Psyllid ID: psy3450

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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--
Protein Sequence
METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTSYTTMTMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGASSASVKVSHSQKSKHSSCVGRNSCVVS
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHEEEccccccccHHHcccccccEEEEEEcccccccccccccEEEEEEEEEcccccHHHHccccccccccccccccccccccEEcccccccccEEEEEEEEEEccEEEEEEEEEcccccccHHHHHHHHccccEEEEEEEccccHHHHHHHHHHHHHHHHcccccEEEEEEcccccccccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccEEEc
Secondary Structure Prediction (SSPRO)
cccccEEEEHHHHHHHHEEEEEcccccccHHHccccccccccHcccccccccccccHHHEEEEEEEccccccHHHHHHHHEEEEccccccccccEEEEEcccccEEccEEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEEEccccccccccHHHHHHHHHHHcccEEEEEccccEcHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccEEEEccccccccccccccccccEEccccEcccccHcHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccHHcHHcccHHHHHcccccccccccccccccccccHHEEEEEEcccccccccEEEEEcccccccccccccccEEEc
Coil and Loop (DISEMBL)
metkpvvatQKQYDYLLKFLLvgdsdvgkqeILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLvgdsdvgkqeilsglylesrfprfwldgssespfcsgsgkyddmLAYKTTTIlldgkrvklqlwdtsgqgrfCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVeehapgvpkvlVGNRLHLAFNRTVTTREAEMYAIKNQmaffevsplcdfniRESFTELSRRALQRNGMERLwrsnkvgrkplinfesFTELSRRALQRNGMERlwrsnkgkhLLTYFQYCFaglvrpsvdvnknkynLLSFSVISLQELCCRAIVARTTVYAInqlplpnliKSHLKSYAMTSYTTMTMTtsarqhtkklrfpsaqsthslldtpspsaataslvscgtggassaSVKVshsqkskhsscvgrnscvvs
Flexible Loop (DISEMBL)
metkpvvatqKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPgvpkvlvgnrlHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRAlqrngmerlwrsnkvgrkplinfesfteLSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTSYTTMTMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGASSASVKVshsqkskhsscvgrnscvvs
Low Complexity Region (SEG)
METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKsyamtsyttmtmttsaRQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGassasvkvshsqkskhssCVGRNSCVVS
Disordered region (IsUnstruct)
*******ATQKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTSYTTM************************************************************************
Disordered Region (DISOPRED)
********TQKQYDYLLKFLLVGDSD***********L*******************DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA*************************************************HLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTS*********************************************************************RNSCV**
Disordered Region (DISEMBL)
********TQKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTSYTTMTMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATA*************************************
Disordered Region (DISPRO)
**TKPVVATQKQYDYLLKFLLVGDSDVGKQEIL****LELT************QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNG**********************************E******KGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTSYTTMTMTT***********************PSPSAATA***SCGTG*****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTSYTTMTMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGASSASVKVSHSQKSKHSSCVGRNSCVVS
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	432	2.2.26 [Sep-21-2011]
Q96S21	281	Ras-related protein Rab-4	yes	N/A	0.525	0.807	0.529	1e-82
Q8VHQ4	281	Ras-related protein Rab-4	yes	N/A	0.525	0.807	0.529	1e-82
Q12829	278	Ras-related protein Rab-4	no	N/A	0.555	0.863	0.478	3e-79
Q8VHP8	278	Ras-related protein Rab-4	no	N/A	0.511	0.794	0.503	2e-77
Q8WXH6	277	Ras-related protein Rab-4	no	N/A	0.516	0.805	0.476	1e-71
P0C0E4	278	Ras-related protein Rab-4	no	N/A	0.562	0.874	0.447	6e-71
P35286	203	Ras-related protein Rab-1	no	N/A	0.416	0.886	0.403	3e-32
P35280	207	Ras-related protein Rab-8	no	N/A	0.379	0.792	0.438	5e-32
P55258	207	Ras-related protein Rab-8	no	N/A	0.379	0.792	0.438	5e-32
A4FV54	207	Ras-related protein Rab-8	no	N/A	0.379	0.792	0.438	6e-32

>sp|Q96S21|RB40C_HUMAN Ras-related protein Rab-40C OS=Homo sapiens GN=RAB40C PE=1 SV=1

 Score =  307 bits (786), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 163/308 (52%), Positives = 191/308 (62%), Gaps = 81/308 (26%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYLLKFLLVGDSDVGK EIL  L           DG++ESP+      Y + + YKT
Sbjct: 9   KSYDYLLKFLLVGDSDVGKGEILESLQ----------DGAAESPY-----AYSNGIDYKT 53

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
           TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW+KE++
Sbjct: 54  TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIKEID 113

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+          
Sbjct: 114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNCMTFFEVSPLCNFNV---------- 163

Query: 235 ALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCF 294
                                   ESFTELSR  L R+GME++WR N+            
Sbjct: 164 -----------------------IESFTELSRIVLMRHGMEKIWRPNR------------ 188

Query: 295 AGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAM 354
                                V SLQ+LCCRAIV+ T V+ I++LPLP  IKSHLKS++M
Sbjct: 189 ---------------------VFSLQDLCCRAIVSCTPVHLIDKLPLPVTIKSHLKSFSM 227

Query: 355 TSYTTMTM 362
            +     M
Sbjct: 228 ANGMNAVM 235

Probable substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.
Homo sapiens (taxid: 9606)

>sp|Q8VHQ4|RB40C_MOUSE Ras-related protein Rab-40C OS=Mus musculus GN=Rab40c PE=2 SV=1

 Score =  307 bits (786), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 163/308 (52%), Positives = 191/308 (62%), Gaps = 81/308 (26%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYLLKFLLVGDSDVGK EIL  L           DG++ESP+      Y + + YKT
Sbjct: 9   KSYDYLLKFLLVGDSDVGKGEILESLQ----------DGAAESPY-----AYSNGIDYKT 53

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
           TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW+KE++
Sbjct: 54  TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIKEID 113

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+          
Sbjct: 114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNCMTFFEVSPLCNFNV---------- 163

Query: 235 ALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCF 294
                                   ESFTELSR  L R+GME++WR N+            
Sbjct: 164 -----------------------IESFTELSRIVLMRHGMEKIWRPNR------------ 188

Query: 295 AGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAM 354
                                V SLQ+LCCRAIV+ T V+ I++LPLP  IKSHLKS++M
Sbjct: 189 ---------------------VFSLQDLCCRAIVSCTPVHLIDKLPLPVTIKSHLKSFSM 227

Query: 355 TSYTTMTM 362
            +     M
Sbjct: 228 ANGMNAVM 235

Probable substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

Mus musculus (taxid: 10090)

>sp|Q12829|RB40B_HUMAN Ras-related protein Rab-40B OS=Homo sapiens GN=RAB40B PE=2 SV=1

 Score =  296 bits (757), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 159/332 (47%), Positives = 201/332 (60%), Gaps = 92/332 (27%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + YD+LLKFLLVGDSDVGK EIL+ L           DG++ESP+   +G     + YKT
Sbjct: 9   RAYDFLLKFLLVGDSDVGKGEILASLQ----------DGAAESPYGHPAG-----IDYKT 53

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
           TTILLDG+RVKLQLWDTSGQGRFCTI RSYSRGAQG++LVYDI N+WSFDGIDRW+KE++
Sbjct: 54  TTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGVILVYDIANRWSFDGIDRWIKEID 113

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           EHAPGVPK+LVGNRLHLAF R V T +A+ YA +  + FFEVSPLC+FNI ES       
Sbjct: 114 EHAPGVPKILVGNRLHLAFKRQVPTEQAQAYAERLGVTFFEVSPLCNFNITES------- 166

Query: 235 ALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCF 294
                                     FTEL+R  L R+GM+RLWR +K            
Sbjct: 167 --------------------------FTELARIVLLRHGMDRLWRPSK------------ 188

Query: 295 AGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAM 354
                                V+SLQ+LCCRA+V+ T V+ +++LPLP  ++SHLKS++M
Sbjct: 189 ---------------------VLSLQDLCCRAVVSCTPVHLVDKLPLPIALRSHLKSFSM 227

Query: 355 T-----------SYTTMTMTTSARQHTKKLRF 375
                       SY+  T +T  R   +K++ 
Sbjct: 228 ANGLNARMMHGGSYSLTTSSTHKRSSLRKVKL 259

May be a substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

Homo sapiens (taxid: 9606)

>sp|Q8VHP8|RB40B_MOUSE Ras-related protein Rab-40B OS=Mus musculus GN=Rab40b PE=2 SV=1

 Score =  289 bits (740), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 152/302 (50%), Positives = 190/302 (62%), Gaps = 81/302 (26%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + YD+LLKFLLVGDSDVGK EIL+ L           DG++ESP+   +G     + +KT
Sbjct: 9   RAYDFLLKFLLVGDSDVGKGEILASLQ----------DGAAESPYGHPAG-----IDHKT 53

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
           TTILLDG+RVKLQLWDTSGQGRFCTI RSYSRGAQG++LVYDI N+WSFDGI+RW+KE++
Sbjct: 54  TTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGVVLVYDIANRWSFDGINRWIKEID 113

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           EHAPGVPK+LVGNRLHLAF R V T +A+ YA +  + FFEVSPLC+FNI ES       
Sbjct: 114 EHAPGVPKILVGNRLHLAFKRQVPTEQAQAYAERLGVTFFEVSPLCNFNITES------- 166

Query: 235 ALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCF 294
                                     FTEL+R  L R+GM+RLWR +K            
Sbjct: 167 --------------------------FTELARIVLLRHGMDRLWRPSK------------ 188

Query: 295 AGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAM 354
                                V+SLQELCCRA+V+ T  + +++LPLP  ++SHLKS++M
Sbjct: 189 ---------------------VLSLQELCCRAVVSCTPGHLVDKLPLPVALRSHLKSFSM 227

Query: 355 TS 356
            S
Sbjct: 228 AS 229

May be a substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

Mus musculus (taxid: 10090)

>sp|Q8WXH6|RB40A_HUMAN Ras-related protein Rab-40A OS=Homo sapiens GN=RAB40A PE=2 SV=2

 Score =  270 bits (691), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 145/304 (47%), Positives = 183/304 (60%), Gaps = 81/304 (26%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           +  + YD+LLKFLLVGD DVGK EIL  L           DG++ESP+    G     + 
Sbjct: 6   SPDQAYDFLLKFLLVGDRDVGKSEILESLQ----------DGAAESPYSHLGG-----ID 50

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           YKTTTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQG++LVYDI N+WSF+G+DRW+K
Sbjct: 51  YKTTTILLDGQRVKLKLWDTSGQGRFCTIFRSYSRGAQGVILVYDIANRWSFEGMDRWIK 110

Query: 172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++EEHAPGVPK+LVGNRLHLAF R V   +A+ YA +  + FFEVSPLC+FNI       
Sbjct: 111 KIEEHAPGVPKILVGNRLHLAFKRQVPREQAQAYAERLGVTFFEVSPLCNFNI------- 163

Query: 232 SRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQ 291
                                      ESFTEL+R  L R+ M  L R +K         
Sbjct: 164 --------------------------IESFTELARIVLLRHRMNWLGRPSK--------- 188

Query: 292 YCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKS 351
                                   V+SLQ+LCCR IV+ T V+ +++LPLP+ ++SHLKS
Sbjct: 189 ------------------------VLSLQDLCCRTIVSCTPVHLVDKLPLPSTLRSHLKS 224

Query: 352 YAMT 355
           ++M 
Sbjct: 225 FSMA 228

May be a substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

Homo sapiens (taxid: 9606)

>sp|P0C0E4|RB40L_HUMAN Ras-related protein Rab-40A-like OS=Homo sapiens GN=RAB40AL PE=1 SV=1

 Score =  268 bits (685), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 150/335 (44%), Positives = 192/335 (57%), Gaps = 92/335 (27%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           +  + YD+LLKFLLVGD DVGK EIL  L           DG++ESP+    G     + 
Sbjct: 6   SPDQAYDFLLKFLLVGDRDVGKSEILESLQ----------DGTAESPYSHLGG-----ID 50

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           YKTTTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQG++LVYDI N+WSF+G+DRW+K
Sbjct: 51  YKTTTILLDGQRVKLKLWDTSGQGRFCTIFRSYSRGAQGVILVYDIANRWSFEGMDRWIK 110

Query: 172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++EEHAPGVPK+LVGNRLHLAF R V   +A+ YA +  + FFEVSPLC+FNI       
Sbjct: 111 KIEEHAPGVPKILVGNRLHLAFKRQVPREQAQAYAERLGVTFFEVSPLCNFNI------- 163

Query: 232 SRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQ 291
                                      ESFTEL+R  L R+ +  L R +K         
Sbjct: 164 --------------------------IESFTELARIVLLRHRLNWLGRPSK--------- 188

Query: 292 YCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKS 351
                                   V+SLQ+LCCR IV+ T V+ +++LPLP  ++SHLKS
Sbjct: 189 ------------------------VLSLQDLCCRTIVSCTPVHLVDKLPLPIALRSHLKS 224

Query: 352 YAMT-----------SYTTMTMTTSARQHTKKLRF 375
           ++M            SY+  T +T  R    K++ 
Sbjct: 225 FSMAKGLNARMMRGLSYSLTTSSTHKRSSLCKVKI 259

May be a substrate-recognition component of a SCF-like ECS (Elongin-Cullin-SOCS-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins.

Homo sapiens (taxid: 9606)

>sp|P35286|RAB13_RAT Ras-related protein Rab-13 OS=Rattus norvegicus GN=Rab13 PE=2 SV=2

 Score =  139 bits (351), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 79/196 (40%), Positives = 118/196 (60%), Gaps = 16/196 (8%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YD+L K LL+GDS VGK  ++          RF  D  + S + S  G     + +K 
Sbjct: 3   KAYDHLFKLLLIGDSGVGKTCLI---------IRFAEDNFN-STYISTIG-----IDFKI 47

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+ ++GKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDIT++ SF+ I  W+K ++
Sbjct: 48  RTVEIEGKRIKLQVWDTAGQERFKTITTAYYRGAMGIILVYDITDEKSFENIQNWMKSIK 107

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           E+A  GV ++L+GN+  +   R V   +AE  A ++++ FFE S     N+ E+F+ L+R
Sbjct: 108 ENASAGVERLLLGNKCDMEAKRKVQREQAERLAREHRIRFFETSAKSSVNVDEAFSSLAR 167

Query: 234 RALQRNGMERLWRSNK 249
             L + G  R   S+K
Sbjct: 168 DILLKTGGRRSGNSSK 183

May be involved in vesicular trafficking and neurotransmitter release.

Rattus norvegicus (taxid: 10116)

>sp|P35280|RAB8A_RAT Ras-related protein Rab-8A OS=Rattus norvegicus GN=Rab8a PE=2 SV=2

 Score =  139 bits (350), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 79/180 (43%), Positives = 105/180 (58%), Gaps = 16/180 (8%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYL K LL+GDS VGK  +L          RF  D  + S F S  G     + +K 
Sbjct: 3   KTYDYLFKLLLIGDSGVGKTCVL---------FRFSEDAFN-STFISTIG-----IDFKI 47

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            TI LDGKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDITN+ SFD I  W++ +E
Sbjct: 48  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIE 107

Query: 175 EHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EHA   V K+++GN+  +   R V+    E  A+   + F E S   + N+  +F  L+R
Sbjct: 108 EHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLAR 167

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Rattus norvegicus (taxid: 10116)

>sp|P55258|RAB8A_MOUSE Ras-related protein Rab-8A OS=Mus musculus GN=Rab8a PE=1 SV=2

 Score =  139 bits (350), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 79/180 (43%), Positives = 105/180 (58%), Gaps = 16/180 (8%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYL K LL+GDS VGK  +L          RF  D  + S F S  G     + +K 
Sbjct: 3   KTYDYLFKLLLIGDSGVGKTCVL---------FRFSEDAFN-STFISTIG-----IDFKI 47

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            TI LDGKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDITN+ SFD I  W++ +E
Sbjct: 48  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIE 107

Query: 175 EHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EHA   V K+++GN+  +   R V+    E  A+   + F E S   + N+  +F  L+R
Sbjct: 108 EHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLAR 167

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Mus musculus (taxid: 10090)

>sp|A4FV54|RAB8A_BOVIN Ras-related protein Rab-8A OS=Bos taurus GN=RAB8A PE=2 SV=1

 Score =  139 bits (349), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 79/180 (43%), Positives = 105/180 (58%), Gaps = 16/180 (8%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYL K LL+GDS VGK  +L          RF  D  + S F S  G     + +K 
Sbjct: 3   KTYDYLFKLLLIGDSGVGKTCVLF---------RFSEDAFN-STFISTIG-----IDFKI 47

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            TI LDGKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDITN+ SFD I  W++ +E
Sbjct: 48  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIE 107

Query: 175 EHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EHA   V K+++GN+  +   R V+    E  A+   + F E S   + N+  +F  L+R
Sbjct: 108 EHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFYTLAR 167

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Bos taurus (taxid: 9913)

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	432
332020765	296	Ras-related protein Rab-40C [Acromyrmex	0.636	0.929	0.571	1e-105
307190719	293	Ras-related protein Rab-40C [Camponotus	0.631	0.931	0.577	1e-105
380028996	294	PREDICTED: ras-related protein Rab-40C-l	0.631	0.928	0.568	1e-104
110774231	294	PREDICTED: ras-related protein Rab-40C-l	0.631	0.928	0.568	1e-104
307205443	295	Ras-related protein Rab-40C [Harpegnatho	0.645	0.945	0.555	1e-102
383848095	294	PREDICTED: ras-related protein Rab-40C-l	0.631	0.928	0.550	1e-101
242017412	279	RAB-40, putative [Pediculus humanus corp	0.611	0.946	0.565	1e-101
193603532	293	PREDICTED: ras-related protein Rab-40C-l	0.557	0.822	0.598	4e-99
345494425	321	PREDICTED: ras-related protein Rab-40C-l	0.641	0.862	0.552	3e-98
189240504	274	PREDICTED: similar to rab-40 [Tribolium	0.606	0.956	0.536	1e-96

>gi|332020765|gb|EGI61169.1| Ras-related protein Rab-40C [Acromyrmex echinatior]

 Score =  389 bits (998), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 221/387 (57%), Positives = 239/387 (61%), Gaps = 112/387 (28%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           +KQYDYLLKFLLVGDSDVGKQEILSGL           DG++ESPFCSGS       AYK
Sbjct: 14  EKQYDYLLKFLLVGDSDVGKQEILSGLE----------DGAAESPFCSGS-------AYK 56

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV
Sbjct: 57  TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 116

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EEHAPGVPKVLVGNRLHLAF R V  R+AE YA KN+MAFFEVSPLCDFNIRES      
Sbjct: 117 EEHAPGVPKVLVGNRLHLAFKRQVGERDAEAYAAKNRMAFFEVSPLCDFNIRES------ 170

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F+ELSR AL RNGMERLWRSNK           
Sbjct: 171 ---------------------------FSELSRMALHRNGMERLWRSNK----------- 192

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQEL CRAIVARTTVY I+QLPLP  IKSHLKSYA
Sbjct: 193 ----------------------VLSLQELACRAIVARTTVYGIDQLPLPKSIKSHLKSYA 230

Query: 354 MTSYTTM--------TMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGA 405
           MT+ + +        + + S   H +KLRF      +  L TP               G+
Sbjct: 231 MTTTSQLRYNGNRSLSSSKSLGSHHRKLRFVGVGHNNGGLSTP---------------GS 275

Query: 406 SSASVKVSHSQKSKHSSCVGRNSCVVS 432
           S  S+  S       +SCVGRNSC VS
Sbjct: 276 SPGSITDS------RTSCVGRNSCTVS 296

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307190719|gb|EFN74635.1| Ras-related protein Rab-40C [Camponotus floridanus]

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 223/386 (57%), Positives = 240/386 (62%), Gaps = 113/386 (29%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           +KQYDYLLKFLLVGDSDVGKQEILSGL           DG++ESPFCSGS       AYK
Sbjct: 14  EKQYDYLLKFLLVGDSDVGKQEILSGLE----------DGAAESPFCSGS-------AYK 56

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV
Sbjct: 57  TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 116

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EEHAPGVPKVLVGNRLHLAF R V  R+AE YA KN+MAFFEVSPLCDFNIRES      
Sbjct: 117 EEHAPGVPKVLVGNRLHLAFKRQVGERDAETYAAKNRMAFFEVSPLCDFNIRES------ 170

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F+ELSR AL RNGMERLWRSNK           
Sbjct: 171 ---------------------------FSELSRMALHRNGMERLWRSNK----------- 192

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQEL CRAIVARTTVY I+QLPLP  IKSHLKSYA
Sbjct: 193 ----------------------VLSLQELACRAIVARTTVYGIDQLPLPKSIKSHLKSYA 230

Query: 354 MTSYTTM-------TMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGAS 406
           MT+ T +       + + S   H +KLRF      H+ L TP               G+S
Sbjct: 231 MTTTTQLRYNGRSSSSSKSLGSHHRKLRFVGV--GHNGLSTP---------------GSS 273

Query: 407 SASVKVSHSQKSKHSSCVGRNSCVVS 432
             S+  S       +SCVGRNSC VS
Sbjct: 274 PGSITDS------RTSCVGRNSCTVS 293

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380028996|ref|XP_003698169.1| PREDICTED: ras-related protein Rab-40C-like isoform 1 [Apis florea]

 Score =  385 bits (990), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 220/387 (56%), Positives = 239/387 (61%), Gaps = 114/387 (29%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           +KQYDYLLKFLLVGDSDVGKQEILSGL           DG++ESPFCSGS       AYK
Sbjct: 14  EKQYDYLLKFLLVGDSDVGKQEILSGLE----------DGAAESPFCSGS-------AYK 56

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGI LVYDITNKWSFDGIDRWLKEV
Sbjct: 57  TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGIFLVYDITNKWSFDGIDRWLKEV 116

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EEHAPGVPKVLVGNRLHLAF R V  R+AE YA KN MAFFEVSPLCDFNIRES      
Sbjct: 117 EEHAPGVPKVLVGNRLHLAFKRQVGERDAEAYAAKNHMAFFEVSPLCDFNIRES------ 170

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F+ELSR AL RNGMERLWRSNK           
Sbjct: 171 ---------------------------FSELSRMALHRNGMERLWRSNK----------- 192

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQEL CRAIVARTTVY+I+QLPLP  IKSHLKSYA
Sbjct: 193 ----------------------VLSLQELACRAIVARTTVYSIDQLPLPKSIKSHLKSYA 230

Query: 354 MTSYTTM--------TMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGA 405
           MT+ + +        + + S   H +KLRF      H+ L TP               G+
Sbjct: 231 MTTTSQLRYNGNRSLSSSKSLGSHHRKLRFVGV--GHNGLSTP---------------GS 273

Query: 406 SSASVKVSHSQKSKHSSCVGRNSCVVS 432
           S  S+  S       +SCVGRNSC +S
Sbjct: 274 SPGSITDS------RTSCVGRNSCTIS 294

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110774231|ref|XP_397266.3| PREDICTED: ras-related protein Rab-40C-like isoform 2 [Apis mellifera] gi|340720789|ref|XP_003398812.1| PREDICTED: ras-related protein Rab-40C-like [Bombus terrestris] gi|350398070|ref|XP_003485078.1| PREDICTED: ras-related protein Rab-40C-like [Bombus impatiens]

 Score =  385 bits (988), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 220/387 (56%), Positives = 238/387 (61%), Gaps = 114/387 (29%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           +KQYDYLLKFLLVGDSDVGKQEILSGL           DG++ESPFCSGS       AYK
Sbjct: 14  EKQYDYLLKFLLVGDSDVGKQEILSGLE----------DGAAESPFCSGS-------AYK 56

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGI LVYDITNKWSFDGIDRWLKEV
Sbjct: 57  TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGIFLVYDITNKWSFDGIDRWLKEV 116

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EEHAPGVPKVLVGNRLHLAF R V  R+AE YA KN MAFFEVSPLCDFNIRES      
Sbjct: 117 EEHAPGVPKVLVGNRLHLAFKRQVGERDAEAYAAKNHMAFFEVSPLCDFNIRES------ 170

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F+ELSR AL RNGMERLWRSNK           
Sbjct: 171 ---------------------------FSELSRMALHRNGMERLWRSNK----------- 192

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQEL CRAIVARTTVY I+QLPLP  IKSHLKSYA
Sbjct: 193 ----------------------VLSLQELACRAIVARTTVYGIDQLPLPKSIKSHLKSYA 230

Query: 354 MTSYTTM--------TMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGA 405
           MT+ + +        + + S   H +KLRF      H+ L TP               G+
Sbjct: 231 MTTTSQLRYNGNRSLSSSKSLGSHHRKLRFVGV--GHNGLSTP---------------GS 273

Query: 406 SSASVKVSHSQKSKHSSCVGRNSCVVS 432
           S  S+  S       +SCVGRNSC +S
Sbjct: 274 SPGSITDS------RTSCVGRNSCTIS 294

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307205443|gb|EFN83775.1| Ras-related protein Rab-40C [Harpegnathos saltator]

 Score =  377 bits (968), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 219/394 (55%), Positives = 240/394 (60%), Gaps = 115/394 (29%)

Query: 47  TKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY 106
           TKP    +KQYDYLLKFLLVGDSDVGKQEILSGL           DG++ESPFCSGS   
Sbjct: 9   TKP--RQEKQYDYLLKFLLVGDSDVGKQEILSGLE----------DGAAESPFCSGS--- 53

Query: 107 DDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI 166
               AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDIT+KWSFDGI
Sbjct: 54  ----AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITSKWSFDGI 109

Query: 167 DRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE 226
           DRWLKEVEEHAPGVPKVLVGNRLHLAF R V  R+AE YA+KN M+FFEVSPLCDFNIRE
Sbjct: 110 DRWLKEVEEHAPGVPKVLVGNRLHLAFRRQVGQRDAEAYAVKNHMSFFEVSPLCDFNIRE 169

Query: 227 SFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHL 286
           S                                 F+ELSR ALQRNGMERL R NK    
Sbjct: 170 S---------------------------------FSELSRMALQRNGMERLLRPNK---- 192

Query: 287 LTYFQYCFAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIK 346
                                        V+SLQEL CRAIVARTTVY I+QLPLP  IK
Sbjct: 193 -----------------------------VLSLQELACRAIVARTTVYGIDQLPLPTSIK 223

Query: 347 SHLKSYAMTSYTTM--------TMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLV 398
           SHLKSYA+T+ + +        + + S   H +KLRF      + L              
Sbjct: 224 SHLKSYAITTTSQLRYNGNRSLSSSKSLGSHHRKLRFVVGHHNNGL-------------- 269

Query: 399 SCGTGGASSASVKVSHSQKSKHSSCVGRNSCVVS 432
              T G+S  S+  S       +SCVGRNSC VS
Sbjct: 270 --STPGSSPGSITDS------RTSCVGRNSCTVS 295

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383848095|ref|XP_003699687.1| PREDICTED: ras-related protein Rab-40C-like isoform 1 [Megachile rotundata]

 Score =  375 bits (964), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 213/387 (55%), Positives = 235/387 (60%), Gaps = 114/387 (29%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           +KQYDYLLKFLLVGDSDVGKQEILSGL           DG++ESPFCSGS       AYK
Sbjct: 14  EKQYDYLLKFLLVGDSDVGKQEILSGLE----------DGAAESPFCSGS-------AYK 56

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQG+ LVYDITNKWSFDGIDRWLKEV
Sbjct: 57  TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGVFLVYDITNKWSFDGIDRWLKEV 116

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EEHAPGVPKVLVGNRLHLAF R V  R+AE YA KN MAFFEVSPLCDFNIRES      
Sbjct: 117 EEHAPGVPKVLVGNRLHLAFKRQVGERDAEAYAAKNHMAFFEVSPLCDFNIRES------ 170

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F+ELSR AL RNGMERL RSNK           
Sbjct: 171 ---------------------------FSELSRMALHRNGMERLLRSNK----------- 192

