred             EEEEEEeeecccCC----cchHHHHHHHHHH----------------HHhcCCCCeEEEE-EECCCCCCCHHHHHHHHHH
Confidence            56999999999874    1221222222322                2334568999999 7676667888898888877


Q ss_pred             cCc------ceEEeeeecCCCCCHH
Q psy8479         616 DSK------VNIIPIIAKADTISKS  634 (650)
Q Consensus       616 ~~~------vnviPvIaKaD~lt~~  634 (650)
                      ...      -|+|-|+.|+|.+.++
T Consensus       139 ~~~fg~~~~~~~ivv~t~~D~~~~~  163 (257)
T d1h65a_         139 TDSFGKGIWNKAIVALTHAQFSPPD  163 (257)
T ss_dssp             HHHHCGGGGGGEEEEEECCSCCCGG
T ss_pred             HHHcchhhhhCEEEEEECcccCCcC
Confidence            643      4899999999998643

>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=95.98  E-value=0.00062  Score=64.83  Aligned_cols=19  Identities=21%  Similarity=0.118  Sum_probs=17.0

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+|+||||||+.|....
T Consensus        12 lG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2          12 LGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             ECSTTSSHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHhcCC
Confidence            9999999999999997543

>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=95.77  E-value=0.0022  Score=58.59  Aligned_cols=15  Identities=27%  Similarity=0.324  Sum_probs=14.8

Q ss_pred             cCCCCCChhhHhhhh
Q psy8479         112 PCETGLGKSTLMDSL  126 (650)
Q Consensus       112 VG~SGvGKSTlINtL  126 (650)
                      +|.+||||||||+.|
T Consensus         8 lG~~~vGKTsll~r~   22 (200)
T d1zcba2           8 LGAGESGKSTFLKQM   22 (200)
T ss_dssp             ECSTTSSHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHH
Confidence            999999999999999

>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=94.82  E-value=0.034  Score=52.91  Aligned_cols=59  Identities=10%  Similarity=0.098  Sum_probs=39.6

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CC-CeeeeeecccCCCHH--HHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KV-NIIPIIAKADTISKS--ELQKFKTNIMTELTS  256 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~v-nvIPVItKAD~Lt~~--El~~~K~~I~~~L~~  256 (650)
                      .++++.++.. ..++++...+.+..+.. .+ ++|.+++|.|....+  .....++.+...+..
T Consensus       113 aD~ailVvda-~~G~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~~~~~~~~~~~~~~~l~~~~~~  175 (222)
T d1zunb3         113 CDLAIILVDA-RYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEG  175 (222)
T ss_dssp             CSEEEEEEET-TTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHT
T ss_pred             CceEEEEecc-ccCcccchHHHHHHHHHcCCCEEEEEEEccccccccceehhhhHHHHhhhhHh
Confidence            3456666665 47899999888887775 44 689999999988633  334444455554443

>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=94.57  E-value=0.0049  Score=54.25  Aligned_cols=21  Identities=33%  Similarity=0.550  Sum_probs=18.5

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.| +|.+|+|||||+|.|...
T Consensus         5 i~i-tG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           5 LAF-AAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             EEE-ECCTTSCHHHHHHHHHHH
T ss_pred             EEE-EcCCCCCHHHHHHHHHHH
Confidence            456 999999999999999863

>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=94.12  E-value=0.084  Score=53.05  Aligned_cols=55  Identities=13%  Similarity=0.140  Sum_probs=35.0

Q ss_pred             eeeEEEEEEcCC-CCCCCcchHHHHHHhccCCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         196 RIHVCLYFICPT-GHGLKSLDLVCMKKLDSKVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       196 RVH~cLYfI~ps-~h~Lk~lDI~~mk~L~~~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      -+|+.++.+.|. |..++..-.-+|..     .=|.||+|+|.-........++.+...+.
T Consensus       167 ~aD~~l~v~~P~~Gd~iq~~k~gi~e~-----aDi~VvNKaD~~~~~~~~~~~~~~~~al~  222 (327)
T d2p67a1         167 MVDCFISLQIAGGGDDLQGIKKGLMEV-----ADLIVINKDDGDNHTNVAIARHMYESALH  222 (327)
T ss_dssp             TCSEEEEEECC------CCCCHHHHHH-----CSEEEECCCCTTCHHHHHHHHHHHHHHHH
T ss_pred             ccceEEEEecCCCchhhhhhchhhhcc-----ccEEEEEeecccchHHHHHHHHHHHHHhh
Confidence            467778888774 44455555555543     33789999999988877777777666654

>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=94.10  E-value=0.0091  Score=53.89  Aligned_cols=20  Identities=20%  Similarity=0.037  Sum_probs=17.9

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      +|.+||||||||+.|....+
T Consensus         8 lG~~~vGKTsll~r~~~~~~   27 (200)
T d2bcjq2           8 LGTGESGKSTFIKQMRIIHG   27 (200)
T ss_dssp             EESTTSSHHHHHHHHHHHTS
T ss_pred             ECCCCCCHHHHHHHHhCCCC
Confidence            99999999999999976654

>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=94.09  E-value=0.0062  Score=59.15  Aligned_cols=18  Identities=33%  Similarity=0.320  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus        35 vG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          35 VGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHHhc
Confidence            999999999999999984