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQEL CRAIVARTTVY I+QLPLP  IKSHLKSYA
Sbjct: 193 ----------------------VLSLQELACRAIVARTTVYGIDQLPLPKSIKSHLKSYA 230

Query: 354 MTSYT--------TMTMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGA 405
           +T+ +        ++  + S   + +KLRF      ++ L TPS S  + +         
Sbjct: 231 ITTISQLRYNGNRSLNPSKSLGSYHRKLRFVGV--GYNGLSTPSSSPGSIT--------- 279

Query: 406 SSASVKVSHSQKSKHSSCVGRNSCVVS 432
                          +SCVGRNSC +S
Sbjct: 280 ------------DSRTSCVGRNSCTIS 294

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242017412|ref|XP_002429183.1| RAB-40, putative [Pediculus humanus corporis] gi|212514061|gb|EEB16445.1| RAB-40, putative [Pediculus humanus corporis]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 217/384 (56%), Positives = 236/384 (61%), Gaps = 120/384 (31%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           KQYDYLLKFLLVGDSDVGKQEILSGL           +G SE  FCSGS       AYKT
Sbjct: 10  KQYDYLLKFLLVGDSDVGKQEILSGLE----------NGPSE--FCSGS-------AYKT 50

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
           TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI RWLKEV+
Sbjct: 51  TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIGRWLKEVD 110

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           EHAPGVPKVLVGNRLHLAF R V  REAE YAIKN+MAFFEVSPLC+FNIRES       
Sbjct: 111 EHAPGVPKVLVGNRLHLAFKRQVGAREAEAYAIKNRMAFFEVSPLCNFNIRES------- 163

Query: 235 ALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCF 294
                                     F+ELSR AL RNGMERL RSNK            
Sbjct: 164 --------------------------FSELSRMALHRNGMERLLRSNK------------ 185

Query: 295 AGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAM 354
                                V+SLQELCCR IVARTTVY+I QLPLP +IKSHLKSYAM
Sbjct: 186 ---------------------VLSLQELCCRTIVARTTVYSIEQLPLPEMIKSHLKSYAM 224

Query: 355 TSYTTMTM------TTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVSCGTGGASSA 408
           TSY++M+M        +     +KL+F  + S + L  TP                    
Sbjct: 225 TSYSSMSMLPRYVLPQTKSGTFRKLKFVGSNSNNVL--TP-------------------- 262

Query: 409 SVKVSHSQKSKHSSCVGRNSCVVS 432
             +V H      SSC+GRNSC+VS
Sbjct: 263 --QVEH-----RSSCIGRNSCIVS 279

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193603532|ref|XP_001947621.1| PREDICTED: ras-related protein Rab-40C-like isoform 1 [Acyrthosiphon pisum]

 Score =  368 bits (944), Expect = 4e-99,   Method: Compositional matrix adjust.
 Identities = 194/324 (59%), Positives = 215/324 (66%), Gaps = 83/324 (25%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           QK+YDYLLKFLLVGDSDVGKQE+L+ L           DGSSESP+CSGS       AYK
Sbjct: 11  QKEYDYLLKFLLVGDSDVGKQEMLNDLE----------DGSSESPYCSGS-------AYK 53

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TT ILLDGKRVKLQLWD SGQGR CTIIRSYSRGAQG+LLVYDITNKWSFDG+DRWLKEV
Sbjct: 54  TTIILLDGKRVKLQLWDASGQGRLCTIIRSYSRGAQGVLLVYDITNKWSFDGLDRWLKEV 113

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EEHAPGVPKVLVGNRLHLAF R V+ +EAE YA K+ M  FEVSPLCDFNIRES      
Sbjct: 114 EEHAPGVPKVLVGNRLHLAFKRQVSVKEAESYASKHHMTLFEVSPLCDFNIRES------ 167

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F+EL+RRAL RNGMERL RSNK           
Sbjct: 168 ---------------------------FSELARRALHRNGMERLLRSNK----------- 189

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQELCCRAIVARTT Y INQLPLP  IKSHLKSYA
Sbjct: 190 ----------------------VLSLQELCCRAIVARTTQYGINQLPLPVTIKSHLKSYA 227

Query: 354 MTSYTTMTMTTSARQHTKKLRFPS 377
           +TS++T++M+      +KK++ PS
Sbjct: 228 LTSFSTLSMSLPRNSASKKIKLPS 251

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345494425|ref|XP_001603708.2| PREDICTED: ras-related protein Rab-40C-like [Nasonia vitripennis]

 Score =  365 bits (936), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 217/393 (55%), Positives = 232/393 (59%), Gaps = 116/393 (29%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           +KQYDYLLKFLLVGDSDVGKQEILSGL           DG+ ESPFCSGS       AYK
Sbjct: 31  EKQYDYLLKFLLVGDSDVGKQEILSGLE----------DGAFESPFCSGS-------AYK 73

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV
Sbjct: 74  TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 133

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EE APGVPKVLVGNRLHLAF R V+ R+AE+YA KN+MAFFEVSPLCDFNIRES      
Sbjct: 134 EEQAPGVPKVLVGNRLHLAFKRQVSERDAELYAAKNRMAFFEVSPLCDFNIRES------ 187

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F ELSR AL RNGMERLWRSNK           
Sbjct: 188 ---------------------------FCELSRMALHRNGMERLWRSNK----------- 209

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQEL CRAIVARTTVY I QLPLP  IKSHLKSYA
Sbjct: 210 ----------------------VLSLQELACRAIVARTTVYGIEQLPLPASIKSHLKSYA 247

Query: 354 MT--------------SYTTMTMTTSARQHTKKLRFPSAQSTHSLLDTPSPSAATASLVS 399
           MT              S T  T+      H + +RF +  S  S                
Sbjct: 248 MTTVPQLRPRLHTSCGSRTLCTIKALNLGHRRCVRFVTGNSPSSGG-------------- 293

Query: 400 CGTGGASSASVKVSHSQKSKHSSCVGRNSCVVS 432
                +S+     S S     +SCVGRNSC +S
Sbjct: 294 -----SSTPGSSPSGSTNDSRTSCVGRNSCTIS 321

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189240504|ref|XP_969860.2| PREDICTED: similar to rab-40 [Tribolium castaneum]

 Score =  359 bits (922), Expect = 1e-96,   Method: Compositional matrix adjust.
 Identities = 205/382 (53%), Positives = 233/382 (60%), Gaps = 120/382 (31%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           QK YDYLLKFLLVGDSDVGKQEILS L           DG++ESPFCSGS       AYK
Sbjct: 10  QKPYDYLLKFLLVGDSDVGKQEILSELD----------DGAAESPFCSGS-------AYK 52

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           TTTILLDGKRV+LQLWDTSGQGRFCTIIRSYSRGAQG+LLVYDITN+WSFDG+DRWLKEV
Sbjct: 53  TTTILLDGKRVRLQLWDTSGQGRFCTIIRSYSRGAQGVLLVYDITNRWSFDGLDRWLKEV 112

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           +EHAPGVPKVLVGNRLH AF R V  R+A+MYA ++ MAFFEVSPLC+FNI ES      
Sbjct: 113 DEHAPGVPKVLVGNRLHFAFKRKVGERDAQMYANRHSMAFFEVSPLCNFNIHES------ 166

Query: 234 RALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYC 293
                                      F ELSR ALQRNGMERLWRSNK           
Sbjct: 167 ---------------------------FCELSRMALQRNGMERLWRSNK----------- 188

Query: 294 FAGLVRPSVDVNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA 353
                                 V+SLQELCCRAIVARTTVY+I QLPLP  +KS+LKSYA
Sbjct: 189 ----------------------VLSLQELCCRAIVARTTVYSIEQLPLPTCVKSYLKSYA 226

Query: 354 MTSYTTMTMTTSARQHT--KKLRFPSAQSTHSLLDTP-SPSAATASLVSCGTGGASSASV 410
           +T+ +T    T +++ +  +KLRF         + TP SP + T                
Sbjct: 227 LTTTSTQLKYTHSQRKSNGRKLRF---------ISTPTSPGSDT---------------- 261

Query: 411 KVSHSQKSKHSSCVGRNSCVVS 432
                     +SCV RNSC +S
Sbjct: 262 ---------RTSCVPRNSCTIS 274

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

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	432
FB|FBgn0030391	265	Rab40 "Rab40" [Drosophila mela	0.562	0.916	0.624	3.1e-83
UNIPROTKB|F1P5F8	281	RAB40C "Uncharacterized protei	0.418	0.644	0.704	2.8e-80
ZFIN|ZDB-GENE-030515-1	279	rab40c "RAB40c, member RAS onc	0.418	0.648	0.704	3.6e-80
UNIPROTKB|A2VDR1	281	RAB40C "Uncharacterized protei	0.418	0.644	0.698	5.8e-80
UNIPROTKB|Q96S21	281	RAB40C "Ras-related protein Ra	0.418	0.644	0.698	5.8e-80
MGI|MGI:2183454	281	Rab40c "Rab40c, member RAS onc	0.418	0.644	0.698	5.8e-80
RGD|727914	281	Rab40c "Rab40c, member RAS onc	0.418	0.644	0.698	5.8e-80
ZFIN|ZDB-GENE-040718-257	279	rab40b "RAB40B, member RAS onc	0.418	0.648	0.693	5.9e-78
UNIPROTKB|F1NPF9	311	RAB40B "Uncharacterized protei	0.418	0.581	0.688	7.5e-78
UNIPROTKB|Q12829	278	RAB40B "Ras-related protein Ra	0.418	0.651	0.673	1.8e-76

FB|FBgn0030391 Rab40 "Rab40" [Drosophila melanogaster (taxid:7227)]

 Score = 750 (269.1 bits), Expect = 3.1e-83, Sum P(2) = 3.1e-83
 Identities = 161/258 (62%), Positives = 183/258 (70%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML---A 111
             K YDYLLK LLVGDSDVGK EILS L           D S+ESPFCSG+     +L   A
Sbjct:     6 KDYDYLLKVLLVGDSDVGKHEILSNLE----------DPSTESPFCSGNDCTSHILQTVA 55

Query:   112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
             YKTTTILL+GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGI+LVYDITNKWSFDGIDRWLK
Sbjct:    56 YKTTTILLEGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGIILVYDITNKWSFDGIDRWLK 115

Query:   172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
             EV+EHAPG+PKVLVGNRLHLAF R V  ++AE YA +N M+ FE+SPLC+FNIRESF EL
Sbjct:   116 EVDEHAPGIPKVLVGNRLHLAFKRQVAAKQAETYASRNNMSCFEISPLCNFNIRESFCEL 175

Query:   232 SRRALQRNGMERLWRSNKV-GRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYF 290
             +R AL RNGME +WRSNKV   + L         S  A+    +    +S    + LT  
Sbjct:   176 ARMALHRNGMEHIWRSNKVLSLQELCCRTIVRRTSVYAIDSLPLPPSVKSTLKSYALTTS 235

Query:   291 QYCFAGLVRPSVDVNKNK 308
             Q CF  L + S   N+ K
Sbjct:   236 Q-CFNSLTQSSKSKNRCK 252

GO:0003924 "GTPase activity" evidence=ISS

GO:0008360 "regulation of cell shape" evidence=IMP

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

UNIPROTKB|F1P5F8 RAB40C "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 706 (253.6 bits), Expect = 2.8e-80, Sum P(2) = 2.8e-80
 Identities = 138/196 (70%), Positives = 157/196 (80%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             K YDYLLKFLLVGDSDVGK EIL  L           DG+SESP+   +G     + YKT
Sbjct:     9 KSYDYLLKFLLVGDSDVGKGEILESLQ----------DGASESPYAYSNG-----IDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW+KE++
Sbjct:    54 TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIKEID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+ ESFTELSR 
Sbjct:   114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNCMTFFEVSPLCNFNVIESFTELSRI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GME++WR N+V
Sbjct:   174 VLMRHGMEKIWRPNRV 189

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

ZFIN|ZDB-GENE-030515-1 rab40c "RAB40c, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 705 (253.2 bits), Expect = 3.6e-80, Sum P(2) = 3.6e-80
 Identities = 138/196 (70%), Positives = 156/196 (79%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             K YDYLLKFLLVGDSDVGK EIL  L           DGS+ESP+   SG     + YKT
Sbjct:     9 KSYDYLLKFLLVGDSDVGKGEILDSLQ----------DGSAESPYAYSSG-----IDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW++E++
Sbjct:    54 TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIREID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+ ESFTELSR 
Sbjct:   114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNGMTFFEVSPLCNFNVIESFTELSRI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GME+ WR N+V
Sbjct:   174 VLMRHGMEKFWRPNRV 189

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0035556 "intracellular signal transduction" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|A2VDR1 RAB40C "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 703 (252.5 bits), Expect = 5.8e-80, Sum P(2) = 5.8e-80
 Identities = 137/196 (69%), Positives = 157/196 (80%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             K YDYLLKFLLVGDSDVGK EIL  L           DG++ESP+   +G     + YKT
Sbjct:     9 KSYDYLLKFLLVGDSDVGKGEILESLQ----------DGAAESPYAYSNG-----IDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW+KE++
Sbjct:    54 TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIKEID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+ ESFTELSR 
Sbjct:   114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNCMTFFEVSPLCNFNVIESFTELSRI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GME++WR N+V
Sbjct:   174 VLMRHGMEKIWRPNRV 189

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|Q96S21 RAB40C "Ras-related protein Rab-40C" [Homo sapiens (taxid:9606)]

 Score = 703 (252.5 bits), Expect = 5.8e-80, Sum P(2) = 5.8e-80
 Identities = 137/196 (69%), Positives = 157/196 (80%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             K YDYLLKFLLVGDSDVGK EIL  L           DG++ESP+   +G     + YKT
Sbjct:     9 KSYDYLLKFLLVGDSDVGKGEILESLQ----------DGAAESPYAYSNG-----IDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW+KE++
Sbjct:    54 TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIKEID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+ ESFTELSR 
Sbjct:   114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNCMTFFEVSPLCNFNVIESFTELSRI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GME++WR N+V
Sbjct:   174 VLMRHGMEKIWRPNRV 189

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0019003 "GDP binding" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

MGI|MGI:2183454 Rab40c "Rab40c, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 703 (252.5 bits), Expect = 5.8e-80, Sum P(2) = 5.8e-80
 Identities = 137/196 (69%), Positives = 157/196 (80%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             K YDYLLKFLLVGDSDVGK EIL  L           DG++ESP+   +G     + YKT
Sbjct:     9 KSYDYLLKFLLVGDSDVGKGEILESLQ----------DGAAESPYAYSNG-----IDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW+KE++
Sbjct:    54 TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIKEID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+ ESFTELSR 
Sbjct:   114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNCMTFFEVSPLCNFNVIESFTELSRI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GME++WR N+V
Sbjct:   174 VLMRHGMEKIWRPNRV 189

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

GO:0035556 "intracellular signal transduction" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

RGD|727914 Rab40c "Rab40c, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 703 (252.5 bits), Expect = 5.8e-80, Sum P(2) = 5.8e-80
 Identities = 137/196 (69%), Positives = 157/196 (80%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             K YDYLLKFLLVGDSDVGK EIL  L           DG++ESP+   +G     + YKT
Sbjct:     9 KSYDYLLKFLLVGDSDVGKGEILESLQ----------DGAAESPYAYSNG-----IDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKL+LWDTSGQGRFCTI RSYSRGAQGILLVYDITN+WSFDGIDRW+KE++
Sbjct:    54 TTILLDGRRVKLELWDTSGQGRFCTIFRSYSRGAQGILLVYDITNRWSFDGIDRWIKEID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVP++LVGNRLHLAF R V T +A  YA KN M FFEVSPLC+FN+ ESFTELSR 
Sbjct:   114 EHAPGVPRILVGNRLHLAFKRQVPTEQARAYAEKNCMTFFEVSPLCNFNVIESFTELSRI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GME++WR N+V
Sbjct:   174 VLMRHGMEKIWRPNRV 189

GO:0001881 "receptor recycling" evidence=NAS

GO:0005525 "GTP binding" evidence=IDA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

GO:0019003 "GDP binding" evidence=IDA

GO:0042552 "myelination" evidence=NAS

GO:0048471 "perinuclear region of cytoplasm" evidence=IDA

ZFIN|ZDB-GENE-040718-257 rab40b "RAB40B, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 688 (247.2 bits), Expect = 5.9e-78, Sum P(2) = 5.9e-78
 Identities = 136/196 (69%), Positives = 157/196 (80%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             K YD+LLKFLLVGDSDVGK EIL+ L           DGSSESP+  G   Y+  + YKT
Sbjct:     9 KAYDFLLKFLLVGDSDVGKGEILASLQ----------DGSSESPY--G---YNMGIDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKLQLWDTSGQGRFCTI RSYSRGAQG++LVYDITN+WSFDGIDRW+KE++
Sbjct:    54 TTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGVILVYDITNRWSFDGIDRWIKEID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVPK+LVGNRLHLA+ R VTT   + +  +  + FFEVSPLC+FNI ESFTEL+R 
Sbjct:   114 EHAPGVPKILVGNRLHLAYKRQVTTEHTQAFVERLGVTFFEVSPLCNFNITESFTELARI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GMERLWR NKV
Sbjct:   174 VLMRHGMERLWRPNKV 189

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0035556 "intracellular signal transduction" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1NPF9 RAB40B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 690 (248.0 bits), Expect = 7.5e-78, Sum P(2) = 7.5e-78
 Identities = 135/196 (68%), Positives = 159/196 (81%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             + YD+LLKFLLVGDSDVGK EIL+ L           DG++ESP+  G   Y   + YKT
Sbjct:    42 RAYDFLLKFLLVGDSDVGKGEILASLQ----------DGAAESPY--G---YHMGIDYKT 86

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+R+KLQLWDTSGQGRFCTI RSYSRGAQG++LVYDITN+WSFDGIDRW+KE++
Sbjct:    87 TTILLDGRRIKLQLWDTSGQGRFCTIFRSYSRGAQGVILVYDITNRWSFDGIDRWIKEID 146

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVPK+LVGNRLHLAF R V+T +A+ YA +  M FFEVSPLC+FNI ESFTEL+R 
Sbjct:   147 EHAPGVPKILVGNRLHLAFKRQVSTEQAQTYAERLGMTFFEVSPLCNFNITESFTELARI 206

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GM+RLWR NKV
Sbjct:   207 VLMRHGMDRLWRPNKV 222

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=IEA

UNIPROTKB|Q12829 RAB40B "Ras-related protein Rab-40B" [Homo sapiens (taxid:9606)]

 Score = 675 (242.7 bits), Expect = 1.8e-76, Sum P(2) = 1.8e-76
 Identities = 132/196 (67%), Positives = 157/196 (80%)

Query:    55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
             + YD+LLKFLLVGDSDVGK EIL+ L           DG++ESP+   +G     + YKT
Sbjct:     9 RAYDFLLKFLLVGDSDVGKGEILASLQ----------DGAAESPYGHPAG-----IDYKT 53

Query:   115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             TTILLDG+RVKLQLWDTSGQGRFCTI RSYSRGAQG++LVYDI N+WSFDGIDRW+KE++
Sbjct:    54 TTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGVILVYDIANRWSFDGIDRWIKEID 113

Query:   175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             EHAPGVPK+LVGNRLHLAF R V T +A+ YA +  + FFEVSPLC+FNI ESFTEL+R 
Sbjct:   114 EHAPGVPKILVGNRLHLAFKRQVPTEQAQAYAERLGVTFFEVSPLCNFNITESFTELARI 173

Query:   235 ALQRNGMERLWRSNKV 250
              L R+GM+RLWR +KV
Sbjct:   174 VLLRHGMDRLWRPSKV 189

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0016567 "protein ubiquitination" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q96S21	RB40C_HUMAN	No assigned EC number	0.5292	0.5254	0.8078	yes	N/A
Q8VHQ4	RB40C_MOUSE	No assigned EC number	0.5292	0.5254	0.8078	yes	N/A

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	432
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	1e-104
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	2e-65
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-52
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-50
pfam00071	162	pfam00071, Ras, Ras family	3e-46
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	2e-45
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	6e-45
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-38
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	2e-37
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	1e-35
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	5e-35
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	3e-34
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	4e-34
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	4e-34
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	8e-34
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	2e-32
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-31
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	2e-31
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	1e-30
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	3e-30
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-28
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	3e-27
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	9e-27
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	1e-26
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-26
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	7e-26
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-24
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	6e-23
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	6e-23
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	2e-21
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-20
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	8e-19
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	9e-19
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	4e-18
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	4e-18
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	4e-18
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	6e-18
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-17
cd03742	43	cd03742, SOCS_Rab40, SOCS (suppressors of cytokine	2e-17
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	7e-17
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	1e-16
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	3e-16
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	5e-16
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	1e-15
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	3e-15
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	2e-14
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	2e-13
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	5e-13
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	5e-13
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	1e-12
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	1e-12
cd03717	39	cd03717, SOCS_SOCS_like, SOCS (suppressors of cyto	2e-12
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	2e-12
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	2e-12
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	3e-12
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	3e-12
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	4e-12
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	7e-12
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	8e-12
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	1e-11
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	2e-11
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	4e-11
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	6e-11
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	9e-11
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	1e-10
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	7e-10
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	8e-10
pfam08477	116	pfam08477, Miro, Miro-like protein	9e-10
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-09
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	6e-09
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	7e-09
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	7e-09
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	4e-08
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	6e-08
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	9e-08
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-07
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	2e-07
smart00253	43	smart00253, SOCS, suppressors of cytokine signalli	3e-07
cd03587	41	cd03587, SOCS, SOCS (suppressors of cytokine signa	3e-07
smart00969	34	smart00969, SOCS_box, The SOCS box acts as a bridg	4e-07
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	8e-07
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	1e-06
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	2e-06
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	3e-06
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	5e-06
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	8e-06
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	9e-06
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	3e-05
pfam07525	38	pfam07525, SOCS_box, SOCS box	3e-05
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	6e-05
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	7e-05
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	1e-04
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	1e-04
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	3e-04
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	0.004
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	0.004

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

 Score =  305 bits (783), Expect = e-104
 Identities = 132/190 (69%), Positives = 149/190 (78%), Gaps = 15/190 (7%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYLLKFLLVGDSDVGK EIL+ L           DGS+ESP+    G     + YKT
Sbjct: 1   KAYDYLLKFLLVGDSDVGKGEILASLQ----------DGSTESPYGYNMG-----IDYKT 45

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
           TTILLDG+RVKLQLWDTSGQGRFCTI RSYSRGAQGI+LVYDITN+WSFDGIDRW+KE++
Sbjct: 46  TTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEID 105

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           EHAPGVPK+LVGNRLHLAF R V T +A+ YA +N M FFEVSPLC+FNI ESFTEL+R 
Sbjct: 106 EHAPGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARI 165

Query: 235 ALQRNGMERL 244
            L R+G    
Sbjct: 166 VLMRHGRPPQ 175

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

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

 Score =  206 bits (527), Expect = 2e-65
 Identities = 81/185 (43%), Positives = 109/185 (58%), Gaps = 28/185 (15%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA------YKT 114
            K +L+GDS VGK  +LS      RF                 GK+ +         +KT
Sbjct: 1   FKIILIGDSGVGKSSLLS------RFTD---------------GKFSEQYKSTIGVDFKT 39

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            TI +DGKRVKLQ+WDT+GQ RF +I  SY RGA G LLVYDITN+ SF+ ++ WLKE+ 
Sbjct: 40  KTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELR 99

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           E+A P V  +LVGN+  L   R V+  EAE +A ++ + FFE S   + N+ E+F EL+R
Sbjct: 100 EYASPNVVIMLVGNKSDLEEQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAR 159

Query: 234 RALQR 238
             L+R
Sbjct: 160 EILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  173 bits (440), Expect = 2e-52
 Identities = 73/174 (41%), Positives = 111/174 (63%), Gaps = 16/174 (9%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+GDS VGK  +L   +++++F       + +S    G       + +K+ TI +D
Sbjct: 1   FKIVLIGDSGVGKTSLLL-RFVDNKF-----SENYKSTI--G-------VDFKSKTIEVD 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPG- 179
           GK+VKLQ+WDT+GQ RF +I  SY RGA G +LVYD+TN+ SF+ +D+WL E++E+AP  
Sbjct: 46  GKKVKLQIWDTAGQERFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPN 105

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           +P +LVGN+  L   R V+T EA+ +A +N + FFE S     N+ E+F  L+R
Sbjct: 106 IPIILVGNKSDLEDERQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLAR 159

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

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

 Score =  168 bits (427), Expect = 2e-50
 Identities = 76/182 (41%), Positives = 107/182 (58%), Gaps = 16/182 (8%)

Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           DYL K LL+GDS VGK  +L          RF  + S    F S  G     + +K  TI
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLL---------RF-SEDSFNPSFISTIG-----IDFKIRTI 45

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            LDGK++KLQ+WDT+GQ RF TI  SY RGA GI+LVYDIT++ SF+ I  W++ ++EHA
Sbjct: 46  ELDGKKIKLQIWDTAGQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHA 105

Query: 178 -PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRAL 236
              V ++LVGN+  +   R V+  E E  A +  + F E S   + N+ E+F  L++  L
Sbjct: 106 SEDVERMLVGNKCDMEEKRVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDIL 165

Query: 237 QR 238
           ++
Sbjct: 166 KK 167

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

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

 Score =  156 bits (397), Expect = 3e-46
 Identities = 73/179 (40%), Positives = 102/179 (56%), Gaps = 20/179 (11%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML--AYKTTTILL 119
           K +LVGD  VGK  +L   + +++FP                 +Y   +   + T TI +
Sbjct: 1   KLVLVGDGGVGKSSLLI-RFTQNKFPE----------------EYIPTIGVDFYTKTIEV 43

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP- 178
           DGK VKLQ+WDT+GQ RF  +   Y RGAQG LLVYDIT++ SF+ + +WL+E+  HA  
Sbjct: 44  DGKTVKLQIWDTAGQERFRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADE 103

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
            VP VLVGN+  L   R V+T E E  A +  + F E S   + N+ E+F EL+R  L+
Sbjct: 104 NVPIVLVGNKCDLEDQRVVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREILK 162

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

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

 Score =  154 bits (392), Expect = 2e-45
 Identities = 78/181 (43%), Positives = 104/181 (57%), Gaps = 28/181 (15%)

Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPR--FWLDGSS----ESPFCSGSGKYDDMLA 111
           DYL K +L+GDS VGK  +LS      RF R  F LD  S    E               
Sbjct: 1   DYLFKIVLIGDSGVGKSNLLS------RFTRNEFNLDSKSTIGVE--------------- 39

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           + T TI +DGK +K Q+WDT+GQ R+  I  +Y RGA G LLVYDIT K +F+ ++RWLK
Sbjct: 40  FATRTIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLK 99

Query: 172 EVEEHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           E+ +HA   +  +LVGN+  L   R V T EA+ +A KN ++F E S L   N+ E+F +
Sbjct: 100 ELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQ 159

Query: 231 L 231
           L
Sbjct: 160 L 160

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

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

 Score =  153 bits (389), Expect = 6e-45
 Identities = 77/181 (42%), Positives = 108/181 (59%), Gaps = 16/181 (8%)

Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           YL K LL+GDS VGK    S L L     RF  D  +ES + S  G     + +K  TI 
Sbjct: 1   YLFKLLLIGDSGVGK----SCLLL-----RFADDTYTES-YISTIG-----VDFKIRTIE 45

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP 178
           LDGK VKLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ +A 
Sbjct: 46  LDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYAS 105

Query: 179 -GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             V K+LVGN+  L   + V   EA+ +A +  + F E S     N+ E+F  ++R   +
Sbjct: 106 ENVNKLLVGNKCDLTDKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREIKK 165

Query: 238 R 238
           R
Sbjct: 166 R 166

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

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

 Score =  136 bits (344), Expect = 2e-38
 Identities = 70/176 (39%), Positives = 103/176 (58%), Gaps = 18/176 (10%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK LL+GDS VGK  +L          RF  D + +    S  G     + +K  T+ +D
Sbjct: 1   LKILLIGDSGVGKSSLLL---------RF-TDDTFDEDLSSTIG-----VDFKVKTVTVD 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--P 178
           GK+VKL +WDT+GQ RF T+  SY RGAQG++LVYD+T + +FD +D WL E++ ++  P
Sbjct: 46  GKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNP 105