>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=94.01  E-value=0.023  Score=55.78  Aligned_cols=56  Identities=9%  Similarity=0.109  Sum_probs=40.8

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELT  255 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~  255 (650)
                      .+.++.+|.+. .|++..-...++.+.. +++.+.+|+|.|...  .....-..+++.|.
T Consensus        91 ~D~avlvvda~-~Gv~~~t~~~~~~~~~~~~p~~i~iNk~D~~~--~~~~~l~~~~~~lg  147 (267)
T d2dy1a2          91 ADAALVAVSAE-AGVQVGTERAWTVAERLGLPRMVVVTKLDKGG--DYYALLEDLRSTLG  147 (267)
T ss_dssp             CSEEEEEEETT-TCSCHHHHHHHHHHHHTTCCEEEEEECGGGCC--CHHHHHHHHHHHHC
T ss_pred             cCceEEEeecc-CCccchhHHHHHhhhhcccccccccccccccc--cchhhhhhHHHHhc
Confidence            35678888764 7899988888988875 779999999999853  23334455565663

>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=93.84  E-value=0.0074  Score=56.77  Aligned_cols=18  Identities=28%  Similarity=0.510  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||++.|++.
T Consensus        33 ~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          33 HGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCChHHHHHHHHhcc
Confidence            999999999999999984

>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=93.78  E-value=0.0081  Score=54.00  Aligned_cols=19  Identities=21%  Similarity=0.128  Sum_probs=16.8

Q ss_pred             cCCCCCChhhHhhhhhCcC
Q psy8479         112 PCETGLGKSTLMDSLFNTS  130 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~  130 (650)
                      +|.+||||||||+.|....
T Consensus         8 lG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           8 LGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             ECSTTSSHHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHhhCC
Confidence            9999999999999986543

>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=93.77  E-value=0.0058  Score=59.88  Aligned_cols=18  Identities=33%  Similarity=0.300  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus        50 vG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          50 VGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             ECSTTSSHHHHHTTTTTS
T ss_pred             ECCCCCcHHHHHHHHHhc
Confidence            999999999999999984

>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=93.76  E-value=0.0044  Score=60.65  Aligned_cols=18  Identities=28%  Similarity=0.303  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|++-
T Consensus        47 vG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          47 VGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EECTTSSHHHHHHHHTTT
T ss_pred             ECCCCChHHHHHHHHhcc
Confidence            999999999999999984

>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=93.66  E-value=0.0083  Score=58.22  Aligned_cols=18  Identities=33%  Similarity=0.316  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus        34 vG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          34 AGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHHHh
Confidence            999999999999999984

>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=93.65  E-value=0.0084  Score=53.80  Aligned_cols=81  Identities=14%  Similarity=0.062  Sum_probs=51.7

Q ss_pred             cccccCCCCCcccccccccc----cccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCC---------CcccC
Q psy8479         538 RGIVRSPGERKEKNAEFFSR----AGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLP---------LAECL  604 (650)
Q Consensus       538 ltivdtpGfg~~~~~~~~~~----~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~p---------tgh~l  604 (650)
                      +.+|||||+|.........+    ..+..|+....                  ..+++++|+++..         ..+++
T Consensus        45 ~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------~~~d~~~~vvD~~~~~~~~~~~~~~~~  106 (184)
T d2cxxa1          45 HKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNA------------------KNIDVAVLVVDGKAAPEIIKRWEKRGE  106 (184)
T ss_dssp             EEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHG------------------GGCCEEEEEEETTHHHHHHHHHHHTTC
T ss_pred             ceecccCCceeccccccccccccchhhhhhhhhcc------------------cccchheeeeeccccchhhhhhhhccc
Confidence            57899999987765433322    22333333311                  1256788874321         13568


Q ss_pred             CcchHHHHHhccC-cceEEeeeecCCCCCHHHH
Q psy8479         605 KSLDLVCMKKLDS-KVNIIPIIAKADTISKSEL  636 (650)
Q Consensus       605 ~~~Di~~mk~l~~-~vnviPvIaKaD~lt~~e~  636 (650)
                      ...|.++++.|.. ...+|.|+.|+|.+...+.
T Consensus       107 ~~~d~~~~~~l~~~~~p~iiv~NK~D~~~~~~~  139 (184)
T d2cxxa1         107 IPIDVEFYQFLRELDIPTIVAVNKLDKIKNVQE  139 (184)
T ss_dssp             CCHHHHHHHHHHHTTCCEEEEEECGGGCSCHHH
T ss_pred             cHHHHHHHHHHHHcCCCEEEEEeeeehhhhHHH
Confidence            8999988887753 4678999999999976553

>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=93.57  E-value=0.0089  Score=57.70  Aligned_cols=18  Identities=28%  Similarity=0.300  Sum_probs=17.1

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        37 iG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          37 MGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCcchhhHhccCC
Confidence            999999999999999985

>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=93.42  E-value=0.0054  Score=59.49  Aligned_cols=18  Identities=22%  Similarity=0.246  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+|.|.+-
T Consensus        34 vG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          34 IGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHhcC
Confidence            999999999999999996

>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=93.39  E-value=0.012  Score=57.27  Aligned_cols=18  Identities=39%  Similarity=0.331  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus        46 vG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          46 VGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhcc
Confidence            999999999999999984

>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=93.16  E-value=0.011  Score=58.55  Aligned_cols=23  Identities=17%  Similarity=0.160  Sum_probs=18.2

Q ss_pred             ceeecCCCCCChhhHhhhhhCcCC
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~~~  131 (650)
                      +.+ ||..|||||||+|+|++++.
T Consensus         3 v~l-vG~pn~GKStlfn~lt~~~~   25 (319)
T d1wxqa1           3 IGV-VGKPNVGKSTFFSAATLVDV   25 (319)
T ss_dssp             EEE-EECTTSSHHHHHHHHHC---
T ss_pred             EeE-ECCCCCCHHHHHHHHHCCCC
Confidence            345 99999999999999999754

>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=92.86  E-value=0.012  Score=58.39  Aligned_cols=18  Identities=28%  Similarity=0.462  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||+||+|||||++.|.+-
T Consensus        68 vG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          68 TGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EESTTSSHHHHHHHHHTS
T ss_pred             ECCCCChHHHHHHHHhCC
Confidence            999999999999999984

>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=92.85  E-value=0.062  Score=52.87  Aligned_cols=62  Identities=15%  Similarity=0.183  Sum_probs=41.9

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHhcc-CCCeeeeeecccCCCHHHHHHHHHHHHHHHHHCCCcEEe
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKLDS-KVNIIPIIAKADTISKSELQKFKTNIMTELTSNGVHIYE  263 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L~~-~vnvIPVItKAD~Lt~~El~~~K~~I~~~L~~~~I~if~  263 (650)
                      +.+++..|.+. .+++..=..+++.+.. .+|.|.+|+|.|....+ .......|++.|   +.++.+
T Consensus        95 ~D~avlVvda~-~Gv~~~T~~~w~~a~~~~lP~i~fINKmDr~~ad-~~~~l~ei~~~l---~~~~vp  157 (276)
T d2bv3a2          95 LDGAIVVFDSS-QGVEPQSETVWRQAEKYKVPRIAFANKMDKTGAD-LWLVIRTMQERL---GARPVV  157 (276)
T ss_dssp             CCEEEEEEETT-TSSCHHHHHHHHHHHTTTCCEEEEEECTTSTTCC-HHHHHHHHHHTT---CCCEEE
T ss_pred             hhheEEecccc-CCcchhHHHHHHHHHHcCCCEEEEEecccccccc-cchhHHHHHHHh---CCCeEE
Confidence            45678888764 7888888888888874 77999999999986542 333333444333   444443

>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=92.84  E-value=0.013  Score=56.63  Aligned_cols=18  Identities=22%  Similarity=0.331  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+|.|++-
T Consensus        38 iGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          38 IGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHhCC
Confidence            999999999999999995

>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=92.77  E-value=0.014  Score=57.20  Aligned_cols=18  Identities=28%  Similarity=0.298  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||+++|.+-
T Consensus        34 iG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          34 IGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             ECCTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHHcC
Confidence            999999999999999984

>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=92.70  E-value=0.013  Score=52.09  Aligned_cols=18  Identities=33%  Similarity=0.626  Sum_probs=16.9

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|++|+|||||++.|.+.
T Consensus         6 ~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           6 TGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCcHHHHHHHHHHhc
Confidence            899999999999999974

>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=92.56  E-value=0.021  Score=54.71  Aligned_cols=18  Identities=33%  Similarity=0.421  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+|.|++-
T Consensus        31 iG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          31 VGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             BCCTTSSHHHHHHHHHTS
T ss_pred             ECCCCCcHHHHHHHHhCC
Confidence            999999999999999984

>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=92.55  E-value=0.014  Score=56.68  Aligned_cols=18  Identities=33%  Similarity=0.326  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|+||+|||||++.|.+-
T Consensus        37 iG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          37 IGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EESTTSSHHHHHHHHTTS
T ss_pred             ECCCCCCHHHHHHHHcCC
Confidence            999999999999999984

>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=92.48  E-value=0.015  Score=56.68  Aligned_cols=18  Identities=33%  Similarity=0.388  Sum_probs=17.5

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||+|+|++.
T Consensus        36 iG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          36 IGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             ECSTTSSHHHHHHHHTTS
T ss_pred             ECCCCCcHHHHHHHHHCC
Confidence            999999999999999996

>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=92.47  E-value=0.016  Score=56.19  Aligned_cols=18  Identities=22%  Similarity=0.279  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        35 iG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          35 LGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             ECSTTSSHHHHHHHHHTS
T ss_pred             ECCCCChHHHHHHHHhcC
Confidence            999999999999999985

>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=92.46  E-value=0.011  Score=56.99  Aligned_cols=18  Identities=22%  Similarity=0.320  Sum_probs=17.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        32 iGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          32 LGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             ECCCTHHHHHHHHHHHTS
T ss_pred             ECCCCCcHHHHHHHHhcC
Confidence            999999999999999995

>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=92.46  E-value=0.14  Score=49.03  Aligned_cols=22  Identities=23%  Similarity=0.141  Sum_probs=18.4