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
              K+LVGN++    NR VT  E + +A K+ M F E S      ++++F EL  +
Sbjct: 106 DAVKMLVGNKIDKE-NREVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEK 160

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

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

 Score =  134 bits (339), Expect = 2e-37
 Identities = 69/186 (37%), Positives = 107/186 (57%), Gaps = 19/186 (10%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--Y 112
           + YD+L K L++GDS VGK  +L          RF     +++ F   SG Y   +   +
Sbjct: 1   RDYDHLFKLLIIGDSGVGKSSLLL---------RF-----ADNTF---SGSYITTIGVDF 43

Query: 113 KTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
           K  T+ ++G+RVKLQ+WDT+GQ RF TI  +Y RG  G+++VYD+TN  SF  + RWL+E
Sbjct: 44  KIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQE 103

Query: 173 VEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
           +E++   V KVLVGN+      + V T +A  +A +  ++ FE S   + N+ E F  ++
Sbjct: 104 IEQNCDDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCIT 163

Query: 233 RRALQR 238
              L+ 
Sbjct: 164 ELVLRA 169

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

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

 Score =  129 bits (325), Expect = 1e-35
 Identities = 64/182 (35%), Positives = 94/182 (51%), Gaps = 25/182 (13%)

Query: 58  DYLLKFLLVGDSDVGK----QEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           D+L K +L+GDS+VGK    Q   SG + E +     +D                   + 
Sbjct: 1   DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVD-------------------FT 41

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
             T+ + GKRVKLQ+WDT+GQ RF TI +SY R A G ++ YDIT + SF+ +  W++EV
Sbjct: 42  MKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEV 101

Query: 174 EEH-APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-AFFEVSPLCDFNIRESFTEL 231
           E++ A  V  +L+GN+  L   R V   EA   A    + A  E S     N+ E+F  +
Sbjct: 102 EKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLM 161

Query: 232 SR 233
           + 
Sbjct: 162 AT 163

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

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

 Score =  128 bits (324), Expect = 5e-35
 Identities = 69/174 (39%), Positives = 100/174 (57%), Gaps = 16/174 (9%)

Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K +L+GDS VGK  ILS      RF R        + FC  S K    + + T 
Sbjct: 8   EYDYLFKIVLIGDSGVGKSNILS------RFTR--------NEFCLES-KSTIGVEFATR 52

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           T+ ++GK VK Q+WDT+GQ R+  I  +Y RGA G LLVYDIT + +FD + RWL+E+ +
Sbjct: 53  TLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRD 112

Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           HA   +  ++ GN+  L   R+V   + +  A K  ++F E S L   N+ ++F
Sbjct: 113 HADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAF 166

Length = 216

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

 Score =  125 bits (315), Expect = 3e-34
 Identities = 64/174 (36%), Positives = 98/174 (56%), Gaps = 16/174 (9%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            KFL++G +  GK  +L   ++E++F         +S    G       + + +  + + 
Sbjct: 1   FKFLIIGSAGTGKSCLLHQ-FIENKF-------KQDSNHTIG-------VEFGSRVVNVG 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
           GK VKLQ+WDT+GQ RF ++ RSY RGA G LLVYDIT++ SF+ +  WL +    A P 
Sbjct: 46  GKSVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPD 105

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           +  +LVGN+  L  +R VT  EA  +A +N + F E S L   N+ E+F + +R
Sbjct: 106 IVIILVGNKKDLEDDREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCAR 159

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

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

 Score =  124 bits (314), Expect = 4e-34
 Identities = 62/176 (35%), Positives = 96/176 (54%), Gaps = 22/176 (12%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDM---LAYK 113
           Y YL K++++GD+ VGK    S L L+    RF                  D+   + + 
Sbjct: 1   YAYLFKYIIIGDTGVGK----SCLLLQFTDKRFQPV--------------HDLTIGVEFG 42

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
              I +DGK++KLQ+WDT+GQ  F +I RSY RGA G LLVYDIT + +F+ +  WL++ 
Sbjct: 43  ARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDA 102

Query: 174 EEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
            +H+   +  +L+GN+  L   R V+  E E +A ++ + F E S     N+ E+F
Sbjct: 103 RQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAF 158

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

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

 Score =  124 bits (314), Expect = 4e-34
 Identities = 66/174 (37%), Positives = 98/174 (56%), Gaps = 16/174 (9%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +L+GDS VGK    S + L  RF +     + ES    G+       A+ T T+ LD 
Sbjct: 3   KLVLLGDSSVGK----SSIVL--RFVKNEFSENQESTI--GA-------AFLTQTVNLDD 47

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGV 180
             VK ++WDT+GQ R+ ++   Y RGA   ++VYDIT++ SF+    W+KE++EH  P +
Sbjct: 48  TTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNI 107

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
              L GN+  L   R V+T EA+ YA +N + F E S     N+ E FTE++R+
Sbjct: 108 VIALAGNKADLESKRQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARK 161

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

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

 Score =  123 bits (312), Expect = 8e-34
 Identities = 63/180 (35%), Positives = 94/180 (52%), Gaps = 32/180 (17%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT------ 115
           K + +GD  VGK  I++         RF  D             +D+   Y+ T      
Sbjct: 2   KLVFLGDQSVGKTSIIT---------RFMYD------------TFDN--QYQATIGIDFL 38

Query: 116 --TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
             T+ +D K V+LQLWDT+GQ RF ++I SY R +   ++VYDITN+ SFD  D+W+ +V
Sbjct: 39  SKTMYVDDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDV 98

Query: 174 -EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
            +E    V  VLVGN+  L+  R V+T E E  A +N   F E S     N+++ F +++
Sbjct: 99  RDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKIA 158

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

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

 Score =  121 bits (305), Expect = 2e-32
 Identities = 65/186 (34%), Positives = 102/186 (54%), Gaps = 22/186 (11%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDM---LAYK 113
           Y YL K++++GD+ VGK    S L L+    RF        P         D+   + + 
Sbjct: 3   YAYLFKYIIIGDTGVGK----SCLLLQFTDKRF-------QPV-------HDLTIGVEFG 44

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
              I +D K +KLQ+WDT+GQ  F +I RSY RGA G LLVYDIT + +F+ +  WL++ 
Sbjct: 45  ARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDA 104

Query: 174 EEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
            +HA   +  +L+GN+  LA  R V+T E E +A ++ + F E S     N+ E+F + +
Sbjct: 105 RQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTA 164

Query: 233 RRALQR 238
            +  ++
Sbjct: 165 AKIYKK 170

Length = 210

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

 Score =  118 bits (297), Expect = 1e-31
 Identities = 62/179 (34%), Positives = 100/179 (55%), Gaps = 16/179 (8%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD+L K +L+G++ VGK   L   + +  FP          P    +   D M+     T
Sbjct: 4   YDFLFKIVLIGNAGVGKT-CLVRRFTQGLFP----------PGQGATIGVDFMI----KT 48

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           + + G+++KLQ+WDT+GQ RF +I +SY R A  ++L YDIT + SF  +  WL+E+E++
Sbjct: 49  VEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQY 108

Query: 177 APG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           A   V  +LVGN++ LA  R V+ + AE ++    M + E S     N+ + F +L+ R
Sbjct: 109 ANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACR 167

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

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

 Score =  119 bits (299), Expect = 2e-31
 Identities = 66/203 (32%), Positives = 96/203 (47%), Gaps = 21/203 (10%)

Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           Y  + +++GDS VGK  +L          + + +G   +     +   D    +     +
Sbjct: 1   YQFRLIVIGDSTVGKSSLL----------KRFTEGRF-AEVSDPTVGVD---FFSRLIEI 46

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP 178
             G R+KLQLWDT+GQ RF +I RSY R + G+LLV+DITN+ SF+ +  WL+E   H  
Sbjct: 47  EPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQ 106

Query: 179 GVPKV--LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRAL 236
               V  LVG++  L   R VT  EAE  A    M + E S     N+ E+F  L++   
Sbjct: 107 PHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIY 166

Query: 237 QRNGMERL-----WRSNKVGRKP 254
           +R     L     W   K G   
Sbjct: 167 ERIKRGELCALDGWDGVKSGFPA 189

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

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

 Score =  115 bits (289), Expect = 1e-30
 Identities = 71/178 (39%), Positives = 101/178 (56%), Gaps = 16/178 (8%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            + LL+GDS VGK  +L       RF     D    S   S  G     + +K  TI +D
Sbjct: 1   FRLLLIGDSGVGKTCLLC------RFT----DNEFHSSHISTIG-----VDFKMKTIEVD 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-G 179
           G +V++Q+WDT+GQ R+ TI + Y R AQGI LVYDI+++ S+  I +W+ +V+E+AP G
Sbjct: 46  GIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEG 105

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
           V K+L+GN+      R V   +    A +  M FFE S   + NI+ESFT L+   LQ
Sbjct: 106 VQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLTELVLQ 163

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

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

 Score =  114 bits (287), Expect = 3e-30
 Identities = 59/180 (32%), Positives = 98/180 (54%), Gaps = 16/180 (8%)

Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           Y+ K++++GD  VGK  +L   + E +F        ++ P   G       + + T  I 
Sbjct: 1   YIFKYIIIGDMGVGKSCLLHQ-FTEKKF-------MADCPHTIG-------VEFGTRIIE 45

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA- 177
           ++G+++KLQ+WDT+GQ RF  + RSY RGA G L+VYDIT + +++ +  WL +      
Sbjct: 46  VNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTN 105

Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
           P     L+GN+  L   R VT  EA+ +A +N + F E S     N+ ++F E +++  Q
Sbjct: 106 PNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ 165

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

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

 Score =  110 bits (276), Expect = 2e-28
 Identities = 62/180 (34%), Positives = 95/180 (52%), Gaps = 15/180 (8%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +LVGDS VGK  +L          RF      +  F +GS      + +    + +DG
Sbjct: 2   KVMLVGDSGVGKTCLLV---------RF-----KDGAFLAGSFIATVGIQFTNKVVTVDG 47

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPG-V 180
            +VKLQ+WDT+GQ RF ++  +Y R A  +LL+YD+TNK SFD I  WL E+ E+A   V
Sbjct: 48  VKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDV 107

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNG 240
             +L+GN+  ++  R V   + E  A +  + F E S     N+  +FT +++    R+ 
Sbjct: 108 VIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRSV 167

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

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

 Score =  106 bits (266), Expect = 3e-27
 Identities = 60/190 (31%), Positives = 100/190 (52%), Gaps = 31/190 (16%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD-----DMLAYKTT 115
           LK +++GDS VGK  +++  Y+  +F                S +Y      D L   T 
Sbjct: 1   LKVIILGDSGVGKTSLMNQ-YVNKKF----------------SNQYKATIGADFL---TK 40

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
            + +D + V LQ+WDT+GQ RF ++  ++ RGA   +LVYD+TN  SF+ +D W  E   
Sbjct: 41  EVTVDDRLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLI 100

Query: 176 HA----PG-VPKVLVGNRLHLAFNRTVTTREAEMY-AIKNQMAFFEVSPLCDFNIRESFT 229
            A    P   P V++GN++ L   R V+T++A+ +   K  + +FE S     N+ ++F 
Sbjct: 101 QASPRDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFE 160

Query: 230 ELSRRALQRN 239
            ++R AL++ 
Sbjct: 161 TIARLALEQE 170

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

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

 Score =  104 bits (262), Expect = 9e-27
 Identities = 58/173 (33%), Positives = 92/173 (53%), Gaps = 16/173 (9%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           + K L++G+S VGK          + F   + D S  S F S  G     + +K  T+  
Sbjct: 1   MFKLLIIGNSSVGK----------TSFLFRYADDSFTSAFVSTVG-----IDFKVKTVYR 45

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPG 179
           + KR+KLQ+WDT+GQ R+ TI  +Y RGA G +L+YDITN+ SF+ +  W  +++ ++  
Sbjct: 46  NDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWD 105

Query: 180 VPKV-LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
             +V LVGN+  +   R V+       A +    FFE S   + N+++ F  L
Sbjct: 106 NAQVILVGNKCDMEDERVVSAERGRQLADQLGFEFFEASAKENINVKQVFERL 158

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

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

 Score =  105 bits (263), Expect = 1e-26
 Identities = 54/159 (33%), Positives = 89/159 (55%), Gaps = 18/159 (11%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +++GDS+VGK   L+  +   RFP       +E+            + ++  T+ +DG
Sbjct: 4   KIIVIGDSNVGKT-CLTYRFCAGRFPE-----RTEATIG---------VDFRERTVEIDG 48

Query: 122 KRVKLQLWDTSGQGRF-CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--P 178
           +R+K+QLWDT+GQ RF  ++++ Y R    ++ VYD+TN  SF  +  W++E E+H+   
Sbjct: 49  ERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPN 108

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
            VP++LVGN+  L     V T  A+ +A  + M  FE S
Sbjct: 109 EVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETS 147

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

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

 Score =  105 bits (263), Expect = 2e-26
 Identities = 55/148 (37%), Positives = 91/148 (61%), Gaps = 3/148 (2%)

Query: 99  FCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDIT 158
           FC  + K    + +K  T+ L GK+++LQ+WDT+GQ RF +I  +Y R A+GI+LVYDIT
Sbjct: 25  FC-EACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDIT 83

Query: 159 NKWSFDGIDRWLKEVEEHAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEV 216
            K +FD + +W+K ++++A      +LVGN+L    +R +T ++ E +A +   M F E 
Sbjct: 84  KKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEA 143

Query: 217 SPLCDFNIRESFTELSRRALQRNGMERL 244
           S   +FN+ E F +L    L++  ++ L
Sbjct: 144 SAKDNFNVDEIFLKLVDDILKKMPLDIL 171

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

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

 Score =  103 bits (259), Expect = 7e-26
 Identities = 64/187 (34%), Positives = 94/187 (50%), Gaps = 25/187 (13%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLY---LESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           YD   K LL+GDS VGK  +L       +E   P   +D                   +K
Sbjct: 11  YDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVD-------------------FK 51

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKE 172
              + + GKR+KL +WDT+GQ RF T+  SY R AQGI+LVYD+T + +F  + D W KE
Sbjct: 52  IKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKE 111

Query: 173 VEEHAPG--VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           VE ++      K+LVGN++     R V+  E    A ++   F E S     N+ + F E
Sbjct: 112 VELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEE 171

Query: 231 LSRRALQ 237
           L+ + ++
Sbjct: 172 LALKIME 178

Length = 211

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

 Score = 99.5 bits (248), Expect = 1e-24
 Identities = 61/190 (32%), Positives = 97/190 (51%), Gaps = 19/190 (10%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRF-PRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           YDYL+K L +GDS VGK   L   Y +++F P+F            G    +  + Y + 
Sbjct: 1   YDYLIKLLALGDSGVGKTTFLYR-YTDNKFNPKFIT--------TVGIDFREKRVVYNSQ 51

Query: 116 ---TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
                     RV LQLWDT+GQ RF ++  ++ R A G LL++D+T++ SF  +  W+ +
Sbjct: 52  GPDGTSGKAFRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQ 111

Query: 173 VEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           ++ HA    P +  VL+GN+  L   R V+ R+A   A K  + +FE S     N+ ++ 
Sbjct: 112 LQAHAYCENPDI--VLIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAV 169

Query: 229 TELSRRALQR 238
             L    ++R
Sbjct: 170 ETLLDLIMKR 179

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

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

 Score = 94.4 bits (235), Expect = 6e-23
 Identities = 43/109 (39%), Positives = 63/109 (57%)

Query: 124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKV 183
           V+L LWDT+GQ  F  I ++Y RGAQ  +LV+  T++ SF+ I+ W ++VE     +P V
Sbjct: 51  VRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMV 110

Query: 184 LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
           LV  ++ L     +T  EAE  A + Q+  F  S   DFN+ E F  L+
Sbjct: 111 LVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA 159

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

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

 Score = 94.1 bits (235), Expect = 6e-23
 Identities = 43/123 (34%), Positives = 60/123 (48%), Gaps = 2/123 (1%)

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             I++DG+   L + DT+GQ  F  +   Y R   G +LVY IT++ SF+ I    +++ 
Sbjct: 38  KQIVVDGETYTLDILDTAGQEEFSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQIL 97

Query: 175 E--HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
                  VP VLVGN+  L   R V+T E E  A +    F E S   + NI E F  L 
Sbjct: 98  RVKDKEDVPIVLVGNKCDLENERQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLV 157

Query: 233 RRA 235
           R  
Sbjct: 158 REI 160

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

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

 Score = 90.3 bits (224), Expect = 2e-21
 Identities = 38/123 (30%), Positives = 61/123 (49%), Gaps = 2/123 (1%)

Query: 113 KTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
           KT  +      V+L ++D++GQ  F  ++ +       + +VYD+TN+ SF+   RW+  
Sbjct: 42  KTVPVPDTSDSVELFIFDSAGQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINR 101

Query: 173 VEEHAPGV--PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           V  H+ G+  P VLVGN+  L   R V   +A+  A  N + F+E S          F  
Sbjct: 102 VRTHSHGLHTPGVLVGNKCDLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLS 161

Query: 231 LSR 233
           L+R
Sbjct: 162 LAR 164

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

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

 Score = 87.7 bits (218), Expect = 1e-20
 Identities = 57/174 (32%), Positives = 91/174 (52%), Gaps = 16/174 (9%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +L+G+  VGK  ++   Y+E++F     +   ES   +         ++   T+ + G
Sbjct: 2   KVVLLGEGRVGKTSLVLR-YVENKF-----NEKHESTTQA---------SFFQKTVNIGG 46

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGV 180
           KR+ L +WDT+GQ R+  +   Y R A G +LVYDIT+  SF  + +W+KE+++     +
Sbjct: 47  KRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNI 106

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             V+VGN++ L   R V+  EAE YA       FE S      I E F  L++R
Sbjct: 107 SLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKR 160

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

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

 Score = 84.2 bits (208), Expect = 8e-19
 Identities = 62/222 (27%), Positives = 96/222 (43%), Gaps = 40/222 (18%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML--AYKT 114
           +    K +++GD  VGK  +L+ L +   FP                  Y   +      
Sbjct: 2   FMKEFKIVVLGDGGVGKTTLLNRL-VGDEFPE----------------GYPPTIGNLDPA 44

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDG-IDRWLKEV 173
            TI    + +KLQLWDT+GQ  + ++   Y RGA GIL+VYD T + S D   + WL+E+
Sbjct: 45  KTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEEL 104

Query: 174 EEHAP-GVPKVLVGNRLHLAFNRTVTTREAEMYA---------------IKNQMAFFEVS 217
            E AP  VP +LVGN++ L   ++ +                            A  E S
Sbjct: 105 RELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETS 164

Query: 218 PLCDF--NIRESFTELSRRALQRNGMERLWRSNKVGRKPLIN 257
                  N+ E F EL R+ L+   +E+L   N++ +   +N
Sbjct: 165 AKSLTGPNVNELFKELLRKLLEE--IEKLVLKNELRQLDRLN 204

Length = 219

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

 Score = 82.6 bits (204), Expect = 9e-19
 Identities = 48/177 (27%), Positives = 90/177 (50%), Gaps = 18/177 (10%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K +L+GDS VGK +++          RF +DG       + +     +  YK      +
Sbjct: 1   VKIILLGDSAVGKSKLVE---------RFLMDGYEPQQLSTYA-----LTLYKHNAKF-E 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
           GK + +  WDT+GQ RF T+  SY   A   +LV+D+T K ++  + +W +E+ E+ P +
Sbjct: 46  GKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEI 105

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
           P ++V N++ L  +    T++   +A K+ +  + VS     N+ + F +  + A+ 
Sbjct: 106 PCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVS 159

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

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

 Score = 81.2 bits (201), Expect = 4e-18
 Identities = 47/179 (26%), Positives = 80/179 (44%), Gaps = 25/179 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTTIL 118
           +K + +G+S VGK  I+   Y E RF                  KY   +   Y    + 
Sbjct: 1   IKVISMGNSGVGKSCIIK-RYCEGRF----------------VSKYLPTIGIDYGVKKVS 43

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP 178
           +  K V++  +D SG   +  +   + +  QG+LLVYD+T++ SF+ +D WLKE+++   
Sbjct: 44  VRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGG 103

Query: 179 GVPK------VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
                     V+  N++ L  +R V+  E  ++A      +FE S      + E F  L
Sbjct: 104 PHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTL 162

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

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

 Score = 81.1 bits (201), Expect = 4e-18
 Identities = 43/128 (33%), Positives = 65/128 (50%), Gaps = 10/128 (7%)

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW---- 169
              I +DG+   L + DT+GQ  F  +   Y R  +G LLVY IT++ SF+ I ++    
Sbjct: 38  RKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQI 97

Query: 170 --LKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRES 227
             +K+ ++    VP VLVGN+  L   R V+T E +  A +    F E S     N+ E+
Sbjct: 98  LRVKDRDD----VPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEA 153

Query: 228 FTELSRRA 235
           F +L R  
Sbjct: 154 FYDLVREI 161

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

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

 Score = 80.7 bits (200), Expect = 4e-18
 Identities = 43/125 (34%), Positives = 64/125 (51%), Gaps = 4/125 (3%)

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW---L 170
              I +DG+   L + DT+GQ  F  +   Y R  +G LLVY IT++ SF+ I ++   +
Sbjct: 40  RKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQI 99

Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
             V++    VP VLVGN+  L   R V+T E +  A +    F E S     N+ E+F +
Sbjct: 100 LRVKDRDD-VPIVLVGNKCDLENERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYD 158

Query: 231 LSRRA 235
           L R  
Sbjct: 159 LVREI 163

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

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

 Score = 80.9 bits (199), Expect = 6e-18
 Identities = 45/124 (36%), Positives = 69/124 (55%), Gaps = 1/124 (0%)

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           + + T+ LD   V+LQLWDT+GQ RF ++I SY R +   ++VYDITN+ SF+   +W++
Sbjct: 17  FLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQ 76

Query: 172 EV-EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           ++  E    V   LVGN+  L   R VT  E    A +    F E S     NI+  F +
Sbjct: 77  DILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKK 136

Query: 231 LSRR 234
           ++ +
Sbjct: 137 IAAK 140

Length = 176

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

 Score = 78.8 bits (195), Expect = 2e-17
 Identities = 43/141 (30%), Positives = 64/141 (45%), Gaps = 20/141 (14%)

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIR--SYSRGAQGILLVYDITNKWSFDGI-DRWL 170
           +  + +DGK V+L LWDT+GQ  +   +R  SY       L+ + + +  SF+ + ++W 
Sbjct: 36  SADVEVDGKPVELGLWDTAGQEDYDR-LRPLSYP-DTDVFLICFSVDSPASFENVKEKWY 93

Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE-------MYAIKNQMA-------FFEV 216
            EV+   P VP +LVG +L L  N   T  E          Y     +A       + E 
Sbjct: 94  PEVKHFCPNVPIILVGTKLDLR-NDKSTLEELSKKKQEPVTYEQGQALAKRIGAVKYLEC 152

Query: 217 SPLCDFNIRESFTELSRRALQ 237
           S L    +RE F E  R AL 
Sbjct: 153 SALTQEGVREVFEEAIRAALN 173

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

>gnl|CDD|239711 cd03742, SOCS_Rab40, SOCS (suppressors of cytokine signaling) box of Rab40-like proteins

 Score = 74.9 bits (184), Expect = 2e-17
 Identities = 28/41 (68%), Positives = 35/41 (85%)

Query: 316 VISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTS 356
           V+SLQ+LCCRAIV+ T VY I++LPLP  IKSHLKS+AM +
Sbjct: 3   VLSLQDLCCRAIVSCTPVYLIDKLPLPVSIKSHLKSFAMAN 43

Rab40 is part of the Rab family of small GTP-binding proteins that form the largest family within the Ras superfamily. Rab proteins regulate vesicular trafficking pathways, behaving as membrane-associated molecular switches. Rab40 is characterized by a SOCS box c-terminal to the GTPase domain. The SOCS boxes interact with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions. Length = 43

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

 Score = 77.6 bits (192), Expect = 7e-17
 Identities = 51/187 (27%), Positives = 85/187 (45%), Gaps = 31/187 (16%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP          P       +D+   Y +  + +D
Sbjct: 1   IKIVVVGDGAVGKTCLLIS-YTTNKFPT------EYVPTV-----FDN---Y-SANVTVD 44

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYS-RGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           GK+V L LWDT+GQ  +   +R  S       LL + + +  SF+ +  +W  E++ + P
Sbjct: 45  GKQVNLGLWDTAGQEEYDR-LRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYCP 103

Query: 179 GVPKVLVGNRLHL-----------AFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRE 226
            VP +LVG ++ L              + +T  E E  A +   + + E S L    ++E
Sbjct: 104 NVPIILVGTKIDLRDDGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKE 163

Query: 227 SFTELSR 233
            F E  R
Sbjct: 164 VFDEAIR 170

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

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

 Score = 76.5 bits (189), Expect = 1e-16
 Identities = 45/138 (32%), Positives = 71/138 (51%), Gaps = 9/138 (6%)

Query: 104 GKYDDMLA--YKTTTILLDGKRVKLQLWDTSGQ-GRFCTIIR-SYSRGAQGILLVYDITN 159
           G+Y+  L   Y     + DG++V L++ DT GQ             R A G +LVY IT+
Sbjct: 26  GEYEPNLESLYSRQVTI-DGEQVSLEIQDTPGQQQNEDPESLERSLRWADGFVLVYSITD 84

Query: 160 KWSFDGIDRWLKEVEEHAP---GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV 216
           + SFD + + L+ + E       +P +LVGN+  L  +R V+T E +  A++    FFEV
Sbjct: 85  RSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADLLHSRQVSTEEGQKLALELGCLFFEV 144

Query: 217 SPLCDFN-IRESFTELSR 233
           S   ++  ++  F EL R
Sbjct: 145 SAAENYLEVQNVFHELCR 162

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

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

 Score = 75.5 bits (186), Expect = 3e-16
 Identities = 49/159 (30%), Positives = 73/159 (45%), Gaps = 18/159 (11%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD +VGK  +L+ L              +E       G   +   Y TT I  DG
Sbjct: 3   KIVIVGDPNVGKSTLLNRLLGNKISI-------TEY----KPGTTRN---YVTTVIEEDG 48

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKW-SF-DGIDRWLKEVEEHAP- 178
           K  K  L DT+GQ  +  I R Y R  +  L V+DI        + +++  KE+  HA  
Sbjct: 49  KTYKFNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAES 108

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
           GVP +LVGN++ L   + + T  A ++A  N      +S
Sbjct: 109 GVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLS 146

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

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

 Score = 75.1 bits (185), Expect = 5e-16
 Identities = 36/121 (29%), Positives = 66/121 (54%), Gaps = 10/121 (8%)

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW------LKE 172
           +DG+  +L + DT+GQ  F  +   Y R  +G LLV+ +T++ SF+ +D++      +K+
Sbjct: 45  IDGQWARLDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKD 104

Query: 173 VEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
            +E     P +LVGN+  L   R V+  E +  A + ++ + E S     N+ ++F +L 
Sbjct: 105 RDEF----PMILVGNKADLEHQRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDLV 160

Query: 233 R 233
           R
Sbjct: 161 R 161

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

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

 Score = 74.1 bits (182), Expect = 1e-15
 Identities = 51/181 (28%), Positives = 85/181 (46%), Gaps = 22/181 (12%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           LLK +L+GD  VGK  +++         R+  +      F      +   + +    + +
Sbjct: 5   LLKVILLGDGGVGKSSLMN---------RYVTNKFDTQLF------HTIGVEFLNKDLEV 49

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
           DG  V LQ+WDT+GQ RF ++   + RG+   LL + + +  SF  +  W KE   +A  
Sbjct: 50  DGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADV 109

Query: 178 ---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA-FFEVSPLCDFNIRESFTELSR 233
                 P V++GN++ +   R V+T EA+ +   N    +FE S     N+  +F E  R
Sbjct: 110 KEPESFPFVILGNKIDIP-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVR 168

Query: 234 R 234
           R
Sbjct: 169 R 169

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

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

 Score = 73.9 bits (182), Expect = 3e-15
 Identities = 51/196 (26%), Positives = 82/196 (41%), Gaps = 39/196 (19%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT----- 115
            K L++GD  VGK  I+   Y+   F +                       YK T     
Sbjct: 1   FKVLVIGDLGVGKTSIIK-RYVHGVFSQH----------------------YKATIGVDF 37

Query: 116 ---TILLDGKR-VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
               I  D    V+LQLWD +GQ RF  + R Y +GA G ++V+D+T   +F+ + +W  
Sbjct: 38  ALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKA 97

Query: 172 EVEEH---APG--VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ--MAFFEVSPLCDFNI 224
           +++       G  +P +L+ N+  L   R     E      K    + +FE S   + NI
Sbjct: 98  DLDSKVTLPNGEPIPALLLANKCDLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINI 157

Query: 225 RESFTELSRRALQRNG 240
            E+   L +  L+ + 
Sbjct: 158 EEAMRFLVKNILKNDK 173

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

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

 Score = 71.8 bits (176), Expect = 2e-14
 Identities = 42/98 (42%), Positives = 55/98 (56%), Gaps = 4/98 (4%)

Query: 124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL---KEVEEHAPGV 180
           V LQ+WD  GQ     ++  Y  GAQ + LVYDITN  SF+ ++ WL   K+V E +   
Sbjct: 50  VTLQVWDIGGQQIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETK 109

Query: 181 PK-VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
           PK VLVGN+  L  NR VT  +   +A +N M    VS
Sbjct: 110 PKMVLVGNKTDLEHNRQVTAEKHARFAQENDMESIFVS 147

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

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

 Score = 68.0 bits (166), Expect = 2e-13
 Identities = 49/174 (28%), Positives = 78/174 (44%), Gaps = 18/174 (10%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +++G   VGK  + +  ++   FP +  D + E              AYKT    +D 
Sbjct: 4   KIVMLGAGGVGKSAV-TMQFISHSFPDYH-DPTIED-------------AYKTQ-ARIDN 47

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE--HAPG 179
           +   L + DT+GQ  F  +   Y R  +G ++ Y +T++ SF     + + +        
Sbjct: 48  EPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTED 107

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           +P VLVGN++ L   R VTT E    A +    FFE S    F I ++F  L R
Sbjct: 108 IPLVLVGNKVDLEQQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVR 161

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

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

 Score = 66.8 bits (163), Expect = 5e-13
 Identities = 50/186 (26%), Positives = 88/186 (47%), Gaps = 25/186 (13%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML--AYKTTTILL 119
           K +++GD  VGK  +   L L                F      YD  +  +Y+   ++ 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNH--------------FVE---TYDPTIEDSYRKQVVV- 42

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV----EE 175
           DG+   L++ DT+GQ  +  +   + R  +G +LVY IT++ +F+ ++R+ +++    +E
Sbjct: 43  DGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDE 102

Query: 176 HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
            A  VP ++VGN+    + R V+T E    A +    F E S   + N+  +F  L R  
Sbjct: 103 SAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRAL 162

Query: 236 -LQRNG 240
             QR G
Sbjct: 163 RQQRQG 168

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

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

 Score = 66.7 bits (163), Expect = 5e-13
 Identities = 55/185 (29%), Positives = 85/185 (45%), Gaps = 36/185 (19%)

Query: 61  LKFLLVGDSDVGKQE-ILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           LK +LVGD  VGK   I+S  Y  + +P  ++  +           +D+     +  +L+
Sbjct: 1   LKCVLVGDGAVGKTSLIVS--YTTNGYPTEYVPTA-----------FDNF----SVVVLV 43

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRS--YSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEH 176
           DGK V+LQL DT+GQ  F   +R   Y       LL + + N  SF  I ++W+ E+ +H
Sbjct: 44  DGKPVRLQLCDTAGQDEFDK-LRPLCYP-DTDVFLLCFSVVNPSSFQNISEKWIPEIRKH 101

Query: 177 APGVPKVLVGNR----------LHLAFNR--TVTTREAEMYAIKNQMA-FFEVSPLCDFN 223
            P  P +LVG +          + LA      V+   A+  A K     + E S L   N
Sbjct: 102 NPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKN 161

Query: 224 IRESF 228
           ++E F
Sbjct: 162 LKEVF 166

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

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

 Score = 65.1 bits (159), Expect = 1e-12
 Identities = 40/122 (32%), Positives = 65/122 (53%), Gaps = 6/122 (4%)

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI----DRWLK 171
            ++LDG+ V+L + DT+GQ  +  I  +Y R  +G LLV+ IT+  SF  +    ++ L+
Sbjct: 40  KVVLDGEEVQLNILDTAGQEDYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILR 99

Query: 172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
             E+    VP +LVGN+  L   R V+  EA   A +  + + E S     N+ + F +L
Sbjct: 100 VKED--DNVPLLLVGNKCDLEDKRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDL 157

Query: 232 SR 233
            R
Sbjct: 158 VR 159

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

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

 Score = 65.2 bits (159), Expect = 1e-12
 Identities = 40/142 (28%), Positives = 69/142 (48%), Gaps = 7/142 (4%)

Query: 99  FCSGS--GKYDDMLA-YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVY 155
           F SG+   KYD  +  +    I +D     L++ DT+G  +F ++   Y +  QG ++VY
Sbjct: 21  FVSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVY 80

Query: 156 DITNKWSFDGIDRWLKEVEEHAPG---VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA 212
            + N+ +F  I + +++      G   VP +LVGN++ L   R V++ E    A +    
Sbjct: 81  SLVNQQTFQDI-KPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCP 139

Query: 213 FFEVSPLCDFNIRESFTELSRR 234
           F E S      + E F E+ R+
Sbjct: 140 FMETSAKSKTMVNELFAEIVRQ 161

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

>gnl|CDD|239687 cd03717, SOCS_SOCS_like, SOCS (suppressors of cytokine signaling) box of SOCS-like proteins

 Score = 61.1 bits (149), Expect = 2e-12
 Identities = 19/38 (50%), Positives = 22/38 (57%)

Query: 315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY 352
           SV SLQ LC   I   T    I+QLPLP  +K +LK Y
Sbjct: 2   SVRSLQHLCRFVIRQCTRRDLIDQLPLPRRLKDYLKEY 39

The CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. These intracellular proteins regulate the responses of immune cells to cytokines. Identified as negative regulators of the cytokine-JAK-STAT pathway, they seem to play a role in many immunological and pathological processes. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. Related SOCS boxes are also present in Rab40-like proteins and insect proteins of unknown function that also contain a NEUZ (domain in neuralized proteins) domain. Length = 39

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

 Score = 64.5 bits (157), Expect = 2e-12
 Identities = 41/138 (29%), Positives = 70/138 (50%), Gaps = 13/138 (9%)

Query: 105 KYDDML--AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS 162
           KYD  +  +Y+   + +DG++  L++ DT+G  +F  +   Y +  QG +LVY IT + +
Sbjct: 29  KYDPTIEDSYRKQ-VEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQST 87

Query: 163 FDGIDRW------LKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV 216
           F+ +         +K+ E+    VP +LVGN+  L   R V   + +  A +   AF E 
Sbjct: 88  FNDLQDLREQILRVKDTED----VPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLET 143

Query: 217 SPLCDFNIRESFTELSRR 234
           S     N+ E F +L R+
Sbjct: 144 SAKAKINVNEIFYDLVRQ 161

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

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

 Score = 65.1 bits (159), Expect = 2e-12
 Identities = 61/214 (28%), Positives = 90/214 (42%), Gaps = 33/214 (15%)

Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D  +K ++VGD   GK  +L  +Y +  FP  ++    E+              Y TT  
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLM-VYAQGSFPEEYVPTVFEN--------------YVTTLQ 45

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIR-SYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEE 175
           + +GK ++L LWDT+GQ  +  +   SY      IL+ Y + N  S D + D+W  EV  
Sbjct: 46  VPNGKIIELALWDTAGQEDYDRLRPLSYP-DVDVILICYSVDNPTSLDNVEDKWYPEVNH 104

Query: 176 HAPGVPKVLVG------------NRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDF 222
             PG P VLVG            ++L       VT  + E  A     +A+ E S     
Sbjct: 105 FCPGTPIVLVGLKTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLME 164

Query: 223 NIRESFTELSRRALQRNGMERLWRSNKVGRKPLI 256
           N+ E F      AL  +   R  R  K  +K +I
Sbjct: 165 NVDEVFDAAINVAL--SKSGRAARKKKKKKKCVI 196

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

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

 Score = 64.4 bits (157), Expect = 3e-12
 Identities = 42/141 (29%), Positives = 58/141 (41%), Gaps = 28/141 (19%)

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSR-------GAQGILLVYDITNKWSFDGI-DR 168
           I +DGK+V+L LWDT+GQ         Y R           IL+ + I +  S + I ++
Sbjct: 42  IEVDGKQVELALWDTAGQ-------EDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEK 94

Query: 169 WLKEVEEHAPGVPKVLVGNR------------LHLAFNRTVTTREAEMYAIK-NQMAFFE 215
           W  EV+   P VP +LVGN+            L       V   E    A K     + E
Sbjct: 95  WTPEVKHFCPNVPIILVGNKKDLRNDEHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLE 154

Query: 216 VSPLCDFNIRESFTELSRRAL 236
            S      +RE F   +R AL
Sbjct: 155 CSAKTKEGVREVFEMATRAAL 175

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

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

 Score = 64.0 bits (156), Expect = 3e-12
 Identities = 39/120 (32%), Positives = 65/120 (54%), Gaps = 5/120 (4%)

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW---LKEV 173
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I ++ SF+ I  +   +K V
Sbjct: 42  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRV 101

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           ++ +  VP VLVGN+  LA  RTV+TR+ +  A    + + E S      + E+F  L R
Sbjct: 102 KD-SDDVPMVLVGNKCDLA-ARTVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVR 159

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

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

 Score = 64.5 bits (157), Expect = 4e-12
 Identities = 43/172 (25%), Positives = 78/172 (45%), Gaps = 18/172 (10%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K +++G   VGK  ++   Y+  RF    L G  ++   +         A+    +++ 
Sbjct: 1   VKVVMLGKESVGKTSLVE-RYVHHRF----LVGPYQNTIGA---------AFVAKRMVVG 46

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
            + V L +WDT+G  R+  + R Y RGA+  ++ YD+T+  SF+    W+KE++      
Sbjct: 47  ERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHC 106

Query: 181 PKVLVGNRLHLAFN----RTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
              L G +  L       R V   + + +A + +   FE S     N+ E F
Sbjct: 107 KIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELF 158

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

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

 Score = 63.4 bits (154), Expect = 7e-12
 Identities = 38/118 (32%), Positives = 64/118 (54%), Gaps = 4/118 (3%)

Query: 126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE-VEEHAPG-VPKV 183
           LQLWDT+GQ RF  I  +Y RGAQ I++V+D+T+  S +   +WL++ ++E+ P  V   
Sbjct: 51  LQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLF 110

Query: 184 LVGNRLHLAFNRTVTTREAEMYAIKNQMA--FFEVSPLCDFNIRESFTELSRRALQRN 239
           LVG +  L+        E +   +  +M   ++ VS L   N+R+ F  ++    +  
Sbjct: 111 LVGTKKDLSSPAQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRVASLTFELG 168

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

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

 Score = 63.3 bits (154), Expect = 8e-12
 Identities = 38/110 (34%), Positives = 57/110 (51%), Gaps = 2/110 (1%)

Query: 126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHAPGVPKV 183
           L + DT+GQ  +  +   Y R  QG L VY IT++ SF+ I  + +++   +    VP +
Sbjct: 55  LDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMI 114

Query: 184 LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           LVGN+  L   R V+T E +  A    + F E S     N+ E+F EL R
Sbjct: 115 LVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVR 164

Length = 189

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

 Score = 63.0 bits (154), Expect = 1e-11
 Identities = 38/120 (31%), Positives = 61/120 (50%), Gaps = 2/120 (1%)

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR-WLKE 172
           +  I   G+   L++ DT+GQ  +  + + YS G  G +LVY +T++ SF+ +   + K 
Sbjct: 39  SKIITYKGQEYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKI 98

Query: 173 VEEH-APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++      VP VLVGN+  L   R V+  E +  A     AF E S   + N+ E+F  L
Sbjct: 99  LDMLGKESVPIVLVGNKSDLHMERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELL 158

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

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

 Score = 61.4 bits (149), Expect = 2e-11
 Identities = 48/186 (25%), Positives = 82/186 (44%), Gaps = 39/186 (20%)

Query: 62  KFLLVGDSDVGKQ----EILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML--AYKTT 115
           K +++G   VGK     + + G++++                     KYD  +  +Y+  
Sbjct: 3   KLVVLGSGGVGKSALTVQFVQGIFVD---------------------KYDPTIEDSYRKQ 41

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
            I +D ++  L++ DT+G  +F  +   Y +  QG  LVY IT + SF+     L+++ E
Sbjct: 42  -IEVDCQQCMLEILDTAGTEQFTAMRDLYIKNGQGFALVYSITAQQSFND----LQDLRE 96

Query: 176 H------APGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESF 228
                     VP +LVGN+  L   R V+  E +  A +     F E S     N+ E F
Sbjct: 97  QILRVKDTEDVPMILVGNKCDLEDERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIF 156

Query: 229 TELSRR 234
            +L R+
Sbjct: 157 YDLVRQ 162

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

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

 Score = 61.4 bits (149), Expect = 4e-11
 Identities = 42/131 (32%), Positives = 63/131 (48%), Gaps = 12/131 (9%)

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRG-AQGILLVYDITNKWSFDGID-RWLKEVE 174
           I +DG  V+L LWDT+GQ  F   +RS S      I+L + + N  S + ++ +WL E+ 
Sbjct: 41  IFVDGLAVELSLWDTAGQEEF-DRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIR 99

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA---------FFEVSPLCDFNIR 225
            H PGV  VLV  +  L   R    R     + +  +A         + E S   +  + 
Sbjct: 100 HHCPGVKLVLVALKCDLREPRNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVN 159

Query: 226 ESFTELSRRAL 236
           E+FTE +R AL
Sbjct: 160 EAFTEAARVAL 170

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

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

 Score = 60.6 bits (147), Expect = 6e-11
 Identities = 50/189 (26%), Positives = 80/189 (42%), Gaps = 34/189 (17%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY-DDMLAYKTTTILL 119
           +K ++VGD  VGK  +L   Y  + FP                G+Y   +    +  +++
Sbjct: 2   IKCVVVGDGAVGKTCLLIS-YTTNAFP----------------GEYIPTVFDNYSANVMV 44

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGID-RWLKEVEEHA 177
           DGK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H 
Sbjct: 45  DGKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC 103

Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAE------MYAIKNQMA-------FFEVSPLCDFNI 224
           P  P +LVG +L L  ++    +  E       Y     MA       + E S L    +
Sbjct: 104 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL 163

Query: 225 RESFTELSR 233
           +  F E  R
Sbjct: 164 KTVFDEAIR 172

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

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

 Score = 60.2 bits (146), Expect = 9e-11
 Identities = 35/125 (28%), Positives = 66/125 (52%), Gaps = 3/125 (2%)

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             + +DG++  L++ DT+G  +F  +   Y +  QG LLVY +T++ S + +    ++V 
Sbjct: 40  KQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVL 99

Query: 175 --EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTEL 231
             + +  VP VLVGN+  L  +R V+  +    + +   + F+E S     N+ E F +L
Sbjct: 100 RIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDL 159

Query: 232 SRRAL 236
            R+ +
Sbjct: 160 VRQII 164

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

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

 Score = 59.9 bits (145), Expect = 1e-10
 Identities = 45/133 (33%), Positives = 70/133 (52%), Gaps = 19/133 (14%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K + VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 2   IKCVTVGDGAVGKTCMLIS-YTSNTFPTDYV-----------PTVFDNFSA----NVVVD 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYS-RGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           G  V L LWDT+GQ  +   +R  S RGA   LL + + +K S++ +  +W+ E+  +AP
Sbjct: 46  GNTVNLGLWDTAGQEDY-NRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYAP 104

Query: 179 GVPKVLVGNRLHL 191
           GVP VLVG +L L
Sbjct: 105 GVPIVLVGTKLDL 117

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

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

 Score = 58.1 bits (140), Expect = 7e-10
 Identities = 26/120 (21%), Positives = 63/120 (52%), Gaps = 2/120 (1%)

Query: 123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK 182
            ++  +WDT+GQ +F  +   Y    Q  ++++D+T + ++  +  W +++      +P 
Sbjct: 43  PIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPI 102

Query: 183 VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGME 242
           VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  L+R+ +    +E
Sbjct: 103 VLCGNKVDVK-DRKVKAKSITFHRKKN-LQYYDISAKSNYNFEKPFLWLARKLIGDPNLE 160

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

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

 Score = 57.4 bits (139), Expect = 8e-10
 Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 21/133 (15%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +LVGDS  GK  +L  ++ +  FP  ++    E+                T +  +D 
Sbjct: 3   KIVLVGDSQCGKTALLQ-VFAKDSFPENYVPTVFEN---------------YTASFEVDK 46

Query: 122 KRVKLQLWDTSGQGRFCTIIR--SYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           +R++L LWDTSG   +   +R  SY   +  +L+ +DI+   + D +  +W  EV E  P
Sbjct: 47  QRIELSLWDTSGSPYYDN-VRPLSYPD-SDAVLICFDISRPETLDSVLKKWKGEVREFCP 104

Query: 179 GVPKVLVGNRLHL 191
             P +LVG +  L
Sbjct: 105 NTPVLLVGCKSDL 117

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

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

 Score = 55.9 bits (135), Expect = 9e-10
 Identities = 37/131 (28%), Positives = 57/131 (43%), Gaps = 18/131 (13%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +++GD   GK  +LS L      P        E     G     D       T+ +DG
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPP-----EPLEIQ---GDTLAVD-------TLEVDG 45

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR---WLKEVEEHAP 178
               L +WD  G+         + + A  ILLVYD+T++ S + + R   WL  + +   
Sbjct: 46  DTGLLNIWDFGGREELKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGG 105

Query: 179 GVPKVLVGNRL 189
            +P +LVGN+L
Sbjct: 106 KIPVILVGNKL 116

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

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

 Score = 56.3 bits (136), Expect = 1e-09
 Identities = 48/160 (30%), Positives = 65/160 (40%), Gaps = 21/160 (13%)

Query: 64  LLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKR 123
           ++VG   VGK  +L+ L              S+ P  +      D   Y      LD  +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEV------SDVPGTT-----RDPDVYV---KELDKGK 46

Query: 124 VKLQLWDTSGQGRF-----CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP 178
           VKL L DT G   F       + R   RGA  ILLV D T++ S +   + L        
Sbjct: 47  VKLVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDA-KLLILRRLRKE 105

Query: 179 GVPKVLVGNRLHLAFNRTVT-TREAEMYAIKNQMAFFEVS 217
           G+P +LVGN++ L   R V      E  A    +  FEVS
Sbjct: 106 GIPIILVGNKIDLLEEREVEELLRLEELAKILGVPVFEVS 145

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

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

 Score = 55.5 bits (134), Expect = 6e-09
 Identities = 43/173 (24%), Positives = 82/173 (47%), Gaps = 17/173 (9%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +LVGD  VGK          + F +  L G  E  +    G     L + T       
Sbjct: 11  KLILVGDGGVGK----------TTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTN-----C 55

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP 181
             +   +WDT+GQ +F  +   Y    Q  ++++D+T++ ++  +  W +++      +P
Sbjct: 56  GPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIP 115

Query: 182 KVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
            VLVGN++ +  +R V  R+   +  KN + ++++S   ++N  + F  L+RR
Sbjct: 116 IVLVGNKVDVK-DRQVKARQITFHRKKN-LQYYDISAKSNYNFEKPFLWLARR 166

Length = 215

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

 Score = 54.4 bits (131), Expect = 7e-09
 Identities = 36/111 (32%), Positives = 58/111 (52%), Gaps = 6/111 (5%)

Query: 126 LQLWDTSGQGRFCTIIR-SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE----HAPGV 180
           LQ+ DT+G  +F  + R S S+G    +LVY IT+K S + +    + + E    +   +
Sbjct: 51  LQITDTTGSHQFPAMQRLSISKG-HAFILVYSITSKQSLEELKPIYELICEIKGNNLEKI 109

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           P +LVGN+   + +R V++ E    A     AF E S   + N++E F EL
Sbjct: 110 PIMLVGNKCDESPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQEL 160

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

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

 Score = 55.0 bits (132), Expect = 7e-09
 Identities = 50/198 (25%), Positives = 84/198 (42%), Gaps = 32/198 (16%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP+ ++              +D+   Y   T + D
Sbjct: 4   IKCVVVGDGAVGKTCLLIC-YTTNAFPKEYI-----------PTVFDN---YSAQTAV-D 47

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+ V L LWDT+GQ  +   +R+ S     + ++ + I +  S++ +  +W  EV  H P
Sbjct: 48  GRTVSLNLWDTAGQEEY-DRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCP 106

Query: 179 GVPKVLVGNRLHLAFNRTVTTR--EAEMYAIKNQMA-----------FFEVSPLCDFNIR 225
            VP +LVG +  L  +     +  E     I  Q             + E S L    ++
Sbjct: 107 NVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVK 166

Query: 226 ESFTELSRRALQRNGMER 243
           E F E  R  L    ++ 
Sbjct: 167 EVFAEAVRAVLNPTPIKD 184

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

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

 Score = 52.3 bits (126), Expect = 4e-08
 Identities = 39/177 (22%), Positives = 81/177 (45%), Gaps = 25/177 (14%)

Query: 62  KFLLVGDSDVGK----QEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           K +LVGD   GK    +  L+G + +         G    P           L + T   
Sbjct: 2   KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATL---GVEVHP-----------LDFHTN-- 45

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
                +++  +WDT+GQ +F  +   Y    Q  ++++D+T++ ++  +  W +++    
Sbjct: 46  ---RGKIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC 102

Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             +P VL GN++ +  +R V  ++   +  KN   ++E+S   ++N  + F  L+R+
Sbjct: 103 ENIPIVLCGNKVDIK-DRKVKPKQITFHRKKNLQ-YYEISAKSNYNFEKPFLWLARK 157

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

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

 Score = 52.8 bits (127), Expect = 6e-08
 Identities = 27/112 (24%), Positives = 61/112 (54%), Gaps = 2/112 (1%)

Query: 123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK 182
           +++   WDT+GQ +F  +   Y    Q  ++++D+T + ++  +  W +++      +P 
Sbjct: 61  KIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPI 120

Query: 183 VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           VL GN++ +  NR V  ++   +  KN + ++E+S   ++N  + F  L+R+
Sbjct: 121 VLCGNKVDVK-NRQVKAKQVTFHRKKN-LQYYEISAKSNYNFEKPFLYLARK 170

Length = 219

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

 Score = 51.2 bits (123), Expect = 9e-08
 Identities = 43/182 (23%), Positives = 66/182 (36%), Gaps = 40/182 (21%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLES-------RFPRFWL--DGSSESPFCSGSGKYDDMLA 111
           ++ +L+GD  VGK  ++  L  E          P   +  D + E               
Sbjct: 3   VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVTPE--------------- 47

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWL 170
              TTI+           DTS + +    + +  R A  I LVY +    + + I  +WL
Sbjct: 48  RVPTTIV-----------DTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWL 96

Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM----AFFEVSPLCDFNIRE 226
             +      VP +LVGN+  L    +    E EM  I N+        E S     N+ E
Sbjct: 97  PLIRRLGVKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSE 156

Query: 227 SF 228
            F
Sbjct: 157 VF 158

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

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

 Score = 51.0 bits (122), Expect = 1e-07
 Identities = 41/136 (30%), Positives = 62/136 (45%), Gaps = 16/136 (11%)

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIR--SYSRGAQGILLVYDITNKWSFDGID-RWLK 171
           T   +DGK V+L LWDT+GQ  +   +R  SYS+ A  IL+ + I    S + +  +W++
Sbjct: 40  TDCRVDGKPVQLALWDTAGQEEY-ERLRPLSYSK-AHVILIGFAIDTPDSLENVRTKWIE 97

Query: 172 EVEEHAPGVPKVLVGNRLHL----AFNRTVTTREAEMYAIKNQMA-------FFEVSPLC 220
           EV  + P VP +LVG +  L           T E         +A       + E S L 
Sbjct: 98  EVRRYCPNVPVILVGLKKDLRQEAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALT 157

Query: 221 DFNIRESFTELSRRAL 236
              + + F   +R AL
Sbjct: 158 GEGVDDVFEAATRAAL 173

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

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

 Score = 50.9 bits (122), Expect = 2e-07
 Identities = 39/159 (24%), Positives = 68/159 (42%), Gaps = 7/159 (4%)

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR---WLKE 172
           T+ +DG+   L ++D   Q     +  S  +     ++VY +T++ SF+        L+ 
Sbjct: 41  TVSVDGEEATLVVYDHWEQEDGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRR 100

Query: 173 VEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
               A  +P +LVGN+  L  +R V+ +E    A+     F E S     N+ E F  + 
Sbjct: 101 -ARQAEDIPIILVGNKSDLVRSREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGIV 159

Query: 233 RRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQR 271
           R+   R   +         RK     ES T+ ++R L +
Sbjct: 160 RQVRLRRDSKEKNTRRMASRK---RRESITKKAKRFLSK 195

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

>gnl|CDD|128549 smart00253, SOCS, suppressors of cytokine signalling

 Score = 46.5 bits (111), Expect = 3e-07
 Identities = 16/38 (42%), Positives = 19/38 (50%)

Query: 315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY 352
           +V SLQ LC   I   T    I  LPLP  +K +L  Y
Sbjct: 6   NVPSLQHLCRFTIRRCTRTDQIKTLPLPPKLKDYLSYY 43

suppressors of cytokine signalling. Length = 43

>gnl|CDD|239641 cd03587, SOCS, SOCS (suppressors of cytokine signaling) box

 Score = 46.3 bits (111), Expect = 3e-07
 Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 3/38 (7%)

Query: 318 SLQELCCRAIVART---TVYAINQLPLPNLIKSHLKSY 352
           SLQ LC  AI        +  I++LPLP  +K +L   
Sbjct: 4   SLQHLCRLAIRRCLGKRRLDLIDKLPLPPRLKDYLLYK 41

The SOCS box is found in the C-terminal region of CIS/SOCS family proteins (in combination with a SH2 domain), ASBs (ankyrin repeat-containing proteins with a SOCS box), SSBs (SPRY domain-containing proteins with a SOCS box), and WSBs (WD40 repeat-containing proteins with a SOCS box), as well as, other miscellaneous proteins. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions. Length = 41

>gnl|CDD|198037 smart00969, SOCS_box, The SOCS box acts as a bridge between specific substrate- binding domains and more generic proteins that comprise a large family of E3 ubiquitin protein ligases

 Score = 45.9 bits (110), Expect = 4e-07
 Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 2/35 (5%)

Query: 318 SLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY 352
           SLQ LC  AI  R ++  I++LPLP  +K +L  Y
Sbjct: 2   SLQHLCRLAI--RRSLGGIDKLPLPPRLKDYLLYY 34

Length = 34

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

 Score = 49.1 bits (117), Expect = 8e-07
 Identities = 40/159 (25%), Positives = 69/159 (43%), Gaps = 21/159 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK +L+GD +VGK  +L   Y+E RF         ++    G   Y           L  
Sbjct: 1   LKVVLLGDMNVGKTSLL-HRYMERRFK--------DTVSTVGGAFY-----------LKQ 40

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPG 179
                + +WDT+G+ +F  +   Y RGA  ++L YD++N  S + + DR+L   +     
Sbjct: 41  WGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANED 100

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP 218
               +VGN+L L     +  +E +     +     +V+ 
Sbjct: 101 CLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTL 139