Q ss_pred             CCceee-cCCCCCChhhHhhhhh
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLF  127 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf  127 (650)
                      +-+++. +|-.+.|||||+..|+
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHH
T ss_pred             CceEEEEEeeCCCCHHHHHHHHH
Confidence            444555 9999999999999995

>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=92.43  E-value=0.015  Score=51.08  Aligned_cols=23  Identities=26%  Similarity=0.186  Sum_probs=20.3

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      |-|.| +|.+|+|||||++.|...
T Consensus         8 K~I~i-~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           8 KTVAI-LGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             EEEEE-ECCTTSHHHHHHHHHHHH
T ss_pred             eEEEE-ECCCCCCHHHHHHHHHHH
Confidence            46778 999999999999999874

>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=92.42  E-value=0.021  Score=54.97  Aligned_cols=18  Identities=33%  Similarity=0.399  Sum_probs=17.2

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||+|.|.+-
T Consensus        32 iGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          32 VGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCChHHHHHHHHhcC
Confidence            999999999999999985

>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=92.18  E-value=0.021  Score=50.80  Aligned_cols=21  Identities=24%  Similarity=0.159  Sum_probs=18.0

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.+|+||||||+.|...
T Consensus         4 i~I-~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           4 WQV-VGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHHH
T ss_pred             EEE-EeCCCCCHHHHHHHHHHH
Confidence            345 999999999999999864

>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=91.94  E-value=0.026  Score=54.56  Aligned_cols=18  Identities=22%  Similarity=0.279  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        38 iGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          38 LGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCChHHHHHHHHHcC
Confidence            999999999999999995

>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=91.85  E-value=0.024  Score=51.84  Aligned_cols=23  Identities=13%  Similarity=0.286  Sum_probs=20.5

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +-+.+ +|.||+||+||++.|+..
T Consensus         4 k~ivl-~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVL-LGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEE-ECCTTSSHHHHHHHHHHH
T ss_pred             CcEEE-ECCCCCCHHHHHHHHHHh
Confidence            56778 999999999999999965

>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=91.74  E-value=0.053  Score=48.46  Aligned_cols=45  Identities=22%  Similarity=0.104  Sum_probs=31.6

Q ss_pred             ceeeEeeecCCCcccCCcchH---HHHHhccCcceEEeeeecCCCCCHHH
Q psy8479         589 LRCASKNSDLPLAECLKSLDL---VCMKKLDSKVNIIPIIAKADTISKSE  635 (650)
Q Consensus       589 vh~~lyf~i~ptgh~l~~~Di---~~mk~l~~~vnviPvIaKaD~lt~~e  635 (650)
                      .+++||+++ . .+++.+.|.   ..++.+....++|-|+.|+|.+...+
T Consensus        85 ad~il~v~D-~-~~~~~~~~~~i~~~l~~~~~~~piilv~NK~Dl~~~~~  132 (178)
T d1wf3a1          85 VNAVVWVVD-L-RHPPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPE  132 (178)
T ss_dssp             CSEEEEEEE-T-TSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGCSSHH
T ss_pred             ccceeeeec-h-hhhhcccccchhhheeccccchhhhhhhcccccccCHH
Confidence            577888844 3 345666664   44556667788999999999987544

>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=91.53  E-value=0.032  Score=54.97  Aligned_cols=20  Identities=20%  Similarity=0.323  Sum_probs=18.4

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||-.|||||||+|+|++.+.
T Consensus        16 vG~Pn~GKSTlfnalT~~~~   35 (296)
T d1ni3a1          16 VGMPNVGKSTFFRAITKSVL   35 (296)
T ss_dssp             EECSSSSHHHHHHHHHHSTT
T ss_pred             ECCCCCCHHHHHHHHHCCCC
Confidence            99999999999999998754

>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=91.52  E-value=0.013  Score=56.86  Aligned_cols=18  Identities=28%  Similarity=0.366  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        37 iG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          37 LGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             ECSCHHHHHHHHHHHHTS
T ss_pred             ECCCCCcHHHHHHHHHcC
Confidence            999999999999999994

>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=91.01  E-value=0.033  Score=53.86  Aligned_cols=18  Identities=28%  Similarity=0.386  Sum_probs=17.3

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||++.|.+-
T Consensus        30 iGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          30 LGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             ECCTTSSHHHHHHHHHTS
T ss_pred             ECCCCChHHHHHHHHHcC
Confidence            999999999999999995

>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=89.59  E-value=0.043  Score=53.48  Aligned_cols=20  Identities=30%  Similarity=0.396  Sum_probs=18.1

Q ss_pred             cCCCCCChhhHhhhhhCcCC
Q psy8479         112 PCETGLGKSTLMDSLFNTSF  131 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~~~  131 (650)
                      ||-.|||||||+|+|.+.+.
T Consensus         8 vG~Pn~GKSTlf~~lt~~~~   27 (278)
T d1jala1           8 VGLPNVGKSTLFNALTKAGI   27 (278)
T ss_dssp             ECCTTSSHHHHHHHHHHTC-
T ss_pred             ECCCCCCHHHHHHHHHCCCC
Confidence            99999999999999998764

>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=88.95  E-value=0.069  Score=49.90  Aligned_cols=18  Identities=39%  Similarity=0.715  Sum_probs=16.9