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

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

 Score = 48.1 bits (114), Expect = 1e-06
 Identities = 32/126 (25%), Positives = 59/126 (46%), Gaps = 17/126 (13%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGDS  GK  +L  ++ +  FP  ++    E+                T +  +D 
Sbjct: 7   KIVVVGDSQCGKTALLH-VFAKDCFPENYVPTVFEN---------------YTASFEIDT 50

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           +R++L LWDTSG   +  +       +  +L+ +DI+   + D +  +W  E++E  P  
Sbjct: 51  QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT 110

Query: 181 PKVLVG 186
             +LVG
Sbjct: 111 KMLLVG 116

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

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

 Score = 47.7 bits (113), Expect = 2e-06
 Identities = 36/133 (27%), Positives = 65/133 (48%), Gaps = 19/133 (14%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK ++VGD  VGK  +L   Y    FP  ++                 +  +   ++ + 
Sbjct: 1   LKCVVVGDGAVGKTCLLMS-YANDAFPEEYVP---------------TVFDHYAVSVTVG 44

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK+  L L+DT+GQ  +   +R  S     + L+ + + N  SF  + + W+ E++E+AP
Sbjct: 45  GKQYLLGLYDTAGQEDY-DRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP 103

Query: 179 GVPKVLVGNRLHL 191
            VP +L+G ++ L
Sbjct: 104 NVPYLLIGTQIDL 116

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

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

 Score = 46.8 bits (111), Expect = 3e-06
 Identities = 37/133 (27%), Positives = 66/133 (49%), Gaps = 19/133 (14%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP      S   P       +D+       T+++ 
Sbjct: 2   IKCVVVGDGAVGKTCLLIS-YTTNKFP------SEYVPTV-----FDNY----AVTVMIG 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 46  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 104

Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 105 KTPFLLVGTQIDL 117

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

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

 Score = 46.2 bits (110), Expect = 5e-06
 Identities = 33/150 (22%), Positives = 60/150 (40%), Gaps = 19/150 (12%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK  L+GD+ +GK  ++   Y+E         G  +  +    G     + +   TI + 
Sbjct: 1   LKIGLLGDAQIGKTSLMVK-YVE---------GEFDEEYIQTLG-----VNFMEKTISIR 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
           G  +   +WD  GQ  F  ++    + A  IL ++D+T K + + I  W ++        
Sbjct: 46  GTEITFSIWDLGGQREFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTA 105

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQ 210
             +LVG +    ++        E   I  Q
Sbjct: 106 IPILVGTK----YDLFADLPPEEQEEITKQ 131

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

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

 Score = 46.0 bits (109), Expect = 8e-06
 Identities = 33/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE--HAP 178
           G +V + + DTSG   F  + +   +      LVY + +  SF+ + R  +E+ E     
Sbjct: 44  GVKVTIDILDTSGSYSFPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDK 103

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYA-IKNQMAFFEVSPLCDFNIRESFTELSRRA 235
            VP V+VGN++     R V   +A     +     F E S   + N+ E F EL ++A
Sbjct: 104 FVPIVVVGNKIDSLAERQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELLQQA 161

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

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

 Score = 46.7 bits (111), Expect = 9e-06
 Identities = 33/122 (27%), Positives = 52/122 (42%), Gaps = 11/122 (9%)

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE----- 175
           G+  +L + DTSG   F  + R         +LV+ + N+ SF+ + R  +++ E     
Sbjct: 45  GEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCL 104

Query: 176 -----HAPGVPKVLVGNRLHLAFNRTVTTREAEMY-AIKNQMAFFEVSPLCDFNIRESFT 229
                    +P V+ GN+    F R V   E E         A+FEVS   + N+ E F 
Sbjct: 105 KNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFR 164

Query: 230 EL 231
            L
Sbjct: 165 AL 166

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

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

 Score = 45.0 bits (106), Expect = 3e-05
 Identities = 31/131 (23%), Positives = 60/131 (45%), Gaps = 17/131 (12%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD+  GK  +L  ++ +  +P  ++    E+                T +  +D 
Sbjct: 3   KIVVVGDTQCGKTALLH-VFAKDNYPESYVPTVFEN---------------YTASFEIDK 46

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
            R++L +WDTSG   +  +       +  +L+ +DI+   + D +  +W  E +E  P  
Sbjct: 47  HRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNA 106

Query: 181 PKVLVGNRLHL 191
             VLVG +L +
Sbjct: 107 KLVLVGCKLDM 117

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

>gnl|CDD|219451 pfam07525, SOCS_box, SOCS box

 Score = 40.5 bits (96), Expect = 3e-05
 Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 3/36 (8%)

Query: 318 SLQELCCRAIVARTTVY---AINQLPLPNLIKSHLK 350
           SLQ LC  AI          AI++LPLP  +K +L 
Sbjct: 3   SLQHLCRLAIRRSLGRDRLHAIDKLPLPPRLKDYLL 38

The SOCS box acts as a bridge between specific substrate- binding domains and more generic proteins that comprise a large family of E3 ubiquitin protein ligases. Length = 38

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

 Score = 43.9 bits (103), Expect = 6e-05
 Identities = 33/131 (25%), Positives = 58/131 (44%), Gaps = 17/131 (12%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +LVGD   GK  +L  L  +  +P  ++    E+                T  +  + 
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDC-YPETYVPTVFEN---------------YTACLETEE 58

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD-GIDRWLKEVEEHAPGV 180
           +RV+L LWDTSG   +  +       +  +LL +DI+    FD  + +W  E+ ++ P  
Sbjct: 59  QRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYCPST 118

Query: 181 PKVLVGNRLHL 191
             +L+G +  L
Sbjct: 119 RILLIGCKTDL 129

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

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

 Score = 43.0 bits (101), Expect = 7e-05
 Identities = 47/214 (21%), Positives = 77/214 (35%), Gaps = 58/214 (27%)

Query: 60  LLKFLLVGDSDVGKQEILSG----------LYLESRFPRFWLDGSSESPFCSGSGKYDDM 109
            +K ++VGD+ VGK  ++              L +  P  W                D  
Sbjct: 2   TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVW--------------AIDQY 47

Query: 110 LAYKT----TTILLDGKRVKLQLWDTSGQG----RFCTIIRSYSRGAQGILLVYDITNKW 161
              +     +  ++DG  V L+LWDT G      RF     +Y R +  +LL + I +  
Sbjct: 48  RVCQEVLERSRDVVDGVSVSLRLWDTFGDHDKDRRF-----AYGR-SDVVLLCFSIASPN 101

Query: 162 SFDGIDR-WLKEVEEHAPGVPKVLVGNRLHL------AFNRT-------------VTTRE 201
           S   +   W  E+    P VP +LVG +L L        NR              +    
Sbjct: 102 SLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPET 161

Query: 202 AEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
               A +  + ++E S +  F +++ F    R A
Sbjct: 162 GRAVAKELGIPYYETSVVTQFGVKDVFDNAIRAA 195

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

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

 Score = 42.2 bits (100), Expect = 1e-04
 Identities = 15/72 (20%), Positives = 33/72 (45%), Gaps = 2/72 (2%)

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP 178
           ++ K VK  +WD  GQ +   + + Y     G++ V D +++   +     L ++     
Sbjct: 38  VEYKNVKFTVWDVGGQDKIRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEE 97

Query: 179 --GVPKVLVGNR 188
             G P +++ N+
Sbjct: 98  LKGAPLLILANK 109

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

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

 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 22/69 (31%), Positives = 36/69 (52%), Gaps = 2/69 (2%)

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHAPG 179
           K + L +WD  GQ +  T+ + Y     G++ V D +++   D   + LK +   EH  G
Sbjct: 42  KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKG 101

Query: 180 VPKVLVGNR 188
           VP VL+ N+
Sbjct: 102 VPVVLLANK 110

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

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

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 29/156 (18%), Positives = 59/156 (37%), Gaps = 14/156 (8%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +LVG   VGK  +   L +  +F     + S+            ++  +K      + 
Sbjct: 3   KLMLVGQGGVGKTSLCKQL-IGEKFDG--DESSTHGI---------NVQDWKIPAP--ER 48

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP 181
           K+++L +WD  GQ  +    + +       LLV+D+        +  WL++++      P
Sbjct: 49  KKIRLNVWDFGGQEIYHATHQFFLTSRSLYLLVFDLRTGDEVSRVPYWLRQIKAFGGVSP 108

Query: 182 KVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
            +LVG  +  + +  +  +               VS
Sbjct: 109 VILVGTHIDESCDEDILKKALNKKFPAIINDIHFVS 144

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

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

 Score = 38.0 bits (88), Expect = 0.004
 Identities = 15/23 (65%), Positives = 18/23 (78%)

Query: 12 QYDYLLKFLLVGDSDVGKQEILS 34
          +YDYL K +L+GDS VGK  ILS
Sbjct: 8  EYDYLFKIVLIGDSGVGKSNILS 30

Length = 216

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 37.8 bits (88), Expect = 0.004
 Identities = 35/134 (26%), Positives = 53/134 (39%), Gaps = 14/134 (10%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +++G    GK   +  L  +        D SS S    G GK    +A    +I LD 
Sbjct: 12  KIVVIGPVGAGKTTFVRAL-SDKPLVITEADASSVS----GKGKRPTTVAMDFGSIELDE 66

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV---EEHAP 178
               + L+ T GQ RF  +    SRGA G +++ D     S   I    +E+        
Sbjct: 67  DT-GVHLFGTPGQERFKFMWEILSRGAVGAIVLVD-----SSRPITFHAEEIIDFLTSRN 120

Query: 179 GVPKVLVGNRLHLA 192
            +P V+  N+  L 
Sbjct: 121 PIPVVVAINKQDLF 134

Length = 187

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	432
KOG0084|consensus	205		100.0
KOG0078|consensus	207		100.0
KOG0098|consensus	216		100.0
KOG0092|consensus	200		100.0
KOG0094|consensus	221		100.0
KOG0080|consensus	209		100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0079|consensus	198		100.0
KOG0093|consensus	193		100.0
KOG0087|consensus	222		100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
KOG0394|consensus	210		100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0086|consensus	214		100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
KOG0095|consensus	213		100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.98
KOG0091|consensus	213		99.98
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.97
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.97
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.97
KOG0081|consensus	219		99.97
KOG0088|consensus	218		99.97
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.97
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.97
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.97
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.97
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.97
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.97
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.97
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.97
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.97
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.97
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.97
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.97
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.97
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.97
PTZ00369	189	Ras-like protein; Provisional	99.97
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.97
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.97
KOG0083|consensus	192		99.97
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.97
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.97
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.97
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.97
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.97
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.96
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.96
PLN03110	216	Rab GTPase; Provisional	99.96
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.96
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.96
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.96
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.96
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.96
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.96
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.96
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.96
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.96
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.96
PLN03108	210	Rab family protein; Provisional	99.96
KOG0097|consensus	215		99.96
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.96
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.96
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.96
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.96
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.96
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.96
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.96
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.96
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.96
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.96
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.96
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.96
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.96
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.96
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.96
KOG0395|consensus	196		99.96
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.96
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.96
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.95
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.95
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.95
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.95
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.95
PLN03118	211	Rab family protein; Provisional	99.95
KOG0393|consensus	198		99.95
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.95
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.95
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.95
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.95
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.95
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.95
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.94
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.94
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.94
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.93
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.93
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.93
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.93
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.93
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.93
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.93
KOG4252|consensus	246		99.93
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.93
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.93
PRK15494	339	era GTPase Era; Provisional	99.93
PLN00223	181	ADP-ribosylation factor; Provisional	99.93
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.93
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.92
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.92
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.92
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.92
PTZ00133	182	ADP-ribosylation factor; Provisional	99.92
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.91
PTZ00099	176	rab6; Provisional	99.91
COG1159	298	Era GTPase [General function prediction only]	99.91
PLN00023	334	GTP-binding protein; Provisional	99.9
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.9
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.9
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.9
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.9
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.89
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.89
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
PRK00089	292	era GTPase Era; Reviewed	99.88
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.88
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.88
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.88
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.87
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.87
COG1100	219	GTPase SAR1 and related small G proteins [General	99.86
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.86
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.86
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.86
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.85
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.85
COG1160	444	Predicted GTPases [General function prediction onl	99.85
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.84
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.83
KOG0073|consensus	185		99.83
PRK12299	335	obgE GTPase CgtA; Reviewed	99.83
KOG1707|consensus	625		99.82
PRK04213	201	GTP-binding protein; Provisional	99.82
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.81
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.8
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.8
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.8
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.8
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.8
KOG1673|consensus	205		99.8
KOG0096|consensus	216		99.8
PRK12298	390	obgE GTPase CgtA; Reviewed	99.8
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.79
KOG3883|consensus	198		99.79
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.78
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.78
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.78
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.78
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.78
KOG0070|consensus	181		99.78
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.77
PRK11058	426	GTPase HflX; Provisional	99.77
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.76
KOG0075|consensus	186		99.76
cd00881	189	GTP_translation_factor GTP translation factor fami	99.76
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.75
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.75
PRK03003	472	GTP-binding protein Der; Reviewed	99.75
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.74
KOG4423|consensus	229		99.74
PRK12297	424	obgE GTPase CgtA; Reviewed	99.72
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.72
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.72
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.71
PRK12296	500	obgE GTPase CgtA; Reviewed	99.7
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.69
PRK00093	435	GTP-binding protein Der; Reviewed	99.69
KOG1423|consensus	379		99.69
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.68
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.68
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.68
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.68
PRK05433	600	GTP-binding protein LepA; Provisional	99.67
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.67
KOG0076|consensus	197		99.66
CHL00189	742	infB translation initiation factor 2; Provisional	99.66
KOG0071|consensus	180		99.66
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.65
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.65
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.64
KOG0074|consensus	185		99.64
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.64
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.64
PRK12317	425	elongation factor 1-alpha; Reviewed	99.63
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.62
PRK05306	787	infB translation initiation factor IF-2; Validated	99.62
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.62
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.62
COG0486	454	ThdF Predicted GTPase [General function prediction	99.61
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.6
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.6
KOG0072|consensus	182		99.59
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.58
COG2229	187	Predicted GTPase [General function prediction only	99.57
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.55
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.54
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.54
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.53
COG1160	444	Predicted GTPases [General function prediction onl	99.53
PRK10218	607	GTP-binding protein; Provisional	99.52
COG2262	411	HflX GTPases [General function prediction only]	99.52
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.52
cd03742	43	SOCS_Rab40 SOCS (suppressors of cytokine signaling	99.51
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.51
PRK04004	586	translation initiation factor IF-2; Validated	99.49
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.49
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.48
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.47
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.47
PRK12735	396	elongation factor Tu; Reviewed	99.45
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.45
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.42
PRK12736	394	elongation factor Tu; Reviewed	99.41
PRK09602	396	translation-associated GTPase; Reviewed	99.41
KOG1489|consensus	366		99.41
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.4
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.39
COG1084	346	Predicted GTPase [General function prediction only	99.39
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.37
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.37
COG1163	365	DRG Predicted GTPase [General function prediction	99.37
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.35
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.34
COG0218	200	Predicted GTPase [General function prediction only	99.34
PRK13351	687	elongation factor G; Reviewed	99.33
CHL00071	409	tufA elongation factor Tu	99.33
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.32
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.31
PLN00043	447	elongation factor 1-alpha; Provisional	99.31
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.3
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.3
KOG1191|consensus	531		99.3
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.3
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.3
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.29
KOG0077|consensus	193		99.28
COG0536	369	Obg Predicted GTPase [General function prediction	99.27
PLN03126	478	Elongation factor Tu; Provisional	99.27
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.25
PLN03127	447	Elongation factor Tu; Provisional	99.24
PRK00049	396	elongation factor Tu; Reviewed	99.24
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.23
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.22
PRK09866	741	hypothetical protein; Provisional	99.21
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.18
KOG0462|consensus	650		99.17
PRK12739	691	elongation factor G; Reviewed	99.17
COG3596	296	Predicted GTPase [General function prediction only	99.17
PTZ00141	446	elongation factor 1- alpha; Provisional	99.16
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.13
PRK12740	668	elongation factor G; Reviewed	99.12
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.09
PRK13768	253	GTPase; Provisional	99.09
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.07
PRK14845	1049	translation initiation factor IF-2; Provisional	99.06
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.04
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.03
PRK00007	693	elongation factor G; Reviewed	99.01
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.0
KOG1145|consensus	683		98.98
KOG1490|consensus	620		98.98
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.98
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.97
KOG3905|consensus	473		98.97
KOG0090|consensus	238		98.95
KOG1707|consensus	625		98.94
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.9
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.89
PTZ00258	390	GTP-binding protein; Provisional	98.86
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.83
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	98.82
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.82
KOG1532|consensus	366		98.8
PRK07560	731	elongation factor EF-2; Reviewed	98.79
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.79
KOG0705|consensus	749		98.76
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.73
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.72
PTZ00416	836	elongation factor 2; Provisional	98.71
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.69
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.69
PRK09601	364	GTP-binding protein YchF; Reviewed	98.69
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.69
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.68
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.67
cd03735	43	SOCS_SOCS1 SOCS (suppressors of cytokine signaling	98.65
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.65
cd03739	57	SOCS_SOCS5 SOCS (suppressors of cytokine signaling	98.64
PRK12289	352	GTPase RsgA; Reviewed	98.64
KOG3886|consensus	295		98.63
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.63
cd03738	56	SOCS_SOCS4 SOCS (suppressors of cytokine signaling	98.61
PRK00098	298	GTPase RsgA; Reviewed	98.6
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.59
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.59
KOG0458|consensus	603		98.57
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.57
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.57
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.52
KOG1486|consensus	364		98.52
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.5
KOG0461|consensus	522		98.48
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	98.48
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.47
PRK12288	347	GTPase RsgA; Reviewed	98.46
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.46
cd03740	41	SOCS_SOCS6 SOCS (suppressors of cytokine signaling	98.46
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.41
KOG0410|consensus	410		98.37
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.37
cd03717	39	SOCS_SOCS_like SOCS (suppressors of cytokine signa	98.37
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.34
smart00253	43	SOCS suppressors of cytokine signalling. suppresso	98.31
KOG0082|consensus	354		98.29
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.28
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.26
KOG0468|consensus	971		98.22
KOG0084|consensus	205		98.21
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.21
KOG1144|consensus	1064		98.18
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.18
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.16
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.15
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.13
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.12
PRK13796	365	GTPase YqeH; Provisional	98.05
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.03
KOG2655|consensus	366		98.0
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.99
KOG0086|consensus	214		97.95
cd03736	41	SOCS_SOCS2 SOCS (suppressors of cytokine signaling	97.94
cd03741	49	SOCS_SOCS7 SOCS (suppressors of cytokine signaling	97.91
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.91
KOG1954|consensus	532		97.9
KOG0087|consensus	222		97.9
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.88
cd03734	41	SOCS_CIS1 SOCS (suppressors of cytokine signaling)	97.86
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.83
KOG2486|consensus	320		97.83
KOG1547|consensus	336		97.81
cd03746	40	SOCS_WSB1_SWIP1 SOCS (suppressors of cytokine sign	97.8
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.8
KOG0095|consensus	213		97.76
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.74
PF07525	40	SOCS_box: SOCS box; InterPro: IPR001496 The SOCS b	97.73
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.72
KOG0080|consensus	209		97.72
cd03587	41	SOCS SOCS (suppressors of cytokine signaling) box.	97.71
COG1162	301	Predicted GTPases [General function prediction onl	97.69
PRK01889	356	GTPase RsgA; Reviewed	97.69
cd03733	39	SOCS_WSB_SWIP SOCS (suppressors of cytokine signal	97.69
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	97.66
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.66
COG0050	394	TufB GTPases - translation elongation factors [Tra	97.61
KOG3887|consensus	347		97.55
cd03745	39	SOCS_WSB2_SWIP2 SOCS (suppressors of cytokine sign	97.52
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	97.51
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.49
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.49
KOG1487|consensus	358		97.45
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.45
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.44
KOG4273|consensus	418		97.39
COG5258	527	GTPBP1 GTPase [General function prediction only]	97.38
cd03737	42	SOCS_SOCS3 SOCS (suppressors of cytokine signaling	97.38
KOG0078|consensus	207		97.37
KOG1143|consensus	591		97.36
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.34
KOG0447|consensus	980		97.32
KOG0448|consensus	749		97.31
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.23
KOG0081|consensus	219		97.19
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.16
cd03112	158	CobW_like The function of this protein family is u	97.13
PRK10416	318	signal recognition particle-docking protein FtsY;	97.12
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.12
KOG0466|consensus	466		97.1
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.06
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.05
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.04
COG1161	322	Predicted GTPases [General function prediction onl	97.04
KOG0092|consensus	200		97.03
PRK12288	347	GTPase RsgA; Reviewed	97.03
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.03
cd03727	43	SOCS_ASB8 SOCS (suppressors of cytokine signaling)	97.02
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	97.0
KOG0463|consensus	641		96.98
PRK13695	174	putative NTPase; Provisional	96.96
KOG0467|consensus	887		96.95
cd03718	42	SOCS_SSB1_4 SOCS (suppressors of cytokine signalin	96.95
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	96.92
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	96.92
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	96.83
PRK12289	352	GTPase RsgA; Reviewed	96.83
KOG0394|consensus	210		96.8
cd03722	51	SOCS_ASB3 SOCS (suppressors of cytokine signaling)	96.77
KOG1491|consensus	391		96.74
PRK14974	336	cell division protein FtsY; Provisional	96.71
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	96.66
KOG0093|consensus	193		96.65
KOG0094|consensus	221		96.63
cd03730	57	SOCS_ASB14 SOCS (suppressors of cytokine signaling	96.61
cd03725	44	SOCS_ASB6 SOCS (suppressors of cytokine signaling)	96.6
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.57
cd03716	42	SOCS_ASB_like SOCS (suppressors of cytokine signal	96.56
PRK13796	365	GTPase YqeH; Provisional	96.52
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	96.51
cd03723	48	SOCS_ASB4_ASB18 SOCS (suppressors of cytokine sign	96.5
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	96.5
COG1162	301	Predicted GTPases [General function prediction onl	96.49
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.45
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.42
KOG0465|consensus	721		96.4
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.36
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.34
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	96.33
cd03729	42	SOCS_ASB13 SOCS (suppressors of cytokine signaling	96.31
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.31
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	96.28
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.27
cd03726	45	SOCS_ASB7 SOCS (suppressors of cytokine signaling)	96.27
KOG0079|consensus	198		96.24
KOG0085|consensus	359		96.21
COG3523	1188	IcmF Type VI protein secretion system component Va	96.16
COG0523	323	Putative GTPases (G3E family) [General function pr	96.15
KOG0464|consensus	753		96.11
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.11
PRK11537	318	putative GTP-binding protein YjiA; Provisional	96.11
cd03110	179	Fer4_NifH_child This protein family's function is	96.1
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	96.07
cd03114	148	ArgK-like The function of this protein family is u	96.07
KOG0098|consensus	216		96.05
KOG0460|consensus	449		96.04
KOG3859|consensus	406		96.04
PRK00098	298	GTPase RsgA; Reviewed	96.03
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.03
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	95.97
cd03743	42	SOCS_SSB4 SOCS (suppressors of cytokine signaling)	95.91
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	95.89
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	95.85
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	95.84
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	95.79
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	95.78
cd03721	45	SOCS_ASB2 SOCS (suppressors of cytokine signaling)	95.6
TIGR00959	428	ffh signal recognition particle protein. This mode	95.57
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	95.49
cd02117	212	NifH_like This family contains the NifH (iron prot	95.48
cd02036	179	MinD Bacterial cell division requires the formatio	95.42
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	95.38
cd03731	56	SOCS_ASB15 SOCS (suppressors of cytokine signaling	95.37
PRK10867	433	signal recognition particle protein; Provisional	95.36
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	95.35
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	95.18
PLN03110	216	Rab GTPase; Provisional	95.13
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	95.11
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	95.03
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	94.97
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	94.83
cd03728	42	SOCS_ASB_9_11 SOCS (suppressors of cytokine signal	94.73
KOG2485|consensus	335		94.71
cd03719	42	SOCS_SSB2 SOCS (suppressors of cytokine signaling)	94.7
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	94.7
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	94.69
cd02032	267	Bchl_like This family of proteins contains bchL an	94.68
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	94.68
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	94.65
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	94.65
KOG0099|consensus	379		94.62
PLN00023	334	GTP-binding protein; Provisional	94.62
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	94.62
cd03744	42	SOCS_SSB1 SOCS (suppressors of cytokine signaling)	94.6
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	94.59
KOG1424|consensus	562		94.57
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	94.54
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	94.42
cd03724	42	SOCS_ASB5 SOCS (suppressors of cytokine signaling)	94.41
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.39
PLN03108	210	Rab family protein; Provisional	94.39
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	94.38
PRK08118	167	topology modulation protein; Reviewed	94.27
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	94.24
COG1161	322	Predicted GTPases [General function prediction onl	94.23
cd03720	42	SOCS_ASB1 SOCS (suppressors of cytokine signaling)	94.21
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	94.13
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.01
PRK07261	171	topology modulation protein; Provisional	94.01

>KOG0084|consensus

Probab=100.00  E-value=4.5e-39  Score=290.29  Aligned_cols=178  Identities=43%  Similarity=0.748  Sum_probs=165.7

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      ....++.+||+|+|++|||||+|+.||          .++.+...+..++|     +||..+++.++|+.++++||||+|
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf----------~~~~f~e~~~sTIG-----VDf~~rt~e~~gk~iKlQIWDTAG   67 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRF----------KDDTFTESYISTIG-----VDFKIRTVELDGKTIKLQIWDTAG   67 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhh----------ccCCcchhhcceee-----eEEEEEEeeecceEEEEEeeeccc
Confidence            456789999999999999999999998          66666777788888     899999999999999999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      ||+|+.+...|||+|++||+|||+++.+||+++..|+.+++++. +++|.+|||||+|+.+.+.++.++++.|+.+++++
T Consensus        68 QERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~  147 (205)
T KOG0084|consen   68 QERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIP  147 (205)
T ss_pred             cHHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCc
Confidence            99999999999999999999999999999999999999999988 67899999999999999999999999999999998


Q ss_pred             -EEEEcCCCCCCHHHHHHHHHHHHhhhcCCccccc
Q psy3450         213 -FFEVSPLCDFNIRESFTELSRRALQRNGMERLWR  246 (432)
Q Consensus       213 -~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~  246 (432)
                       |+|+|||++.||+++|..|+..+.++......+.
T Consensus       148 ~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~~~  182 (205)
T KOG0084|consen  148 IFLETSAKDSTNVEDAFLTLAKELKQRKGLHVKWS  182 (205)
T ss_pred             ceeecccCCccCHHHHHHHHHHHHHHhcccCCCCC
Confidence             9999999999999999999999988776554443

>KOG0078|consensus

Probab=100.00  E-value=1.4e-37  Score=284.28  Aligned_cols=177  Identities=49%  Similarity=0.763  Sum_probs=166.9

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .+++.+||+++|+++||||+|+.+|          .++.+...+..++|     |||..+++.+++..+.+++|||+||+
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf----------~d~~f~~~~~sTiG-----IDFk~kti~l~g~~i~lQiWDtaGQe   72 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRF----------SDDSFNTSFISTIG-----IDFKIKTIELDGKKIKLQIWDTAGQE   72 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhh----------hhccCcCCccceEE-----EEEEEEEEEeCCeEEEEEEEEcccch
Confidence            7889999999999999999999998          77777778888888     89999999999999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +|+.+...||++|++++||||+++..||+++..|+..|.++. +++|++|||||+|+.++|+|+.+.++++|.++|+.|+
T Consensus        73 rf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~  152 (207)
T KOG0078|consen   73 RFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFF  152 (207)
T ss_pred             hHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEE
Confidence            999999999999999999999999999999999999999988 4899999999999999999999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcCCcccccc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNGMERLWRS  247 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~  247 (432)
                      |+|||+|.||+|.|..|++.++++....+.+..
T Consensus       153 EtSAk~~~NI~eaF~~La~~i~~k~~~~~~~~~  185 (207)
T KOG0078|consen  153 ETSAKTNFNIEEAFLSLARDILQKLEDAELEAS  185 (207)
T ss_pred             EccccCCCCHHHHHHHHHHHHHhhcchhhhccc
Confidence            999999999999999999999987766655543