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+|||||+|.|+..
T Consensus         8 ~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           8 SAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             ECCTTSCHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999865

>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=88.48  E-value=0.069  Score=48.10  Aligned_cols=18  Identities=28%  Similarity=0.388  Sum_probs=16.7

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.||+||||+++.|...
T Consensus         8 ~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           8 SGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             ECSTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHhh
Confidence            999999999999999765

>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=88.38  E-value=0.14  Score=49.79  Aligned_cols=80  Identities=19%  Similarity=0.138  Sum_probs=47.1

Q ss_pred             ccccccccccCCCCCcccccc------cccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCc
Q psy8479         533 TTTLGRGIVRSPGERKEKNAE------FFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKS  606 (650)
Q Consensus       533 ~~~l~ltivdtpGfg~~~~~~------~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~  606 (650)
                      +....|+||||||++..-...      .....-+..||..                      -++.++++++.+......
T Consensus       128 ~~~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~----------------------~~~~il~v~~~~~~~~~~  185 (306)
T d1jwyb_         128 PHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKK----------------------QNAIIVAVTPANTDLANS  185 (306)
T ss_dssp             TTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHS----------------------TTEEEEEEEESSSCSTTC
T ss_pred             CCCCCceEecCCCccccccCCcchhHHHHHHHHHHHHHhC----------------------CCceeEEeeccccccccc
Confidence            345689999999998643211      1111334556654                      123333325544445556


Q ss_pred             chHHHHHhccCc-ceEEeeeecCCCCCHH
Q psy8479         607 LDLVCMKKLDSK-VNIIPIIAKADTISKS  634 (650)
Q Consensus       607 ~Di~~mk~l~~~-vnviPvIaKaD~lt~~  634 (650)
                      .-..+++++.+. -++|-||.|+|.+...
T Consensus       186 ~~~~~~~~~~~~~~r~i~Vitk~D~~~~~  214 (306)
T d1jwyb_         186 DALQLAKEVDPEGKRTIGVITKLDLMDKG  214 (306)
T ss_dssp             SHHHHHHHHCSSCSSEEEEEECTTSSCSS
T ss_pred             HHHHHHHHhCcCCCeEEEEEeccccccch
Confidence            667788888644 5899999999998654

>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=88.12  E-value=0.089  Score=47.57  Aligned_cols=94  Identities=17%  Similarity=0.100  Sum_probs=60.7

Q ss_pred             cccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhc
Q psy8479         536 LGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKL  615 (650)
Q Consensus       536 l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l  615 (650)
                      ..+.++|++|+|-.......+ .....++...+               -....+++++|+ +.. .++..+.+.++++.+
T Consensus        69 ~~~~~~d~~~~~~~~~~~~~~-~~~~~~~~~~~---------------~~~~~~~~vi~v-iD~-~~~~~~~~~~~~~~l  130 (195)
T d1svia_          69 DELHFVDVPGYGFAKVSKSER-EAWGRMIETYI---------------TTREELKAVVQI-VDL-RHAPSNDDVQMYEFL  130 (195)
T ss_dssp             TTEEEEECCCBCCCSSCHHHH-HHHHHHHHHHH---------------HHCTTEEEEEEE-EET-TSCCCHHHHHHHHHH
T ss_pred             ccceEEEEEeecccccccccc-chhhhHHhhhh---------------ccccchhhhhhh-hhc-ccccccccccccccc
Confidence            456678999988765544433 12122222200               011125677777 533 466888899988877


Q ss_pred             cCc-ceEEeeeecCCCCCHHHHHHHHHHHHhhc
Q psy8479         616 DSK-VNIIPIIAKADTISKSELQKFKVSKTRVL  647 (650)
Q Consensus       616 ~~~-vnviPvIaKaD~lt~~e~~~~K~~i~~~l  647 (650)
                      ... ..+|.|+.|+|.+++.++..+.+.+.+.+
T Consensus       131 ~~~~~piivv~NK~D~~~~~~~~~~~~~~~~~l  163 (195)
T d1svia_         131 KYYGIPVIVIATKADKIPKGKWDKHAKVVRQTL  163 (195)
T ss_dssp             HHTTCCEEEEEECGGGSCGGGHHHHHHHHHHHH
T ss_pred             ccccCcceechhhccccCHHHHHHHHHHHHHHh
Confidence            643 67999999999999998888777776654

>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=88.05  E-value=0.082  Score=48.02  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=19.3

Q ss_pred             CceeecCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      -+.+ +|.||+||+||++.|+..
T Consensus         3 pIvl-~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVI-SGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEE-ECCTTSSHHHHHHHHHHH
T ss_pred             eEEE-ECCCCCCHHHHHHHHHHh
Confidence            3567 999999999999999875

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {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: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=87.90  E-value=0.04  Score=48.50  Aligned_cols=16  Identities=38%  Similarity=0.499  Sum_probs=15.2

Q ss_pred             cCCCCCChhhHhhhhh
Q psy8479         112 PCETGLGKSTLMDSLF  127 (650)
Q Consensus       112 VG~SGvGKSTlINtLf  127 (650)
                      +|++|+|||||+.+|.
T Consensus        30 ~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          30 SGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HSCCSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHH
Confidence            8999999999999985

>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=87.10  E-value=0.093  Score=47.33  Aligned_cols=18  Identities=17%  Similarity=0.065  Sum_probs=16.6

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      ||.+|+||||+.+.|...
T Consensus         8 ~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           8 VGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999999853

>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=86.70  E-value=0.1  Score=48.26  Aligned_cols=53  Identities=19%  Similarity=0.272  Sum_probs=33.2

Q ss_pred             eeEEEEEEcCCCCCCCcchHHHHHHh------ccCCCeeeeeecccCCCHHHHHHHHHHH
Q psy8479         197 IHVCLYFICPTGHGLKSLDLVCMKKL------DSKVNIIPIIAKADTISKSELQKFKTNI  250 (650)
Q Consensus       197 VH~cLYfI~ps~h~Lk~lDI~~mk~L------~~~vnvIPVItKAD~Lt~~El~~~K~~I  250 (650)
                      .+++++.+.+. ++..+.........      +-.++.++|++|+|.++.++....+..+
T Consensus       124 ~~~~v~vvd~~-~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~~~~~~~~~~~~  182 (244)
T d1yrba1         124 YPLVVYISDPE-ILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEEKERHRKYF  182 (244)
T ss_dssp             SCEEEEEECGG-GCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHHHHHHHHHHH
T ss_pred             CceEEEEeccc-cccCchhHhhHHHHHHHHHHHhCCCceeeeeccccccHHHHHHHHHHH
Confidence            34677766643 44444433222211      2356899999999999998877766543

>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=86.60  E-value=0.089  Score=45.13  Aligned_cols=18  Identities=28%  Similarity=0.239  Sum_probs=16.4

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+|||||.+.|...
T Consensus         8 ~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           8 IGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHh
Confidence            999999999999999754

>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=86.56  E-value=0.1  Score=53.64  Aligned_cols=69  Identities=13%  Similarity=0.009  Sum_probs=47.1

Q ss_pred             ccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHhcc
Q psy8479         537 GRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKKLD  616 (650)
Q Consensus       537 ~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~l~  616 (650)
                      .+++|||||+|..-     +  ....|+...               .  -.+.+++|++ .   .+.+...|+++++.|.
T Consensus       108 ~~~l~DtPG~~~~~-----~--~~~~~~~~~---------------~--~~~~d~~l~~-~---~~~~~~~d~~l~~~l~  159 (400)
T d1tq4a_         108 NVVFWDLPGIGSTN-----F--PPDTYLEKM---------------K--FYEYDFFIII-S---ATRFKKNDIDIAKAIS  159 (400)
T ss_dssp             TEEEEECCCGGGSS-----C--CHHHHHHHT---------------T--GGGCSEEEEE-E---SSCCCHHHHHHHHHHH
T ss_pred             eEEEEeCCCccccc-----c--cHHHHHHHh---------------h--hhcceEEEEe-c---CCCCCHHHHHHHHHHH
Confidence            47899999998731     1  234565541               1  1134556666 3   3568899999998887


Q ss_pred             C-cceEEeeeecCCCCCH
Q psy8479         617 S-KVNIIPIIAKADTISK  633 (650)
Q Consensus       617 ~-~vnviPvIaKaD~lt~  633 (650)
                      . ...++-|+.|.|.+..
T Consensus       160 ~~~k~~~~V~nK~D~~~~  177 (400)
T d1tq4a_         160 MMKKEFYFVRTKVDSDIT  177 (400)
T ss_dssp             HTTCEEEEEECCHHHHHH
T ss_pred             HcCCCEEEEEeCcccccc
Confidence            5 4789999999997643

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

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: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=86.30  E-value=0.11  Score=52.12  Aligned_cols=23  Identities=26%  Similarity=0.283  Sum_probs=19.5

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+-+ +|.+|+|||||+|+|++.
T Consensus       167 ~nili-~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         167 KNVIV-CGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             CCEEE-EESTTSSHHHHHHHHGGG
T ss_pred             CCEEE-EeeccccchHHHHHHhhh
Confidence            34555 999999999999999975

>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=85.93  E-value=0.74  Score=46.16  Aligned_cols=40  Identities=13%  Similarity=0.150  Sum_probs=31.6

Q ss_pred             eEEEEEEcCCCCCCCcchHHHHHHhc-cCCCeeeeeecccCC
Q psy8479         198 HVCLYFICPTGHGLKSLDLVCMKKLD-SKVNIIPIIAKADTI  238 (650)
Q Consensus       198 H~cLYfI~ps~h~Lk~lDI~~mk~L~-~~vnvIPVItKAD~L  238 (650)
                      +.++..+.. ..|++......++... .++++|.||+|.|.+
T Consensus       121 D~allVVda-~eGv~~qT~~~~~~a~~~~~p~i~viNKiDr~  161 (341)
T d1n0ua2         121 DGALVVVDT-IEGVCVQTETVLRQALGERIKPVVVINKVDRA  161 (341)
T ss_dssp             SEEEEEEET-TTBSCHHHHHHHHHHHHTTCEEEEEEECHHHH
T ss_pred             CceEEEEec-ccCcchhHHHHHHHHHHcCCCeEEEEECcccc
Confidence            456666665 4789998888888776 588999999999964