>KOG0098|consensus

Probab=100.00  E-value=6.2e-36  Score=267.03  Aligned_cols=169  Identities=34%  Similarity=0.645  Sum_probs=158.0

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +++.+|++++|+.|||||+|+.||          .+..+.+.+..++|     ++|-.+.+.+++++++|+||||+|||.
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf----------~~krF~~~hd~TiG-----vefg~r~~~id~k~IKlqiwDtaGqe~   67 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRF----------TDKRFQPVHDLTIG-----VEFGARMVTIDGKQIKLQIWDTAGQES   67 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHH----------hccCccccccceee-----eeeceeEEEEcCceEEEEEEecCCcHH
Confidence            568899999999999999999997          44455555667777     799999999999999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      |+++.+.||+++.++|||||+++++||+.+..|+.+++++. ++..++|+|||+||...|+|+.+|+++||++++..|+|
T Consensus        68 frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmE  147 (216)
T KOG0098|consen   68 FRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFME  147 (216)
T ss_pred             HHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeeh
Confidence            99999999999999999999999999999999999999986 89999999999999999999999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +||+++.||+|+|......|++..+
T Consensus       148 TSakt~~~VEEaF~nta~~Iy~~~q  172 (216)
T KOG0098|consen  148 TSAKTAENVEEAFINTAKEIYRKIQ  172 (216)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999987654

>KOG0092|consensus

Probab=100.00  E-value=1.4e-35  Score=266.82  Aligned_cols=170  Identities=33%  Similarity=0.562  Sum_probs=154.4

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|+.+||||||+-||          ..+.+.....+++|     -.|.++.+.+++..+++.||||+|||+|.
T Consensus         4 ~~~KvvLLG~~~VGKSSlV~Rf----------vk~~F~e~~e~TIG-----aaF~tktv~~~~~~ikfeIWDTAGQERy~   68 (200)
T KOG0092|consen    4 REFKVVLLGDSGVGKSSLVLRF----------VKDQFHENIEPTIG-----AAFLTKTVTVDDNTIKFEIWDTAGQERYH   68 (200)
T ss_pred             ceEEEEEECCCCCCchhhhhhh----------hhCccccccccccc-----cEEEEEEEEeCCcEEEEEEEEcCCccccc
Confidence            4689999999999999999997          55555554556776     58889999999999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++.+.|||+|+++|+|||+++.+||..++.|+.++++.. +++-+.|||||+||.+.|+|..++++.+|+..+..|||+|
T Consensus        69 slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETS  148 (200)
T KOG0092|consen   69 SLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETS  148 (200)
T ss_pred             ccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEe
Confidence            999999999999999999999999999999999999877 5677789999999999999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhcCCcc
Q psy3450         218 PLCDFNIRESFTELSRRALQRNGMER  243 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~~~~~  243 (432)
                      ||+|.||+++|..|.+.+........
T Consensus       149 AKTg~Nv~~if~~Ia~~lp~~~~~~~  174 (200)
T KOG0092|consen  149 AKTGENVNEIFQAIAEKLPCSDPQER  174 (200)
T ss_pred             cccccCHHHHHHHHHHhccCcccccc
Confidence            99999999999999999976654433

>KOG0094|consensus

Probab=100.00  E-value=1.1e-35  Score=267.53  Aligned_cols=167  Identities=29%  Similarity=0.529  Sum_probs=156.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+|++++|+.+|||||||+||          ..+.+..+|.++||     +||..+++.+.+..+.|++|||+|||+|+
T Consensus        21 k~~KlVflGdqsVGKTslItRf----------~yd~fd~~YqATIG-----iDFlskt~~l~d~~vrLQlWDTAGQERFr   85 (221)
T KOG0094|consen   21 KKYKLVFLGDQSVGKTSLITRF----------MYDKFDNTYQATIG-----IDFLSKTMYLEDRTVRLQLWDTAGQERFR   85 (221)
T ss_pred             eEEEEEEEccCccchHHHHHHH----------HHhhhcccccceee-----eEEEEEEEEEcCcEEEEEEEecccHHHHh
Confidence            3489999999999999999998          77777788889998     89999999999999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-C-CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-P-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~-~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .+.+.|+++++++|+|||++|..||++..+|++.++... . ++-++|||||.||.++|++..++++..|+++++.|+|+
T Consensus        86 slipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~et  165 (221)
T KOG0094|consen   86 SLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIET  165 (221)
T ss_pred             hhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEe
Confidence            999999999999999999999999999999999999877 3 47788999999999999999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         217 SPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ||+.|+||+++|..|...+.....
T Consensus       166 sak~g~NVk~lFrrIaa~l~~~~~  189 (221)
T KOG0094|consen  166 SAKAGENVKQLFRRIAAALPGMEV  189 (221)
T ss_pred             cccCCCCHHHHHHHHHHhccCccc
Confidence            999999999999999888866544

>KOG0080|consensus

Probab=100.00  E-value=3e-35  Score=256.40  Aligned_cols=171  Identities=37%  Similarity=0.639  Sum_probs=156.6

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      .+++..+||++||++|||||||+-+|          ....+++....++|     +||+.+.+.++|+++++-||||+||
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrF----------v~~~fd~~~~~tIG-----vDFkvk~m~vdg~~~KlaiWDTAGq   70 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRF----------VSNTFDDLHPTTIG-----VDFKVKVMQVDGKRLKLAIWDTAGQ   70 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHH----------HhcccCccCCceee-----eeEEEEEEEEcCceEEEEEEeccch
Confidence            45678899999999999999999997          55555554445566     7999999999999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      |+|+.+.+.||++|+++|+|||++.+++|.++..|++++..+.  +++-.++||||+|.+.+|.|+.+|+.+||+++++-
T Consensus        71 ErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~L  150 (209)
T KOG0080|consen   71 ERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCL  150 (209)
T ss_pred             HhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcE
Confidence            9999999999999999999999999999999999999999887  67788899999999888999999999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      |+|+|||+..||+..|++|+..|++-..
T Consensus       151 FiE~SAkt~~~V~~~FeelveKIi~tp~  178 (209)
T KOG0080|consen  151 FIECSAKTRENVQCCFEELVEKIIETPS  178 (209)
T ss_pred             EEEcchhhhccHHHHHHHHHHHHhcCcc
Confidence            9999999999999999999999977543

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=5.5e-34  Score=264.21  Aligned_cols=170  Identities=77%  Similarity=1.284  Sum_probs=151.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .++.+||+++|+.|||||||+.+|          ..+.+...+.+++|     .++....+.+++..+.+++|||+|+++
T Consensus         3 ~~~~~KivviG~~~vGKTsll~~~----------~~~~~~~~~~~t~~-----~~~~~~~i~~~~~~~~l~iwDt~G~~~   67 (189)
T cd04121           3 YDYLLKFLLVGDSDVGKGEILASL----------QDGSTESPYGYNMG-----IDYKTTTILLDGRRVKLQLWDTSGQGR   67 (189)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHH----------HcCCCCCCCCCcce-----eEEEEEEEEECCEEEEEEEEeCCCcHH
Confidence            457799999999999999999998          33333333444443     467778888999999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      |..++..|++++|++|||||+++++||+++..|++++....+++|+||||||.||.+.++++.++++.+++.++++|+||
T Consensus        68 ~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~  147 (189)
T cd04121          68 FCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEV  147 (189)
T ss_pred             HHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEe
Confidence            99999999999999999999999999999999999998877899999999999998888999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhcCC
Q psy3450         217 SPLCDFNIRESFTELSRRALQRNGM  241 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~~~  241 (432)
                      ||++|.||+++|++|++.+..+.+.
T Consensus       148 SAk~g~~V~~~F~~l~~~i~~~~~~  172 (189)
T cd04121         148 SPLCNFNITESFTELARIVLMRHGR  172 (189)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHhcCC
Confidence            9999999999999999998876553

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

>KOG0079|consensus

Probab=100.00  E-value=4.2e-35  Score=252.25  Aligned_cols=170  Identities=39%  Similarity=0.710  Sum_probs=159.8

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      .++++.+|.+|+|++|||||+|+.+|          .+..+...|+.++|     +|+..+++.++|..++|+||||+|+
T Consensus         3 r~~dhLfkllIigDsgVGKssLl~rF----------~ddtFs~sYitTiG-----vDfkirTv~i~G~~VkLqIwDtAGq   67 (198)
T KOG0079|consen    3 RDYDHLFKLLIIGDSGVGKSSLLLRF----------ADDTFSGSYITTIG-----VDFKIRTVDINGDRVKLQIWDTAGQ   67 (198)
T ss_pred             ccHHHHHHHHeecCCcccHHHHHHHH----------hhcccccceEEEee-----eeEEEEEeecCCcEEEEEEeecccH
Confidence            45678899999999999999999998          55666666777777     8999999999999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      |+|+.+...||++.+++++|||+++.+||.++.+|+++++..++.+|-+|||||.|+.+.+.+..+++.+||.++++.+|
T Consensus        68 ErFrtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncdsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~F  147 (198)
T KOG0079|consen   68 ERFRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCDSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELF  147 (198)
T ss_pred             HHHHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhcCccccceecccCCCCccceeeehHHHHHHHHhcCchhe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      |+|||.+.|++.+|.-|.++.++..
T Consensus       148 ETSaKe~~NvE~mF~cit~qvl~~k  172 (198)
T KOG0079|consen  148 ETSAKENENVEAMFHCITKQVLQAK  172 (198)
T ss_pred             ehhhhhcccchHHHHHHHHHHHHHH
Confidence            9999999999999999999987755

>KOG0093|consensus

Probab=100.00  E-value=4.9e-34  Score=245.48  Aligned_cols=174  Identities=33%  Similarity=0.619  Sum_probs=162.1

Q ss_pred             ccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          51 VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        51 ~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      .+..+..++.+|++++|++.||||||+.++          .+..+++.+-.+.|     ++|+.+++.-..+.+++++||
T Consensus        12 ~s~dqnFDymfKlliiGnssvGKTSfl~ry----------~ddSFt~afvsTvG-----idFKvKTvyr~~kRiklQiwD   76 (193)
T KOG0093|consen   12 DSIDQNFDYMFKLLIIGNSSVGKTSFLFRY----------ADDSFTSAFVSTVG-----IDFKVKTVYRSDKRIKLQIWD   76 (193)
T ss_pred             ccccccccceeeEEEEccCCccchhhhHHh----------hccccccceeeeee-----eeEEEeEeeecccEEEEEEEe
Confidence            345667789999999999999999999998          67777777777777     799999999999999999999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhc
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN  209 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~  209 (432)
                      |+|+|+|+.+...||++++++||+||++|.+||..++.|.-.|..+. .++|+||||||||+.++|.++.|.+..+++++
T Consensus        77 TagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~L  156 (193)
T KOG0093|consen   77 TAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQL  156 (193)
T ss_pred             cccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999887 78999999999999999999999999999999


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      |+.|||+|||.+.||+++|+.++..|.+++
T Consensus       157 GfefFEtSaK~NinVk~~Fe~lv~~Ic~km  186 (193)
T KOG0093|consen  157 GFEFFETSAKENINVKQVFERLVDIICDKM  186 (193)
T ss_pred             ChHHhhhcccccccHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999987654

>KOG0087|consensus

Probab=100.00  E-value=8.4e-34  Score=258.53  Aligned_cols=175  Identities=38%  Similarity=0.655  Sum_probs=160.7

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      ..++++.+||+++|+++||||-|+.||          ....+......++|     ++|.+..+.++++.++.+||||+|
T Consensus         8 ~~~~dylFKiVliGDS~VGKsnLlsRf----------trnEF~~~SksTIG-----vef~t~t~~vd~k~vkaqIWDTAG   72 (222)
T KOG0087|consen    8 SEEYDYLFKIVLIGDSAVGKSNLLSRF----------TRNEFSLESKSTIG-----VEFATRTVNVDGKTVKAQIWDTAG   72 (222)
T ss_pred             ccccceEEEEEEeCCCccchhHHHHHh----------cccccCccccccee-----EEEEeeceeecCcEEEEeeecccc
Confidence            467899999999999999999999997          44444444556777     799999999999999999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      ||+|+.+...||++|.++++|||+++..+|+++.+|+.+++.+. ++++++|||||+||...|.|..++++.+|+..+..
T Consensus        73 QERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~  152 (222)
T KOG0087|consen   73 QERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLF  152 (222)
T ss_pred             hhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCce
Confidence            99999999999999999999999999999999999999999988 78999999999999999999999999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhcCCcc
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRNGMER  243 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~~~~~  243 (432)
                      ++|+||.++.||++.|+.++..|.+......
T Consensus       153 f~EtSAl~~tNVe~aF~~~l~~I~~~vs~k~  183 (222)
T KOG0087|consen  153 FLETSALDATNVEKAFERVLTEIYKIVSKKQ  183 (222)
T ss_pred             EEEecccccccHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999987654433

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=9.6e-33  Score=254.36  Aligned_cols=164  Identities=23%  Similarity=0.391  Sum_probs=143.5

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .         .+.+...+.++++      +.+.+.+.+++..+.++||||+|+++|
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~-~---------~~~f~~~~~pT~~------~~~~~~~~~~~~~~~l~iwDtaG~e~~   66 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVF-A---------KDCFPENYVPTVF------ENYTASFEIDTQRIELSLWDTSGSPYY   66 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHH-H---------hCCCCCccCCcee------eeeEEEEEECCEEEEEEEEECCCchhh
Confidence            45689999999999999999997 3         3334444555665      444567788999999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~~  204 (432)
                      ..+++.+++++|++|+|||+++++||+++ ..|+.++++..++.|++|||||+||.+            ++.++.+++++
T Consensus        67 ~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~  146 (182)
T cd04172          67 DNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGAN  146 (182)
T ss_pred             HhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHH
Confidence            99999999999999999999999999998 899999998888899999999999964            35699999999


Q ss_pred             HHHhcCC-cEEEEcCCCCCC-HHHHHHHHHHHHhh
Q psy3450         205 YAIKNQM-AFFEVSPLCDFN-IRESFTELSRRALQ  237 (432)
Q Consensus       205 ~a~~~~~-~~~evSAktg~n-I~elf~~L~~~i~~  237 (432)
                      +|+++++ +|+||||++|.| |+++|+.+++.++.
T Consensus       147 ~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~~  181 (182)
T cd04172         147 MAKQIGAATYIECSALQSENSVRDIFHVATLACVN  181 (182)
T ss_pred             HHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHhc
Confidence            9999996 999999999998 99999999987643

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

>KOG0394|consensus

Probab=100.00  E-value=3.1e-33  Score=249.33  Aligned_cols=169  Identities=33%  Similarity=0.608  Sum_probs=151.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ...++||+++|++|||||||+|++ +..+|         ...+..+||     .+|..+.+.++++.+.++||||+|||+
T Consensus         6 K~~lLKViiLGDsGVGKtSLmn~y-v~~kF---------~~qykaTIg-----adFltKev~Vd~~~vtlQiWDTAGQER   70 (210)
T KOG0394|consen    6 KRTLLKVIILGDSGVGKTSLMNQY-VNKKF---------SQQYKATIG-----ADFLTKEVQVDDRSVTLQIWDTAGQER   70 (210)
T ss_pred             cccceEEEEeCCCCccHHHHHHHH-HHHHH---------HHHhccccc-----hhheeeEEEEcCeEEEEEEEecccHHH
Confidence            345799999999999999999997 55544         444566777     699999999999999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCC--CcccCHHHHHHHHHhc
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAF--NRTVTTREAEMYAIKN  209 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~--~r~v~~ee~~~~a~~~  209 (432)
                      |.++.-.+||++|++++|||++++.||+.+..|.+++....     ...|.||+|||+|+..  .|+++.+.++.|++..
T Consensus        71 FqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~  150 (210)
T KOG0394|consen   71 FQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSK  150 (210)
T ss_pred             hhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhc
Confidence            99999999999999999999999999999999999987654     2589999999999965  3899999999999876


Q ss_pred             C-CcEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         210 Q-MAFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       210 ~-~~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      + ++|||+|||...||++.|+.+++.++....
T Consensus       151 gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~  182 (210)
T KOG0394|consen  151 GNIPYFETSAKEATNVDEAFEEIARRALANED  182 (210)
T ss_pred             CCceeEEecccccccHHHHHHHHHHHHHhccc
Confidence            5 799999999999999999999999988664

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=2.3e-32  Score=250.57  Aligned_cols=161  Identities=28%  Similarity=0.467  Sum_probs=141.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||+|+.+|          ..+.+...+.+++|      +...+.+.+++..++++||||+|+++|..+
T Consensus         2 ~kivv~G~~~vGKTsli~~~----------~~~~f~~~~~~Ti~------~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~   65 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICY----------TSNKFPTDYIPTVF------DNFSANVSVDGNTVNLGLWDTAGQEDYNRL   65 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHH----------hcCCCCCCCCCcce------eeeEEEEEECCEEEEEEEEECCCCcccccc
Confidence            69999999999999999997          44444445566665      444566778999999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCc----------ccCHHHHHHHHHhc
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNR----------TVTTREAEMYAIKN  209 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r----------~v~~ee~~~~a~~~  209 (432)
                      +..+++++|++|||||+++++||+++ ..|+.++....+++|++|||||+||.+++          .++.+++.++++.+
T Consensus        66 ~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~  145 (176)
T cd04133          66 RPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQI  145 (176)
T ss_pred             chhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHc
Confidence            99999999999999999999999998 78999998877889999999999996543          48899999999999


Q ss_pred             CC-cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         210 QM-AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       210 ~~-~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++ .|+||||++|.||+++|+.+++.+.+
T Consensus       146 ~~~~~~E~SAk~~~nV~~~F~~~~~~~~~  174 (176)
T cd04133         146 GAAAYIECSSKTQQNVKAVFDAAIKVVLQ  174 (176)
T ss_pred             CCCEEEECCCCcccCHHHHHHHHHHHHhc
Confidence            98 69999999999999999999998743

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,

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=3.4e-32  Score=254.70  Aligned_cols=163  Identities=36%  Similarity=0.666  Sum_probs=144.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +.|+++|+.|||||||+++|          ..+.+...+.+++|     +++..+.+.+++..++++||||+|+++|..+
T Consensus         1 ~~vvvlG~~gVGKTSli~r~----------~~~~f~~~~~~Ti~-----~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l   65 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRF----------TDDTFCEACKSGVG-----VDFKIKTVELRGKKIRLQIWDTAGQERFNSI   65 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHH----------HhCCCCCcCCCcce-----eEEEEEEEEECCEEEEEEEEeCCCchhhHHH
Confidence            36899999999999999997          33444444445554     4777788899999999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhc-CCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-~~~~~evSA  218 (432)
                      +..|++++|++|+|||+++++||+++..|+..+.+.. +++|++|||||+||.+++++..++++++++++ ++.|+|+||
T Consensus        66 ~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSA  145 (202)
T cd04120          66 TSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASA  145 (202)
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecC
Confidence            9999999999999999999999999999999988765 67999999999999888899999999999885 789999999


Q ss_pred             CCCCCHHHHHHHHHHHHhhh
Q psy3450         219 LCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~~~  238 (432)
                      ++|.||+++|+++++.+.+.
T Consensus       146 ktg~gV~e~F~~l~~~~~~~  165 (202)
T cd04120         146 KDNFNVDEIFLKLVDDILKK  165 (202)
T ss_pred             CCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999988764

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

>KOG0086|consensus

Probab=100.00  E-value=3.6e-33  Score=241.52  Aligned_cols=176  Identities=38%  Similarity=0.656  Sum_probs=160.2

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .+.+|+.+|++++|+.|.|||+|+++|          +..++....+.++|     ++|-.+.+.+.++.++++||||+|
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~F----------ie~kfkDdssHTiG-----veFgSrIinVGgK~vKLQIWDTAG   67 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQF----------IENKFKDDSSHTIG-----VEFGSRIVNVGGKTVKLQIWDTAG   67 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHH----------HHhhhcccccceee-----eeecceeeeecCcEEEEEEeeccc
Confidence            456899999999999999999999997          44444444556666     799999999999999999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      ||+|++..+.||++|.+.++|||+++++||+.+..|+..++... +++-+|++|||.||..+|+|+..++..|+++..+.
T Consensus        68 QErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~  147 (214)
T KOG0086|consen   68 QERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELM  147 (214)
T ss_pred             HHHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhccccee
Confidence            99999999999999999999999999999999999999999877 78999999999999999999999999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhcCCccc
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRNGMERL  244 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~~~~~~  244 (432)
                      +.|+||++|+||+|.|-..++.|+.+-+..++
T Consensus       148 flETSa~TGeNVEEaFl~c~~tIl~kIE~GEl  179 (214)
T KOG0086|consen  148 FLETSALTGENVEEAFLKCARTILNKIESGEL  179 (214)
T ss_pred             eeeecccccccHHHHHHHHHHHHHHHHhhcCC
Confidence            99999999999999999999999887654443

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=4.2e-32  Score=249.08  Aligned_cols=161  Identities=22%  Similarity=0.403  Sum_probs=140.4

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.++++      +.+.+.+.+++..+.+++|||+|+++|..
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~iwDt~G~~~~~~   64 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVF-AKDCY---------PETYVPTVF------ENYTASFEIDEQRIELSLWDTSGSPYYDN   64 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHH-HhCcC---------CCCcCCceE------EEEEEEEEECCEEEEEEEEECCCchhhhh
Confidence            379999999999999999997 44444         333445554      44456788899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHHHHH
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAEMYA  206 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~~~a  206 (432)
                      +++.+++++|++|+|||+++++||+++ ..|+.++++..+++|++|||||+||.+            ++.++.++++++|
T Consensus        65 ~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a  144 (178)
T cd04131          65 VRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIA  144 (178)
T ss_pred             cchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHH
Confidence            999999999999999999999999996 899999998888999999999999964            3468999999999


Q ss_pred             HhcCC-cEEEEcCCCCCC-HHHHHHHHHHHHh
Q psy3450         207 IKNQM-AFFEVSPLCDFN-IRESFTELSRRAL  236 (432)
Q Consensus       207 ~~~~~-~~~evSAktg~n-I~elf~~L~~~i~  236 (432)
                      +++++ +|+||||++|.| |+++|+.+++..+
T Consensus       145 ~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         145 KQLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             HHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence            99997 899999999995 9999999999654

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.

>KOG0095|consensus

Probab=100.00  E-value=1.3e-32  Score=237.23  Aligned_cols=172  Identities=35%  Similarity=0.601  Sum_probs=156.7

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +++++.+||+++|..|||||+|+++|          ..+-+.+....++|     ++|..+++.+++++++++||||+||
T Consensus         2 edykflfkivlvgnagvgktclvrrf----------tqglfppgqgatig-----vdfmiktvev~gekiklqiwdtagq   66 (213)
T KOG0095|consen    2 EDYKFLFKIVLVGNAGVGKTCLVRRF----------TQGLFPPGQGATIG-----VDFMIKTVEVNGEKIKLQIWDTAGQ   66 (213)
T ss_pred             cccceeEEEEEEccCCcCcchhhhhh----------hccCCCCCCCceee-----eeEEEEEEEECCeEEEEEEeeccch
Confidence            46788999999999999999999998          55555555666777     8999999999999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                      |+|+++...||+.|+++|+|||++-..||+-+.+|+.+|.++. .++-.|+||||.|+.+.|+++.+.+++|++...+-|
T Consensus        67 erfrsitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyf  146 (213)
T KOG0095|consen   67 ERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYF  146 (213)
T ss_pred             HHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhh
Confidence            9999999999999999999999999999999999999999987 456779999999999999999999999999999999


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcCC
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNGM  241 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~~  241 (432)
                      +|+||+...||+.+|..++-.+....+.
T Consensus       147 letsakea~nve~lf~~~a~rli~~ar~  174 (213)
T KOG0095|consen  147 LETSAKEADNVEKLFLDLACRLISEARQ  174 (213)
T ss_pred             hhhcccchhhHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999887665443

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=2e-31  Score=254.33  Aligned_cols=166  Identities=22%  Similarity=0.348  Sum_probs=145.0

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||+|+++|          ..+.+...+.++++      +.+...+.+++..+.++||||+|+++
T Consensus        10 ~~~~~KIvvvGd~~VGKTsLi~r~----------~~~~F~~~y~pTi~------~~~~~~i~~~~~~v~l~iwDTaG~e~   73 (232)
T cd04174          10 LVMRCKLVLVGDVQCGKTAMLQVL----------AKDCYPETYVPTVF------ENYTAGLETEEQRVELSLWDTSGSPY   73 (232)
T ss_pred             ceeeEEEEEECCCCCcHHHHHHHH----------hcCCCCCCcCCcee------eeeEEEEEECCEEEEEEEEeCCCchh
Confidence            356789999999999999999997          33334444556665      33455678899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHH
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAE  203 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~  203 (432)
                      |..+++.|++++|++|+|||+++++||+++ ..|+.++.+..+++|+||||||+||.+            .+.++.++++
T Consensus        74 ~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~  153 (232)
T cd04174          74 YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGC  153 (232)
T ss_pred             hHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccchhhhhccccCCcCCHHHHH
Confidence            999999999999999999999999999985 899999998778899999999999964            3679999999


Q ss_pred             HHHHhcCC-cEEEEcCCCCC-CHHHHHHHHHHHHhhh
Q psy3450         204 MYAIKNQM-AFFEVSPLCDF-NIRESFTELSRRALQR  238 (432)
Q Consensus       204 ~~a~~~~~-~~~evSAktg~-nI~elf~~L~~~i~~~  238 (432)
                      ++|+++++ .|+||||++|. ||+++|+.+++.++++
T Consensus       154 ~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         154 ALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             HHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHh
Confidence            99999998 69999999998 8999999999988764

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.