>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=85.84  E-value=0.22  Score=46.62  Aligned_cols=23  Identities=30%  Similarity=0.284  Sum_probs=18.8

Q ss_pred             CCceee-cCCCCCChhhHhhhhhC
Q psy8479         106 PGKAYK-PCETGLGKSTLMDSLFN  128 (650)
Q Consensus       106 ~g~~Fn-VG~SGvGKSTlINtLf~  128 (650)
                      +-+++. +|-.+.|||||+-+|+.
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~   25 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLM   25 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CccEEEEEecCCCCHHHHHHHHHH
Confidence            445555 99999999999999964

>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=85.55  E-value=0.14  Score=44.47  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=18.4

Q ss_pred             CceeecCCCCCChhhHhhhhhCc
Q psy8479         107 GKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       107 g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      .+-+ .|+.|+|||||+..|...
T Consensus         3 ~v~I-tG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           3 HVFL-TGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEE-ESCCSSCHHHHHHHHHHH
T ss_pred             EEEE-ECCCCCcHHHHHHHHHHH
Confidence            3445 899999999999999864

>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=85.26  E-value=0.15  Score=43.18  Aligned_cols=23  Identities=26%  Similarity=0.171  Sum_probs=20.0

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      |-+-| +|.+|+||||+-..|...
T Consensus         3 k~I~l-~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFL-VGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEE-ECCTTSCHHHHHHHHHHH
T ss_pred             CeEEE-ECCCCCCHHHHHHHHHHH
Confidence            55677 899999999999999875

>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=85.01  E-value=0.15  Score=46.49  Aligned_cols=21  Identities=38%  Similarity=0.583  Sum_probs=18.3

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.||+||+||++.|+..
T Consensus         3 Ivl-~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVL-SGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEE-ECCTTSSHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHh
Confidence            556 999999999999999754

>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=84.98  E-value=0.11  Score=44.69  Aligned_cols=21  Identities=29%  Similarity=0.271  Sum_probs=18.1

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +-+ +|.+|+||||+.+.|...
T Consensus         5 I~i-~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           5 YII-TGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHH
Confidence            445 999999999999999864

>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=84.91  E-value=0.18  Score=45.38  Aligned_cols=20  Identities=20%  Similarity=0.268  Sum_probs=17.5

Q ss_pred             eeecCCCCCChhhHhhhhhCc
Q psy8479         109 AYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       109 ~FnVG~SGvGKSTlINtLf~~  129 (650)
                      .+ .|-.|+||||+++.|...
T Consensus        13 ~i-eG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1          13 LI-EGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             EE-ECSTTSCHHHHHHTTGGG
T ss_pred             EE-ECCCCCCHHHHHHHHHHH
Confidence            44 999999999999999764

>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=84.56  E-value=0.18  Score=43.56  Aligned_cols=25  Identities=20%  Similarity=0.105  Sum_probs=20.4

Q ss_pred             CCCceee-cCCCCCChhhHhhhhhCc
Q psy8479         105 IPGKAYK-PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       105 k~g~~Fn-VG~SGvGKSTlINtLf~~  129 (650)
                      ++|+..- +|-||+||||+-+.|...
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~   29 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVT   29 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3686554 999999999999998754

>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=84.32  E-value=0.15  Score=44.41  Aligned_cols=21  Identities=14%  Similarity=0.178  Sum_probs=17.6

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ .|-+|+||||+++.|...
T Consensus         4 I~i-~G~~GsGKsT~~~~L~~~   24 (190)
T d1khta_           4 VVV-TGVPGVGSTTSSQLAMDN   24 (190)
T ss_dssp             EEE-ECCTTSCHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHH
Confidence            345 899999999999999753

>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=83.21  E-value=0.52  Score=44.73  Aligned_cols=63  Identities=13%  Similarity=0.086  Sum_probs=36.3

Q ss_pred             eeeEEEEEEcCCCC------CCCcchHHHHHHhc-cCC-CeeeeeecccCCC--HHHHHHHHHHHHHHHHHCC
Q psy8479         196 RIHVCLYFICPTGH------GLKSLDLVCMKKLD-SKV-NIIPIIAKADTIS--KSELQKFKTNIMTELTSNG  258 (650)
Q Consensus       196 RVH~cLYfI~ps~h------~Lk~lDI~~mk~L~-~~v-nvIPVItKAD~Lt--~~El~~~K~~I~~~L~~~~  258 (650)
                      .++.++..|.+.-.      .+.+.=.+.+..+. -.+ ++|++|+|.|...  +......++.+...|...+
T Consensus       107 ~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~  179 (239)
T d1f60a3         107 QADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVG  179 (239)
T ss_dssp             CCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             HhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCCeEEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence            35678888876421      12333333333333 245 5889999999875  3334556666666665544

>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=82.63  E-value=0.42  Score=44.13  Aligned_cols=81  Identities=15%  Similarity=0.148  Sum_probs=50.3

Q ss_pred             ccccccccCCCCCcccccccccccccccccccccCCCCCCCCCCCCCCccCCCCceeeEeeecCCCcccCCcchHHHHHh
Q psy8479         535 TLGRGIVRSPGERKEKNAEFFSRAGVNNNVTSSLNGAGMPPARDWSPVRIPTTRLRCASKNSDLPLAECLKSLDLVCMKK  614 (650)
Q Consensus       535 ~l~ltivdtpGfg~~~~~~~~~~~~i~~yi~~q~~~~~~~~~~~~~~~~~~d~rvh~~lyf~i~ptgh~l~~~Di~~mk~  614 (650)
                      .-++|+|||||+-+      |. ..+   +..               .    ..+++++.. +.. ..|+.+-+.+.+..
T Consensus        66 ~~~i~iiDtPGh~d------f~-~~~---~~~---------------~----~~aD~avlV-vda-~~Gv~~qt~~~~~~  114 (204)
T d2c78a3          66 KRHYSHVDCPGHAD------YI-KNM---ITG---------------A----AQMDGAILV-VSA-ADGPMPQTREHILL  114 (204)
T ss_dssp             SCEEEEEECCCSGG------GH-HHH---HHH---------------H----TTCSSEEEE-EET-TTCCCHHHHHHHHH
T ss_pred             CeEEEEEeCCCchh------hH-HHH---HHH---------------H----HHCCEEEEE-EEC-CCCCcHHHHHHHHH
Confidence            35789999999876      33 121   122               0    123457777 433 35688888877776


Q ss_pred             ccCc-c-eEEeeeecCCCCCHHHH-HHHHHHHHhh
Q psy8479         615 LDSK-V-NIIPIIAKADTISKSEL-QKFKVSKTRV  646 (650)
Q Consensus       615 l~~~-v-nviPvIaKaD~lt~~e~-~~~K~~i~~~  646 (650)
                      +... + ++|-+|.|.|.+..++. ..+++.|.+.
T Consensus       115 ~~~~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~  149 (204)
T d2c78a3         115 ARQVGVPYIVVFMNKVDMVDDPELLDLVEMEVRDL  149 (204)
T ss_dssp             HHHTTCCCEEEEEECGGGCCCHHHHHHHHHHHHHH
T ss_pred             HHHcCCCeEEEEEEecccCCCHHHHHHHHHHHHHH
Confidence            6543 4 46777999999875553 4455555543

>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=82.56  E-value=0.18  Score=44.72  Aligned_cols=17  Identities=29%  Similarity=0.282  Sum_probs=15.9

Q ss_pred             cCCCCCChhhHhhhhhC
Q psy8479         112 PCETGLGKSTLMDSLFN  128 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~  128 (650)
                      .|.+|+|||||.+.|..
T Consensus        28 ~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          28 DGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             EECTTSSHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            99999999999999975

>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=81.19  E-value=0.24  Score=42.71  Aligned_cols=21  Identities=29%  Similarity=0.333  Sum_probs=17.9

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ +|.+|+||||+.+.|...
T Consensus         7 I~i-~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           7 ILL-TGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHHH
T ss_pred             EEE-ECCCCCCHHHHHHHHHHH
Confidence            445 899999999999999754

>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=81.07  E-value=0.28  Score=42.48  Aligned_cols=21  Identities=14%  Similarity=0.251  Sum_probs=18.2

Q ss_pred             ceeecCCCCCChhhHhhhhhCc
Q psy8479         108 KAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       108 ~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+ .|.+|+||||+.+.|...
T Consensus         8 I~i-~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           8 ILI-TGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             EEE-ECSTTSSHHHHHHHHHHH
T ss_pred             EEE-EeCCCCCHHHHHHHHHHH
Confidence            444 999999999999999865

>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=80.79  E-value=0.33  Score=43.53  Aligned_cols=20  Identities=25%  Similarity=0.265  Sum_probs=17.2

Q ss_pred             eecCCCCCChhhHhhhhhCc
Q psy8479         110 YKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       110 FnVG~SGvGKSTlINtLf~~  129 (650)
                      +.+|-+|+|||||...|+..
T Consensus        18 il~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          18 VAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             EEECCTTSSHHHHHHHHTGG
T ss_pred             EEECCCCCCHHHHHHHHHHh
Confidence            33999999999999999753

>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=80.48  E-value=0.26  Score=42.66  Aligned_cols=18  Identities=22%  Similarity=0.276  Sum_probs=16.7

Q ss_pred             cCCCCCChhhHhhhhhCc
Q psy8479         112 PCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       112 VG~SGvGKSTlINtLf~~  129 (650)
                      +|.+|+||||+.+.|...
T Consensus        12 ~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_          12 MGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             ECSTTSCHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999999864

>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=80.23  E-value=0.26  Score=45.78  Aligned_cols=23  Identities=26%  Similarity=0.252  Sum_probs=19.8

Q ss_pred             CCceeecCCCCCChhhHhhhhhCc
Q psy8479         106 PGKAYKPCETGLGKSTLMDSLFNT  129 (650)
Q Consensus       106 ~g~~FnVG~SGvGKSTlINtLf~~  129 (650)
                      +++=| .|.+|+|||||+++|.+.
T Consensus        36 ~~~Ll-~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          36 EHLLL-FGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCEEE-ECCTTSCHHHHHHHHHHH
T ss_pred             CeEEE-ECCCCCCHHHHHHHHHHH
Confidence            45556 999999999999999875