>cd01875 RhoG RhoG subfamily

Probab=99.98  E-value=1.4e-31  Score=247.97  Aligned_cols=163  Identities=25%  Similarity=0.434  Sum_probs=140.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .         .+.+...+.+++|      +.+.+.+.+++..+.++||||+|+++|..
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~-~---------~~~f~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~   66 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICY-T---------TNAFPKEYIPTVF------DNYSAQTAVDGRTVSLNLWDTAGQEEYDR   66 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHH-H---------hCCCCcCCCCceE------eeeEEEEEECCEEEEEEEEECCCchhhhh
Confidence            489999999999999999997 3         3333344556665      44455667899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHHH
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYA  206 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~a  206 (432)
                      +++.|++++|++|+|||+++++||+++. .|+.++....+++|++|||||.||.+.            +.+..++++.++
T Consensus        67 l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a  146 (191)
T cd01875          67 LRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALA  146 (191)
T ss_pred             hhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHH
Confidence            9999999999999999999999999995 699988877778999999999999654            347788999999


Q ss_pred             HhcC-CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         207 IKNQ-MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       207 ~~~~-~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++ ++|+|+||++|.||+++|+++++.+...
T Consensus       147 ~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~~  179 (191)
T cd01875         147 KQIHAVKYLECSALNQDGVKEVFAEAVRAVLNP  179 (191)
T ss_pred             HHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhcc
Confidence            9998 5999999999999999999999988653

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

>KOG0091|consensus

Probab=99.98  E-value=3.2e-32  Score=238.13  Aligned_cols=172  Identities=38%  Similarity=0.620  Sum_probs=151.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-CCeEEEEEEEeCCCCcc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-DGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-~~~~v~l~i~Dt~G~e~  136 (432)
                      .+.+++++||++-||||+|++.| ..++|+         ....|++|     +||+.+.+++ +|..++|++|||+|||+
T Consensus         6 ~yqfrlivigdstvgkssll~~f-t~gkfa---------elsdptvg-----vdffarlie~~pg~riklqlwdtagqer   70 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYF-TEGKFA---------ELSDPTVG-----VDFFARLIELRPGYRIKLQLWDTAGQER   70 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHH-hcCccc---------ccCCCccc-----hHHHHHHHhcCCCcEEEEEEeeccchHH
Confidence            46789999999999999999996 445544         44456777     7888887776 57899999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcE-EEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPK-VLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPi-ILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                      |+++.+.||+++-++++|||++|.+||+++..|+.+...+.  |..++ +|||.|+||..+|+|+.+|++.+|+.+++.|
T Consensus        71 frsitksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~F  150 (213)
T KOG0091|consen   71 FRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAF  150 (213)
T ss_pred             HHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceE
Confidence            99999999999999999999999999999999999987655  55554 6999999999999999999999999999999


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcCCccc
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNGMERL  244 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~~~~~  244 (432)
                      +|+||++|.||+|.|+.|.+.++........
T Consensus       151 VETSak~g~NVeEAF~mlaqeIf~~i~qGei  181 (213)
T KOG0091|consen  151 VETSAKNGCNVEEAFDMLAQEIFQAIQQGEI  181 (213)
T ss_pred             EEecccCCCcHHHHHHHHHHHHHHHHhcCce
Confidence            9999999999999999999999887665433

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.97  E-value=4e-31  Score=240.86  Aligned_cols=164  Identities=26%  Similarity=0.417  Sum_probs=142.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.++++      +...+.+.+++..+.+++|||+|+++|..
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~   65 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQF-ISHSF---------PDYHDPTIE------DAYKQQARIDNEPALLDILDTAGQAEFTA   65 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHH-HhCCC---------CCCcCCccc------ceEEEEEEECCEEEEEEEEeCCCchhhHH
Confidence            379999999999999999997 33333         333445554      44456678899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++.+|++|+|||++++.||+.+..|+..+.+..  +++|+++||||+|+.++++++.+++..+++.++++|+|||
T Consensus        66 l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~S  145 (172)
T cd04141          66 MRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETS  145 (172)
T ss_pred             HhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEe
Confidence            99999999999999999999999999999988887643  5799999999999988888999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhc
Q psy3450         218 PLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~  239 (432)
                      |++|.||+++|++|++.+.+..
T Consensus       146 a~~~~~v~~~f~~l~~~~~~~~  167 (172)
T cd04141         146 AALRHYIDDAFHGLVREIRRKE  167 (172)
T ss_pred             cCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999887643

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.97  E-value=5.3e-31  Score=237.39  Aligned_cols=163  Identities=35%  Similarity=0.659  Sum_probs=142.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ....|         ...+.+++|     .++..+.+.+++..+++.+|||+|+++|..
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~   66 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQF-TEKKF---------MADCPHTIG-----VEFGTRIIEVNGQKIKLQIWDTAGQERFRA   66 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCcccc-----eeEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence            589999999999999999997 33333         233333443     356667778899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      ++..+++++|++|+|||++++++|+.+..|+..+.... ++.|+++||||+|+..++.+..+++.++++..+++|+|+||
T Consensus        67 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa  146 (166)
T cd04122          67 VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSA  146 (166)
T ss_pred             HHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEEC
Confidence            99999999999999999999999999999999987765 67899999999999888888999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhh
Q psy3450         219 LCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~~  237 (432)
                      ++|.||+++|+++++.+.+
T Consensus       147 ~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         147 KTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             CCCCCHHHHHHHHHHHHhh
Confidence            9999999999999988754

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.97  E-value=6.5e-31  Score=240.21  Aligned_cols=159  Identities=24%  Similarity=0.416  Sum_probs=138.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++|          ..+.+...+.++++      +.+...+.+++..++++||||+|+++|..+
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~----------~~~~f~~~~~pt~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISY----------TTNKFPSEYVPTVF------DNYAVTVMIGGEPYTLGLFDTAGQEDYDRL   65 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHH----------HcCCCCCCCCCcee------eeeEEEEEECCEEEEEEEEECCCccchhhh
Confidence            79999999999999999998          44444444556665      444456778898999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHHHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYAI  207 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~a~  207 (432)
                      +..+++++|++|+|||+++++||+++. .|+.++....+++|++|||||+|+.+.            +.+..++++++++
T Consensus        66 ~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~  145 (175)
T cd01874          66 RPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLAR  145 (175)
T ss_pred             hhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHH
Confidence            999999999999999999999999995 699999877778999999999998543            6788899999999


Q ss_pred             hcC-CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         208 KNQ-MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       208 ~~~-~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +.+ +.|+|+||++|.||+++|+.+++.+
T Consensus       146 ~~~~~~~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         146 DLKAVKYVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             HhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence            887 6999999999999999999999864

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

>KOG0081|consensus

Probab=99.97  E-value=1.5e-32  Score=239.07  Aligned_cols=171  Identities=35%  Similarity=0.626  Sum_probs=156.8

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC---------CeEEE
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD---------GKRVK  125 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~---------~~~v~  125 (432)
                      -++++.+|++.+|++|||||+++.++          .++.+...++.++|     |||..+.+.++         +..+.
T Consensus         4 GdydylikfLaLGDSGVGKTs~Ly~Y----------TD~~F~~qFIsTVG-----IDFreKrvvY~s~gp~g~gr~~rih   68 (219)
T KOG0081|consen    4 GDYDYLIKFLALGDSGVGKTSFLYQY----------TDGKFNTQFISTVG-----IDFREKRVVYNSSGPGGGGRGQRIH   68 (219)
T ss_pred             ccHHHHHHHHhhccCCCCceEEEEEe----------cCCcccceeEEEee-----cccccceEEEeccCCCCCCcceEEE
Confidence            35789999999999999999999997          77777888888888     79988877663         46799


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +++|||+|||+|+++...|+++|-++|++||+++..||-++..|+.+++.+.  ++.-||++|||+||++.|+|+++++.
T Consensus        69 LQlWDTAGQERFRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~  148 (219)
T KOG0081|consen   69 LQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAA  148 (219)
T ss_pred             EeeeccccHHHHHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHH
Confidence            9999999999999999999999999999999999999999999999987654  77889999999999999999999999


Q ss_pred             HHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         204 MYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       204 ~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ++|.++++||||+||-+|.||++..+.|+..++++.+
T Consensus       149 ~La~kyglPYfETSA~tg~Nv~kave~LldlvM~Rie  185 (219)
T KOG0081|consen  149 ALADKYGLPYFETSACTGTNVEKAVELLLDLVMKRIE  185 (219)
T ss_pred             HHHHHhCCCeeeeccccCcCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999988754

>KOG0088|consensus

Probab=99.97  E-value=7.3e-32  Score=234.70  Aligned_cols=177  Identities=29%  Similarity=0.507  Sum_probs=154.9

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      ..+..+.+|++++|..-||||||+-|+ .+++|...++         .++.     -.|..+.+.+.+....+.||||+|
T Consensus         7 ~~g~s~~FK~VLLGEGCVGKtSLVLRy-~EnkFn~kHl---------sTlQ-----ASF~~kk~n~ed~ra~L~IWDTAG   71 (218)
T KOG0088|consen    7 VDGKSFKFKIVLLGEGCVGKTSLVLRY-VENKFNCKHL---------STLQ-----ASFQNKKVNVEDCRADLHIWDTAG   71 (218)
T ss_pred             ccCCceeeEEEEEcCCccchhHHHHHH-HHhhcchhhH---------HHHH-----HHHhhcccccccceeeeeeeeccc
Confidence            345678899999999999999999995 7777653322         1111     266778888999999999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      ||+|..+-+.||++++++|+|||++|++||+.++.|..+++... ..+.++|||||+||+++|+|+.++++.+|+..|+.
T Consensus        72 QErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~  151 (218)
T KOG0088|consen   72 QERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGAL  151 (218)
T ss_pred             hHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchh
Confidence            99999999999999999999999999999999999999999876 56889999999999999999999999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccc
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRNGMERLW  245 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~  245 (432)
                      |+|+||+.+.||.|+|+.|...+++........
T Consensus       152 y~eTSAk~N~Gi~elFe~Lt~~MiE~~s~~qr~  184 (218)
T KOG0088|consen  152 YMETSAKDNVGISELFESLTAKMIEHSSQRQRT  184 (218)
T ss_pred             heecccccccCHHHHHHHHHHHHHHHhhhcccc
Confidence            999999999999999999999888766544433

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.97  E-value=2.3e-30  Score=233.70  Aligned_cols=165  Identities=45%  Similarity=0.753  Sum_probs=144.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ++.+||+++|++|||||||+++| .+         ..+...+.+++|     +++....+.+++..+.+++|||+|++.+
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~-~~---------~~f~~~~~~t~~-----~~~~~~~~~~~~~~~~l~l~D~~g~~~~   65 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRF-SE---------DSFNPSFISTIG-----IDFKIRTIELDGKKIKLQIWDTAGQERF   65 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHH-hh---------CcCCcccccCcc-----ceEEEEEEEECCEEEEEEEEeCCchHHH
Confidence            46799999999999999999997 33         333334445554     4666777888898899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      ..++..+++++|++|+|||++++++|+++..|+..+.... .++|+++||||+|+.+.+++..+++..+++.++++++++
T Consensus        66 ~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  145 (167)
T cd01867          66 RTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLET  145 (167)
T ss_pred             HHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEE
Confidence            9999999999999999999999999999999999998765 579999999999998778888888999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhh
Q psy3450         217 SPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~  237 (432)
                      ||++|.|++++|+++++.+.+
T Consensus       146 Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         146 SAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             eCCCCCCHHHHHHHHHHHHHh
Confidence            999999999999999998864

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.97  E-value=2.2e-30  Score=236.06  Aligned_cols=166  Identities=34%  Similarity=0.633  Sum_probs=141.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC----------CeEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD----------GKRVKLQ  127 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~----------~~~v~l~  127 (432)
                      ++.+||+++|++|||||||+++|          ....+...+.+++|     +++....+.++          +..+.+.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~   66 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQY----------TDNKFNPKFITTVG-----IDFREKRVVYNSSGPGGTLGRGQRIHLQ   66 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHH----------hcCCCCccCCCccc-----eEEEEEEEEEcCccccccccCCCEEEEE
Confidence            46799999999999999999997          33333333444444     35555555443          4578999


Q ss_pred             EEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHH
Q psy3450         128 LWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMY  205 (432)
Q Consensus       128 i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~  205 (432)
                      ||||+|+++|..++..+++++|++|+|||+++++||+++..|+.++....  ++.|+++||||+|+.+++.+..+++..+
T Consensus        67 i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~  146 (180)
T cd04127          67 LWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKAL  146 (180)
T ss_pred             EEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHH
Confidence            99999999999999999999999999999999999999999999997754  5789999999999988788888999999


Q ss_pred             HHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         206 AIKNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       206 a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +++.+++++++||++|.|++++|++|++.+.++
T Consensus       147 ~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         147 ADKYGIPYFETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             HHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            999999999999999999999999999988653

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.97  E-value=3e-30  Score=240.63  Aligned_cols=165  Identities=28%  Similarity=0.533  Sum_probs=142.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCCcccch
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~e~~~~  139 (432)
                      +||+++|++|||||||+++|          ..+.+...+.+++|     .++..+.+.++ +..+.+.+|||+|+++|..
T Consensus         1 ~KivivG~~~vGKTsli~~l----------~~~~~~~~~~~t~~-----~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~   65 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRY----------VHGIFSQHYKATIG-----VDFALKVIEWDPNTVVRLQLWDIAGQERFGG   65 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHH----------HcCCCCCCCCCcee-----EEEEEEEEEECCCCEEEEEEEECCCchhhhh
Confidence            58999999999999999997          33333333445554     46667777787 8889999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC-CcE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-MAF  213 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-~~~  213 (432)
                      ++..+++++|++|+|||++++++|+++..|+.++....     .++|++|||||+|+.+.+.+..+++.++++..+ ..|
T Consensus        66 ~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~  145 (201)
T cd04107          66 MTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGW  145 (201)
T ss_pred             hHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceE
Confidence            99999999999999999999999999999999887532     578999999999997677888999999999998 699


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +++||++|.||+++|++|++.+.+..+
T Consensus       146 ~e~Sak~~~~v~e~f~~l~~~l~~~~~  172 (201)
T cd04107         146 FETSAKEGINIEEAMRFLVKNILANDK  172 (201)
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHhch
Confidence            999999999999999999999977644

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.97  E-value=5e-30  Score=238.99  Aligned_cols=169  Identities=38%  Similarity=0.680  Sum_probs=147.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ++..+||+++|++|||||||+++| .+..|         ...+.+++|     +++....+.+++..+.+.||||+|++.
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~l~D~~G~~~   67 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRF-ADNTF---------SGSYITTIG-----VDFKIRTVEINGERVKLQIWDTAGQER   67 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHH-hcCCC---------CCCcCcccc-----ceeEEEEEEECCEEEEEEEEeCCCchh
Confidence            356799999999999999999997 33333         222334443     467777788888889999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      +..++..+++++|++|+|||++++++|+++..|+..+....++.|++|||||+|+.+.+.+..+++..+++..+++|+++
T Consensus        68 ~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~  147 (199)
T cd04110          68 FRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFET  147 (199)
T ss_pred             HHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEE
Confidence            99999999999999999999999999999999999998877889999999999998777788888999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         217 SPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ||++|.||+++|++|++.+++...
T Consensus       148 Sa~~~~gi~~lf~~l~~~~~~~~~  171 (199)
T cd04110         148 SAKENINVEEMFNCITELVLRAKK  171 (199)
T ss_pred             ECCCCcCHHHHHHHHHHHHHHhhh
Confidence            999999999999999999977544

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.97  E-value=3.8e-30  Score=229.76  Aligned_cols=159  Identities=28%  Similarity=0.465  Sum_probs=138.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ ..+.|         ...+.++++      +...+.+.+++..+.++||||+|+++|..+
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQF-VQGIF---------VEKYDPTIE------DSYRKQIEVDGQQCMLEILDTAGTEQFTAM   65 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HhCCC---------CcccCCchh------hhEEEEEEECCEEEEEEEEECCCccccchH
Confidence            79999999999999999997 33333         233334443      555677888998999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..+++++|++++|||++++++|+++..|+..+....  +++|+++|+||+|+.+++.+..+++..+++.++.+++++||
T Consensus        66 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  145 (163)
T cd04136          66 RDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSA  145 (163)
T ss_pred             HHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecC
Confidence            9999999999999999999999999999999987654  57999999999999877778888888899888899999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      ++|.|++++|+++++.+
T Consensus       146 ~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         146 KSKINVDEVFADLVRQI  162 (163)
T ss_pred             CCCCCHHHHHHHHHHhc
Confidence            99999999999998765

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.97  E-value=4e-30  Score=231.22  Aligned_cols=159  Identities=42%  Similarity=0.690  Sum_probs=140.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++|          ..+.+...+.+++|     .++....+.+++..+.+++||++|++++..+
T Consensus         1 ~ki~vvG~~~~GKTsli~~~----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~   65 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRF----------TDNEFHSSHISTIG-----VDFKMKTIEVDGIKVRIQIWDTAGQERYQTI   65 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHH----------hcCCCCCCCCCcee-----eEEEEEEEEECCEEEEEEEEeCCCcHhHHhh
Confidence            48999999999999999998          33333333445554     3566677888898999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++++|||+++++||+++..|+..+.... .++|+++||||.|+.+++.+..+++..+++.++++|+|+||+
T Consensus        66 ~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~  145 (161)
T cd04117          66 TKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSAC  145 (161)
T ss_pred             HHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCC
Confidence            9999999999999999999999999999999998766 469999999999998888899999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRR  234 (432)
Q Consensus       220 tg~nI~elf~~L~~~  234 (432)
                      +|.||+++|++|++.
T Consensus       146 ~~~~v~~~f~~l~~~  160 (161)
T cd04117         146 TNSNIKESFTRLTEL  160 (161)
T ss_pred             CCCCHHHHHHHHHhh
Confidence            999999999999864

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.97  E-value=5.1e-30  Score=238.78  Aligned_cols=169  Identities=22%  Similarity=0.383  Sum_probs=133.3

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCc---cccccceeEE-EEEECCeEEEEEEEeCCCCc
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGK---YDDMLAYKTT-TILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~---~~~tid~~~~-~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .+||+++|++|||||||+.+++.++.|.    ...+...+.|++|.   +....++..+ .+.+++..+.++||||+|++
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~----~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~   77 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLT----QYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDH   77 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcc----cccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCCh
Confidence            4799999999999999997544554442    22223334455531   1000111111 22578999999999999998


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCC-------------------Cc
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAF-------------------NR  195 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~-------------------~r  195 (432)
                      +  .+...+++++|++|+|||+++++||+++. .|+.+++...+++|++|||||+||.+                   .+
T Consensus        78 ~--~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~  155 (195)
T cd01873          78 D--KDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNAD  155 (195)
T ss_pred             h--hhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCCEEEEEEchhccccccchhhhcccccccccccCC
Confidence            6  35667899999999999999999999996 69999988777899999999999964                   47


Q ss_pred             ccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         196 TVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      .++.++++++|++++++|+||||++|.||+++|+.++++
T Consensus       156 ~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         156 ILPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             ccCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            899999999999999999999999999999999999864

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.97  E-value=6.8e-30  Score=229.75  Aligned_cols=163  Identities=41%  Similarity=0.694  Sum_probs=143.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||++++ ..         +.+...+.++.|     .++....+.+++..+++++||++|++++..
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~-~~---------~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   66 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRF-AD---------DTYTESYISTIG-----VDFKIRTIELDGKTIKLQIWDTAGQERFRT   66 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHH-hc---------CCCCCCCCCccc-----eeEEEEEEEECCEEEEEEEEECCCcHhHHH
Confidence            589999999999999999998 33         333333334443     467777888889899999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      ++..+++++|++|+|||+++++||+++..|+..+.... ++.|+++|+||+|+...+.+..+++..+++.++++|+++||
T Consensus        67 ~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  146 (166)
T cd01869          67 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSA  146 (166)
T ss_pred             HHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEEC
Confidence            99999999999999999999999999999999998776 67999999999999877888889999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhh
Q psy3450         219 LCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~~  237 (432)
                      ++|.|++++|+++++.+.+
T Consensus       147 ~~~~~v~~~~~~i~~~~~~  165 (166)
T cd01869         147 KNATNVEQAFMTMAREIKK  165 (166)
T ss_pred             CCCcCHHHHHHHHHHHHHh
Confidence            9999999999999998753

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.97  E-value=7.5e-30  Score=242.10  Aligned_cols=164  Identities=23%  Similarity=0.423  Sum_probs=140.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+|+|++|||||+|+++| ..+.         +...+.|+++      +.+...+.+++..+.|.||||+|++.|..+
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~-~~~~---------f~~~y~pTi~------~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l   65 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVF-AKDA---------YPGSYVPTVF------ENYTASFEIDKRRIELNMWDTSGSSYYDNV   65 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HcCC---------CCCccCCccc------cceEEEEEECCEEEEEEEEeCCCcHHHHHH
Confidence            79999999999999999997 3333         3344556664      344567788999999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHHHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYAI  207 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~a~  207 (432)
                      ++.+++++|++|+|||++++++|+++ ..|..++....+++|+||||||+||.++            ..++.++++.+++
T Consensus        66 ~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak  145 (222)
T cd04173          66 RPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAK  145 (222)
T ss_pred             hHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHH
Confidence            99999999999999999999999999 6788888877789999999999999642            1378889999999


Q ss_pred             hcCC-cEEEEcCCCCCC-HHHHHHHHHHHHhhhcC
Q psy3450         208 KNQM-AFFEVSPLCDFN-IRESFTELSRRALQRNG  240 (432)
Q Consensus       208 ~~~~-~~~evSAktg~n-I~elf~~L~~~i~~~~~  240 (432)
                      +.++ +|+||||+++.| |+++|+.++...+.+..
T Consensus       146 ~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~~  180 (222)
T cd04173         146 QVGAVSYVECSSRSSERSVRDVFHVATVASLGRGH  180 (222)
T ss_pred             HcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhccC
Confidence            9996 999999999985 99999999998876543

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

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.97  E-value=5.2e-30  Score=229.15  Aligned_cols=160  Identities=36%  Similarity=0.696  Sum_probs=145.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|+++||||||+++| .++.|+         ..+.+++|     .+...+.+.+++..+.+++||++|+++|..++
T Consensus         1 Ki~vvG~~~vGKtsl~~~~-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~   65 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRL-INGEFP---------ENYIPTIG-----IDSYSKEVSIDGKPVNLEIWDTSGQERFDSLR   65 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHH-HHSSTT---------SSSETTSS-----EEEEEEEEEETTEEEEEEEEEETTSGGGHHHH
T ss_pred             CEEEECCCCCCHHHHHHHH-Hhhccc---------cccccccc-----cccccccccccccccccccccccccccccccc
Confidence            8999999999999999997 333333         33444554     47788888999999999999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC-CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~-~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      ..+++++|++|+|||+++++||+.+..|+..+....+ ++|++|||||.|+.++++++.+++++++++++.+|+|+||++
T Consensus        66 ~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~  145 (162)
T PF00071_consen   66 DIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKN  145 (162)
T ss_dssp             HHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTT
T ss_pred             cccccccccccccccccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCC
Confidence            9999999999999999999999999999999999886 799999999999988889999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHh
Q psy3450         221 DFNIRESFTELSRRAL  236 (432)
Q Consensus       221 g~nI~elf~~L~~~i~  236 (432)
                      +.||.++|..+++.++
T Consensus       146 ~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  146 GENVKEIFQELIRKIL  161 (162)
T ss_dssp             TTTHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHh
Confidence            9999999999999874

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 ....

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.97  E-value=6.6e-30  Score=233.35  Aligned_cols=158  Identities=27%  Similarity=0.469  Sum_probs=135.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+.++ ..+.|         ...+.++++      +.+...+.+++..++++||||+|+++|..+
T Consensus         2 ~ki~iiG~~~vGKSsli~~~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISY-TTNAF---------PGEYIPTVF------DNYSANVMVDGKPVNLGLWDTAGQEDYDRL   65 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHH-hcCCC---------CCcCCCcce------eeeEEEEEECCEEEEEEEEECCCchhhhhh
Confidence            69999999999999999997 33333         333445553      455566778899999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHHHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYAI  207 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~a~  207 (432)
                      +..+++++|++|+|||+++++||+++. .|+..+....+++|++|||||+||.+.            +.++.+++.++++
T Consensus        66 ~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~  145 (174)
T cd01871          66 RPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK  145 (174)
T ss_pred             hhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHH
Confidence            999999999999999999999999994 799988877778999999999999543            3588899999999


Q ss_pred             hcCC-cEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         208 KNQM-AFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       208 ~~~~-~~~evSAktg~nI~elf~~L~~~  234 (432)
                      +++. +|+||||++|.||+++|+.+++.
T Consensus       146 ~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         146 EIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             HcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            9985 99999999999999999999864

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.97  E-value=1.2e-29  Score=228.65  Aligned_cols=162  Identities=36%  Similarity=0.620  Sum_probs=141.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++|          ....+...+.+++|     +++....+..++..+.+++|||+|++++..+
T Consensus         2 ~ki~i~G~~~~GKSsli~~l----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~   66 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRY----------ADDSFTSAFVSTVG-----IDFKVKTVFRNDKRVKLQIWDTAGQERYRTI   66 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHH----------hcCCCCCCCCCcee-----eEEEEEEEEECCEEEEEEEEECCChHHHHHH
Confidence            79999999999999999998          33333333444444     3566667777888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++++|||++++++|+++..|+..+.... +++|+++||||+|+.+++.+..+++.++++.++++++++||+
T Consensus        67 ~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  146 (165)
T cd01865          67 TTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAK  146 (165)
T ss_pred             HHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECC
Confidence            9999999999999999999999999999999998766 578999999999998777788888899999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhh
Q psy3450         220 CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       220 tg~nI~elf~~L~~~i~~  237 (432)
                      +|.|++++|+++++.+.+
T Consensus       147 ~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865         147 ENINVKQVFERLVDIICD  164 (165)
T ss_pred             CCCCHHHHHHHHHHHHHh
Confidence            999999999999987643

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.97  E-value=9.5e-30  Score=235.19  Aligned_cols=164  Identities=26%  Similarity=0.466  Sum_probs=140.8

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+++| ..+.|         ...+.++++      +...+.+.+++..+.++||||+|+++|..++
T Consensus         1 ki~ivG~~~vGKTsli~~l-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   64 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQL-CLNHF---------VETYDPTIE------DSYRKQVVVDGQPCMLEVLDTAGQEEYTALR   64 (190)
T ss_pred             CEEEECCCCCCHHHHHHHH-HhCCC---------CccCCCchH------hhEEEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            6899999999999999998 33333         333344444      4445667788888999999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ..+++++|++|+|||+++++||+.+..|+..+....    +++|++|||||+|+..++.+..+++..+++.++++|+++|
T Consensus        65 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~S  144 (190)
T cd04144          65 DQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEAS  144 (190)
T ss_pred             HHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEec
Confidence            999999999999999999999999999999887643    4689999999999987788888888899999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhcCC
Q psy3450         218 PLCDFNIRESFTELSRRALQRNGM  241 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~~~  241 (432)
                      |++|.|++++|+++++.+.++...
T Consensus       145 Ak~~~~v~~l~~~l~~~l~~~~~~  168 (190)
T cd04144         145 AKTNVNVERAFYTLVRALRQQRQG  168 (190)
T ss_pred             CCCCCCHHHHHHHHHHHHHHhhcc
Confidence            999999999999999988765544

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.97  E-value=1.1e-29  Score=227.98  Aligned_cols=159  Identities=26%  Similarity=0.436  Sum_probs=138.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++          ..+.+...+.++++      +.....+.+++..+.+++|||+|+++|..+
T Consensus         2 ~ki~~~G~~~~GKTsli~~~----------~~~~~~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQF----------VQGIFVEKYDPTIE------DSYRKQVEVDGQQCMLEILDTAGTEQFTAM   65 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHH----------HhCCCCcccCCcch------heEEEEEEECCEEEEEEEEECCCcccchhH
Confidence            69999999999999999997          33333333445554      444567788888999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..+++++|++|+|||+++..+|+++..|+..+....  +++|++|||||+|+..++.+..+++..+++.++++|+++||
T Consensus        66 ~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  145 (164)
T cd04175          66 RDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSA  145 (164)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeC
Confidence            9999999999999999999999999999999987643  67999999999999877778888888899888999999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      ++|.|++++|+++++.+
T Consensus       146 ~~~~~v~~~~~~l~~~l  162 (164)
T cd04175         146 KAKINVNEIFYDLVRQI  162 (164)
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999999876

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.97  E-value=1.6e-29  Score=233.58  Aligned_cols=164  Identities=28%  Similarity=0.426  Sum_probs=142.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.++++      +...+.+.+++..+.+++|||+|+++|..
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~   68 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQF-IQNHF---------IDEYDPTIE------DSYRKQCVIDEETCLLDILDTAGQEEYSA   68 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHH-hcCCC---------CcCcCCchh------hEEEEEEEECCEEEEEEEEeCCCCccchh
Confidence            589999999999999999997 33333         333445554      44467778899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..|++++|++|+|||++++++|+++..|+..+.+..  +++|+++|+||+|+.+++.+..+++..+++.++++|+++|
T Consensus        69 l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~S  148 (189)
T PTZ00369         69 MRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETS  148 (189)
T ss_pred             hHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEee
Confidence            99999999999999999999999999999999987654  4789999999999977778888888889988899999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhc
Q psy3450         218 PLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~  239 (432)
                      |++|.||+++|++|++.+.+..
T Consensus       149 ak~~~gi~~~~~~l~~~l~~~~  170 (189)
T PTZ00369        149 AKQRVNVDEAFYELVREIRKYL  170 (189)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999887653

>cd04134 Rho3 Rho3 subfamily

Probab=99.97  E-value=1.2e-29  Score=234.40  Aligned_cols=161  Identities=29%  Similarity=0.471  Sum_probs=136.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+++| ..+.|         ...+.++++      +.+...+.+++..+.++||||+|+++|..++
T Consensus         2 kivivG~~~vGKTsli~~~-~~~~~---------~~~~~~t~~------~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~   65 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVF-TRGYF---------PQVYEPTVF------ENYVHDIFVDGLHIELSLWDTAGQEEFDRLR   65 (189)
T ss_pred             EEEEECCCCCCHHHHHHHH-hcCCC---------CCccCCcce------eeeEEEEEECCEEEEEEEEECCCChhccccc
Confidence            8999999999999999997 43333         333344554      3344566778888999999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCCc------------ccCHHHHHHHHHh
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFNR------------TVTTREAEMYAIK  208 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~r------------~v~~ee~~~~a~~  208 (432)
                      ..+++++|++|+|||+++++||+.+. .|+..+....+++|++|||||+||.+.+            .+..+++..+++.
T Consensus        66 ~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  145 (189)
T cd04134          66 SLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKR  145 (189)
T ss_pred             cccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHH
Confidence            99999999999999999999999995 6999998877889999999999996543            3567788888888


Q ss_pred             cC-CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         209 NQ-MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       209 ~~-~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      .+ ++|+||||++|.||+++|++|++.++..
T Consensus       146 ~~~~~~~e~SAk~~~~v~e~f~~l~~~~~~~  176 (189)
T cd04134         146 INALRYLECSAKLNRGVNEAFTEAARVALNV  176 (189)
T ss_pred             cCCCEEEEccCCcCCCHHHHHHHHHHHHhcc
Confidence            77 6899999999999999999999998753

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.

>cd04128 Spg1 Spg1p

Probab=99.97  E-value=1.3e-29  Score=233.33  Aligned_cols=161  Identities=24%  Similarity=0.501  Sum_probs=136.4

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .         .+.+...+.+++|     .++..+.+.+++..+.+++|||+|+++|..+
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~-~---------~~~f~~~~~~T~g-----~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~   65 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKY-V---------EGEFDEDYIQTLG-----VNFMEKTISIRGTEITFSIWDLGGQREFINM   65 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHH-H---------hCCCCCCCCCccc-----eEEEEEEEEECCEEEEEEEEeCCCchhHHHh
Confidence            58999999999999999997 3         3333334555665     4677778889999999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC-CCcEEEEEECccCCC-----CcccCHHHHHHHHHhcCCcEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-GVPKVLVGNRLHLAF-----NRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~-~iPiILVgNK~DL~~-----~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +..+++++|++++|||+++++||+++..|+.++.+..+ ..| ++||||+|+..     ++....++++++++.++++++
T Consensus        66 ~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~  144 (182)
T cd04128          66 LPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLI  144 (182)
T ss_pred             hHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEE
Confidence            99999999999999999999999999999999987653 456 68999999942     122234677889999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++||++|.||+++|+++++.+.+
T Consensus       145 e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128         145 FCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999998865

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

>KOG0083|consensus

Probab=99.97  E-value=2.9e-31  Score=225.03  Aligned_cols=161  Identities=37%  Similarity=0.616  Sum_probs=145.4

Q ss_pred             EEeCcccchhHHHHHhhhcCCCCcccccCCCCc-CccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhh
Q psy3450          64 LLVGDSDVGKQEILSGLYLESRFPRFWLDGSSE-SPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIR  142 (432)
Q Consensus        64 vvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~-~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~  142 (432)
                      +++|++++|||+|+-||          .++.+- ..++.++|     +||..+.+.++++++++++|||+|||+|++...
T Consensus         1 mllgds~~gktcllir~----------kdgafl~~~fistvg-----id~rnkli~~~~~kvklqiwdtagqerfrsvt~   65 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRF----------KDGAFLAGNFISTVG-----IDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTH   65 (192)
T ss_pred             CccccCccCceEEEEEe----------ccCceecCceeeeee-----eccccceeccCCcEEEEEEeeccchHHHhhhhH
Confidence            37899999999999997          333322 23445566     799999999999999999999999999999999


Q ss_pred             hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCC
Q psy3450         143 SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCD  221 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg  221 (432)
                      .||+++|+.+++||++|+.||++++.|+.+|.++. ..+.+.++|||+|+..+|.+..++++++++.+++||+|+|||+|
T Consensus        66 ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg  145 (192)
T KOG0083|consen   66 AYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTG  145 (192)
T ss_pred             hhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceecccccc
Confidence            99999999999999999999999999999999887 56888999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHhhhc
Q psy3450         222 FNIRESFTELSRRALQRN  239 (432)
Q Consensus       222 ~nI~elf~~L~~~i~~~~  239 (432)
                      .||+-.|..|++.+.+..
T Consensus       146 ~nvd~af~~ia~~l~k~~  163 (192)
T KOG0083|consen  146 FNVDLAFLAIAEELKKLK  163 (192)
T ss_pred             ccHhHHHHHHHHHHHHhc
Confidence            999999999999987643

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=2.4e-29  Score=238.30  Aligned_cols=166  Identities=21%  Similarity=0.480  Sum_probs=142.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||++++          ..+.+...+.+++|     +++....+..++..+.+.+|||+|+++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~----------~~~~f~~~~~~tig-----~~~~~~~~~~~~~~~~l~i~Dt~G~~~~   75 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRH----------LTGEFEKKYEPTIG-----VEVHPLDFFTNCGKIRFYCWDTAGQEKF   75 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHH----------hhCCCCCccCCccc-----eeEEEEEEEECCeEEEEEEEECCCchhh
Confidence            66799999999999999999997          33344444555655     4566666777888899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ..++..|++++|++|+|||++++++|+.+..|+.++.+..+++|++|||||+|+.. +.+..+++ .+++..+++|+|+|
T Consensus        76 ~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~S  153 (219)
T PLN03071         76 GGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEIS  153 (219)
T ss_pred             hhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcC
Confidence            99999999999999999999999999999999999988878899999999999953 45555555 77788889999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         218 PLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~~  240 (432)
                      |++|.||+++|++|++.+.+...
T Consensus       154 Ak~~~~i~~~f~~l~~~~~~~~~  176 (219)
T PLN03071        154 AKSNYNFEKPFLYLARKLAGDPN  176 (219)
T ss_pred             CCCCCCHHHHHHHHHHHHHcCcc
Confidence            99999999999999999876543

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.97  E-value=2.1e-29  Score=225.23  Aligned_cols=161  Identities=29%  Similarity=0.563  Sum_probs=140.5

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .+..+         ...+.+++|     .++..+.+.+++..+.+++|||+|++++..+
T Consensus         1 ~ki~~vG~~~vGKTsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRY-CEGRF---------VSKYLPTIG-----IDYGVKKVSVRNKEVRVNFFDLSGHPEYLEV   65 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCC---------CCCCCCccc-----eeEEEEEEEECCeEEEEEEEECCccHHHHHH
Confidence            58999999999999999998 33333         233444554     4666778888899999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC------CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA------PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~------~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++.+++++|++|+|||++++++|+.+..|+.++.+..      .+.|+++|+||+|+.+++.+..+++..++++.+++++
T Consensus        66 ~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  145 (168)
T cd04119          66 RNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYF  145 (168)
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEE
Confidence            9999999999999999999999999999999998764      3589999999999976677888888899999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHh
Q psy3450         215 EVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~  236 (432)
                      ++||++|.|++++|++|++.++
T Consensus       146 ~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119         146 ETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             EEECCCCCCHHHHHHHHHHHHh
Confidence            9999999999999999998875

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.97  E-value=3.3e-29  Score=226.48  Aligned_cols=166  Identities=36%  Similarity=0.694  Sum_probs=143.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +++.+||+++|++|||||||++++ .+..+         ...+.++.|     .++....+.+++..+.+.+|||+|+++
T Consensus         1 ~~~~~ki~vvG~~~vGKSsLl~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~   65 (168)
T cd01866           1 YAYLFKYIIIGDTGVGKSCLLLQF-TDKRF---------QPVHDLTIG-----VEFGARMITIDGKQIKLQIWDTAGQES   65 (168)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCccc-----eeEEEEEEEECCEEEEEEEEECCCcHH
Confidence            357799999999999999999997 33332         222333333     366667778888889999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..+...+++++|++|+|||++++++|+.+..|+.+++... +++|++||+||.|+.+++.+..+++..++.+.++.|+|
T Consensus        66 ~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e  145 (168)
T cd01866          66 FRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFME  145 (168)
T ss_pred             HHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999999999998765 68999999999999877788889999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~  237 (432)
                      +||+++.|++++|+++++.+++
T Consensus       146 ~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         146 TSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988754

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.97  E-value=2.4e-29  Score=225.29  Aligned_cols=159  Identities=25%  Similarity=0.427  Sum_probs=137.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ ..+.+         ...+.++++      ++....+.+++..+.++||||+|+++|..+
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQF-VSGTF---------IEKYDPTIE------DFYRKEIEVDSSPSVLEILDTAGTEQFASM   65 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCchh------heEEEEEEECCEEEEEEEEECCCcccccch
Confidence            79999999999999999997 33333         333334443      566677888998899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..+++++|++|+|||++++++|+++..|+..+.+..  .++|++|||||+|+..++.+..+++..+++.++++++++||
T Consensus        66 ~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  145 (163)
T cd04176          66 RDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSA  145 (163)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecC
Confidence            9999999999999999999999999999999987754  57999999999999777777777888888888899999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      ++|.|++++|+++++.+
T Consensus       146 ~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         146 KSKTMVNELFAEIVRQM  162 (163)
T ss_pred             CCCCCHHHHHHHHHHhc
Confidence            99999999999998754

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.97  E-value=3.8e-29  Score=230.35  Aligned_cols=169  Identities=35%  Similarity=0.592  Sum_probs=145.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ..+.         +...+.+++|     .++..+.+.+++..+.+++|||+|++++..+
T Consensus         1 ~ki~v~G~~~vGKSsli~~~-~~~~---------~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~   65 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRF-TEDE---------FSESTKSTIG-----VDFKIKTVYIENKIIKLQIWDTNGQERFRSL   65 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHH-hcCC---------CCCCCCCcee-----eEEEEEEEEECCEEEEEEEEECCCcHHHHhh
Confidence            58999999999999999998 3333         3322334443     3566677888888999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++|+|||++++++|+++..|+.++.... .++|+++||||+|+.+.+.+..+++..+++..+++|+++||+
T Consensus        66 ~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~  145 (188)
T cd04125          66 NNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAK  145 (188)
T ss_pred             HHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCC
Confidence            9999999999999999999999999999999998765 468999999999998778888889999999889999999999


Q ss_pred             CCCCHHHHHHHHHHHHhhhcCCccc
Q psy3450         220 CDFNIRESFTELSRRALQRNGMERL  244 (432)
Q Consensus       220 tg~nI~elf~~L~~~i~~~~~~~~~  244 (432)
                      +|.|++++|++|++.+.++.....+
T Consensus       146 ~~~~i~~~f~~l~~~~~~~~~~~~~  170 (188)
T cd04125         146 QSINVEEAFILLVKLIIKRLEEQEL  170 (188)
T ss_pred             CCCCHHHHHHHHHHHHHHHhhcCcC
Confidence            9999999999999999876554433

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.

>cd01868 Rab11_like Rab11-like

Probab=99.96  E-value=4.7e-29  Score=223.88  Aligned_cols=162  Identities=44%  Similarity=0.736  Sum_probs=141.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+||+++|++|||||||++++ .+..+         ...+.+++|     .++....+..++..+.+++||++|++++.
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~D~~g~~~~~   66 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRF-TRNEF---------NLDSKSTIG-----VEFATRSIQIDGKTIKAQIWDTAGQERYR   66 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCCccc-----eEEEEEEEEECCEEEEEEEEeCCChHHHH
Confidence            5689999999999999999998 33332         222334443     36677778888888999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC-CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~-~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .++..++++++++|+|||++++.+|+++.+|+.++.+..+ ++|++||+||+|+...+++..++...+++..+++|+|+|
T Consensus        67 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (165)
T cd01868          67 AITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETS  146 (165)
T ss_pred             HHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEE
Confidence            9999999999999999999999999999999999988764 599999999999987788888899999988899999999


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q psy3450         218 PLCDFNIRESFTELSRRA  235 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i  235 (432)
                      |++|.|++++|++++..+
T Consensus       147 a~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         147 ALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             CCCCCCHHHHHHHHHHHh
Confidence            999999999999998765

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.96  E-value=4.1e-29  Score=235.33  Aligned_cols=168  Identities=38%  Similarity=0.593  Sum_probs=143.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-CCeEEEEEEEeCCCCcccc
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-DGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-~~~~v~l~i~Dt~G~e~~~  138 (432)
                      .+||+++|++|||||||+++| .++.+.         ..+.+++|     .++..+.+.+ ++..+.+++|||+|++++.
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l-~~~~~~---------~~~~~ti~-----~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~   66 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRF-TEGRFA---------EVSDPTVG-----VDFFSRLIEIEPGVRIKLQLWDTAGQERFR   66 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHH-HcCCCC---------CCCCceec-----eEEEEEEEEECCCCEEEEEEEeCCcchhHH
Confidence            589999999999999999997 333332         22233443     4677777776 4678899999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .++..+++++|++|+|||+++++||+++..|+.++.+..  ..+|++|||||+|+.+.+.+..+++..+++.++++|+|+
T Consensus        67 ~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~  146 (211)
T cd04111          67 SITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIET  146 (211)
T ss_pred             HHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEE
Confidence            999999999999999999999999999999999987654  357889999999998878899999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhcCCc
Q psy3450         217 SPLCDFNIRESFTELSRRALQRNGME  242 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~~~~  242 (432)
                      ||++|.||+++|++|++.+.++....
T Consensus       147 Sak~g~~v~e~f~~l~~~~~~~~~~~  172 (211)
T cd04111         147 SARTGDNVEEAFELLTQEIYERIKRG  172 (211)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHHhhcC
Confidence            99999999999999999987765433

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.96  E-value=6.4e-29  Score=234.79  Aligned_cols=170  Identities=38%  Similarity=0.669  Sum_probs=148.4

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      +.++.+||+++|++|||||||+++| .++.+         ...+.+++|     +++....+.+++..+.++||||+|++
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l-~~~~~---------~~~~~~t~g-----~~~~~~~v~~~~~~~~l~l~Dt~G~~   72 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRF-TRNEF---------CLESKSTIG-----VEFATRTLQVEGKTVKAQIWDTAGQE   72 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCCcee-----EEEEEEEEEECCEEEEEEEEECCCcH
Confidence            4567899999999999999999997 33333         222334444     47777888899999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +|..++..++++++++|+|||++++++|+++..|+..+.... .++|+++||||+|+...+.+..+++..++..++++|+
T Consensus        73 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~  152 (216)
T PLN03110         73 RYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFL  152 (216)
T ss_pred             HHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999999999999999988765 4799999999999988888888999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ++||++|.|++++|+++++.+.+...
T Consensus       153 e~SA~~g~~v~~lf~~l~~~i~~~~~  178 (216)
T PLN03110        153 ETSALEATNVEKAFQTILLEIYHIIS  178 (216)
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999877543

>cd04109 Rab28 Rab28 subfamily

Probab=99.96  E-value=3.8e-29  Score=235.96  Aligned_cols=163  Identities=29%  Similarity=0.455  Sum_probs=141.6

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECC-eEEEEEEEeCCCCcccch
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG-KRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~-~~v~l~i~Dt~G~e~~~~  139 (432)
                      +||+++|++|||||||+++| .++.         +...+.+++|     +++..+.+.+++ ..+.++||||+|++.+..
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l-~~~~---------~~~~~~~T~~-----~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~   65 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRF-AKEG---------FGKSYKQTIG-----LDFFSKRVTLPGNLNVTLQVWDIGGQSIGGK   65 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHH-hcCC---------CCCCCCCcee-----EEEEEEEEEeCCCCEEEEEEEECCCcHHHHH
Confidence            58999999999999999997 3333         3333445554     477777788865 578999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ++..+++++|++|+|||+++++||+++..|+..+.+..    .++|+++||||+|+.+++.+..+++..+++.+++++++
T Consensus        66 l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~  145 (215)
T cd04109          66 MLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCL  145 (215)
T ss_pred             HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999999998764    34689999999999877889999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +||++|.||+++|++|++.+...
T Consensus       146 iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         146 VSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999999998764

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.96  E-value=4.4e-29  Score=222.88  Aligned_cols=159  Identities=33%  Similarity=0.613  Sum_probs=137.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC--CeEEEEEEEeCCCCcccc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD--GKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~--~~~v~l~i~Dt~G~e~~~  138 (432)
                      +||+++|++|||||||++++ ..+.+         ...+.++++     .++....+.++  +..+++++|||+|+++|.
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   65 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRF-VKGIF---------TKDYKKTIG-----VDFLEKQIFLRQSDEDVRLMLWDTAGQEEFD   65 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCCcEE-----EEEEEEEEEEcCCCCEEEEEEeeCCchHHHH
Confidence            58999999999999999997 33333         222333443     35555666666  778999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      .++..+++++|++++|||++++++|+.+..|+..+....+++|+++|+||+|+..++.+..+++..+++..+++++++||
T Consensus        66 ~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa  145 (162)
T cd04106          66 AITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSV  145 (162)
T ss_pred             HhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEEC
Confidence            99999999999999999999999999999999999877788999999999999877888888999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRR  234 (432)
Q Consensus       219 ktg~nI~elf~~L~~~  234 (432)
                      ++|.|++++|++|...
T Consensus       146 ~~~~~v~~l~~~l~~~  161 (162)
T cd04106         146 KDDFNVTELFEYLAEK  161 (162)
T ss_pred             CCCCCHHHHHHHHHHh
Confidence            9999999999999753

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

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.96  E-value=4.3e-29  Score=226.01  Aligned_cols=159  Identities=30%  Similarity=0.508  Sum_probs=135.2

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIR  142 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~  142 (432)
                      |+|+|++|||||||+++| ..+.|+         ..+.++++      +.....+.+++..+.+++|||+|+++|..++.
T Consensus         1 i~i~G~~~vGKTsli~~~-~~~~~~---------~~~~~~~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   64 (174)
T smart00174        1 LVVVGDGAVGKTCLLISY-TTNAFP---------EDYVPTVF------ENYSADVEVDGKPVELGLWDTAGQEDYDRLRP   64 (174)
T ss_pred             CEEECCCCCCHHHHHHHH-HhCCCC---------CCCCCcEE------eeeeEEEEECCEEEEEEEEECCCCcccchhch
Confidence            589999999999999997 444443         22233332      34455677889899999999999999999999


Q ss_pred             hcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHHHHhc
Q psy3450         143 SYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYAIKN  209 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~a~~~  209 (432)
                      .+++++|++|+|||+++++||+++. .|+..+....+++|++|||||+|+..+            +.++.+++.++++.+
T Consensus        65 ~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~  144 (174)
T smart00174       65 LSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRI  144 (174)
T ss_pred             hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHc
Confidence            9999999999999999999999994 699999887788999999999999653            347888899999999


Q ss_pred             CC-cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         210 QM-AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       210 ~~-~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++ +|+||||++|.||+++|+.+++.+++
T Consensus       145 ~~~~~~e~Sa~~~~~v~~lf~~l~~~~~~  173 (174)
T smart00174      145 GAVKYLECSALTQEGVREVFEEAIRAALN  173 (174)
T ss_pred             CCcEEEEecCCCCCCHHHHHHHHHHHhcC
Confidence            86 99999999999999999999988754

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.96  E-value=7.5e-29  Score=222.10  Aligned_cols=160  Identities=30%  Similarity=0.477  Sum_probs=137.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ .+..+.         ..+.++.+      +...+.+.+++..+.+++|||+|++++..+
T Consensus         1 ~ki~v~G~~~~GKTsli~~~-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~   64 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQF-VQGHFV---------DDYDPTIE------DSYRKQIEIDGEVCLLDILDTAGQEEFSAM   64 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCcCC---------cccCCchh------hhEEEEEEECCEEEEEEEEECCCcccchHH
Confidence            58999999999999999997 333333         22233332      445567778888999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..+++++|++++|||++++++|+++..|+..+.+..  .+.|+++||||+|+..++.+..+++..+++..+++|+++||
T Consensus        65 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  144 (164)
T smart00173       65 RDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSA  144 (164)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeec
Confidence            9999999999999999999999999999998887654  46899999999999877778888888999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHh
Q psy3450         219 LCDFNIRESFTELSRRAL  236 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~  236 (432)
                      ++|.|++++|++|++.+.
T Consensus       145 ~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      145 KERVNVDEAFYDLVREIR  162 (164)
T ss_pred             CCCCCHHHHHHHHHHHHh
Confidence            999999999999998764

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.96  E-value=8.4e-29  Score=223.03  Aligned_cols=158  Identities=24%  Similarity=0.366  Sum_probs=134.4

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ .++.|         ...+.++.+      ..+.+.+..++..+.+.+|||+|+++|..+
T Consensus         2 ~kv~~vG~~~vGKTsli~~~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRF-VKGTF---------RESYIPTIE------DTYRQVISCSKNICTLQITDTTGSHQFPAM   65 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HhCCC---------CCCcCCcch------heEEEEEEECCEEEEEEEEECCCCCcchHH
Confidence            79999999999999999997 33333         333334443      334455667778899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      +..+++++|++|+|||++++++|+++..|+..+.+..    +++|++|||||+|+...+++..+++..++..++++|+|+
T Consensus        66 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~  145 (165)
T cd04140          66 QRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMET  145 (165)
T ss_pred             HHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEe
Confidence            9999999999999999999999999999988877643    579999999999997777888888888998889999999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELSRR  234 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~  234 (432)
                      ||++|.||+++|++|++.
T Consensus       146 SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140         146 SAKTNHNVQELFQELLNL  163 (165)
T ss_pred             ecCCCCCHHHHHHHHHhc
Confidence            999999999999999753

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.96  E-value=7.7e-29  Score=222.90  Aligned_cols=162  Identities=39%  Similarity=0.641  Sum_probs=139.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ++.+||+++|++|+|||||++++ ....+         ...+.++.+     .++..+.+.+++..+.+++|||+|++++
T Consensus         1 ~~~~kv~vvG~~~~GKTsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~D~~G~~~~   65 (165)
T cd01864           1 DFLFKIILIGDSNVGKTCVVQRF-KSGTF---------SERQGNTIG-----VDFTMKTLEIEGKRVKLQIWDTAGQERF   65 (165)
T ss_pred             CceeEEEEECCCCCCHHHHHHHH-hhCCC---------cccCCCccc-----eEEEEEEEEECCEEEEEEEEECCChHHH
Confidence            35789999999999999999997 33333         222223332     3666777888888899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-cEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-AFFE  215 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~~~e  215 (432)
                      ..++..+++++|++++|||++++++|+.+..|+..+.... +++|+++|+||+|+.+.+++..+++..+++..++ .++|
T Consensus        66 ~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e  145 (165)
T cd01864          66 RTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLE  145 (165)
T ss_pred             HHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEE
Confidence            9999999999999999999999999999999999998754 5799999999999988788888899999998886 7899


Q ss_pred             EcCCCCCCHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~  234 (432)
                      +||++|.|++++|+++++.
T Consensus       146 ~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         146 TSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            9999999999999999865

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.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.96  E-value=9.3e-29  Score=223.74  Aligned_cols=161  Identities=24%  Similarity=0.536  Sum_probs=135.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++          ..+.+...+.++++     +++....+..++..+.+.+|||+|++++..+
T Consensus         1 ~ki~vvG~~~vGKTsli~~~----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRH----------LTGEFEKKYVATLG-----VEVHPLDFHTNRGKIRFNVWDTAGQEKFGGL   65 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHH----------HhCCCCCCCCCcee-----eEEEEEEEEECCEEEEEEEEECCCChhhccc
Confidence            58999999999999999998          33333333344443     3555566667888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      +..+++.+|++|+|||++++++|+.+..|+.++....+++|+++||||+|+.+ +.+. .+..++++..+++|+|+||++
T Consensus        66 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piiiv~nK~Dl~~-~~~~-~~~~~~~~~~~~~~~e~Sa~~  143 (166)
T cd00877          66 RDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIPIVLCGNKVDIKD-RKVK-AKQITFHRKKNLQYYEISAKS  143 (166)
T ss_pred             cHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEEchhccc-ccCC-HHHHHHHHHcCCEEEEEeCCC
Confidence            99999999999999999999999999999999998877899999999999963 4444 344567777788999999999


Q ss_pred             CCCHHHHHHHHHHHHhhh
Q psy3450         221 DFNIRESFTELSRRALQR  238 (432)
Q Consensus       221 g~nI~elf~~L~~~i~~~  238 (432)
                      |.||+++|++|++.+.+.
T Consensus       144 ~~~v~~~f~~l~~~~~~~  161 (166)
T cd00877         144 NYNFEKPFLWLARKLLGN  161 (166)
T ss_pred             CCChHHHHHHHHHHHHhc
Confidence            999999999999998653

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.96  E-value=9e-29  Score=224.92  Aligned_cols=161  Identities=30%  Similarity=0.512  Sum_probs=136.8

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+++| ..+.         +...+.++++     .++..+.+.+++..++++||||+|+++|..++
T Consensus         2 ki~ivG~~~vGKTsli~~~-~~~~---------f~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   66 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRF-CKDV---------FDKNYKATIG-----VDFEMERFEILGVPFSLQLWDTAGQERFKCIA   66 (170)
T ss_pred             EEEEECCCCCCHHHHHHHH-hcCC---------CCCCCCCcee-----eEEEEEEEEECCEEEEEEEEeCCChHHHHhhH
Confidence            8999999999999999998 3333         3334455554     46666778889989999999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-C-CCcEEEEEECccCCCCcc--cCHHHHHHHHHhcCCcEEEEc
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-P-GVPKVLVGNRLHLAFNRT--VTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~-~iPiILVgNK~DL~~~r~--v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ..+++++|++|+|||++++++|+.+..|+.++.+.. + +.|+++||||+|+.+.+.  +..+++..++++++++|+++|
T Consensus        67 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~S  146 (170)
T cd04108          67 STYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVS  146 (170)
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEE
Confidence            999999999999999999999999999999986543 3 578999999999965443  346677888888899999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++|.|++++|+.|++.+.+
T Consensus       147 a~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         147 ALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             CCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999998854

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

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.96  E-value=1.2e-28  Score=219.06  Aligned_cols=158  Identities=28%  Similarity=0.487  Sum_probs=135.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .++.|         ...+.++.+      +...+.+.+++..+.+++|||+|++++..+
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l   65 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQL-IQNHF---------VDEYDPTIE------DSYRKQVVIDGETCLLDILDTAGQEEYSAM   65 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HhCCC---------cCCcCCcch------heEEEEEEECCEEEEEEEEECCCCcchHHH
Confidence            69999999999999999998 33333         223334443      445666778888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..|++++|++++|||++++.+|+++..|+..+.+..  .++|++||+||+|+.. +.+..+++.++++..+++++++||
T Consensus        66 ~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa  144 (162)
T cd04138          66 RDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSA  144 (162)
T ss_pred             HHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecC
Confidence            9999999999999999999999999999999887764  5789999999999965 567778888888888999999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      ++|.|++++|+++++.+
T Consensus       145 ~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         145 KTRQGVEEAFYTLVREI  161 (162)
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998764

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.96  E-value=1.1e-28  Score=226.67  Aligned_cols=164  Identities=31%  Similarity=0.488  Sum_probs=137.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCCcccch
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~e~~~~  139 (432)
                      +||+++|++|||||||+++| ..+.|+         ..+.++++      +.+...+..+ +..+.+.||||+|+++|..
T Consensus         1 ~ki~vvG~~~vGKTsli~~l-~~~~~~---------~~~~~t~~------~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~   64 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVY-SQGKFP---------EEYVPTVF------ENYVTNIQGPNGKIIELALWDTAGQEEYDR   64 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHH-HhCcCC---------CCCCCeee------eeeEEEEEecCCcEEEEEEEECCCchhHHH
Confidence            58999999999999999997 333332         22333433      2233445554 7789999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC----cccCHHHHHHHHHhcCC-cE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN----RTVTTREAEMYAIKNQM-AF  213 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~----r~v~~ee~~~~a~~~~~-~~  213 (432)
                      +++.+++++|++|+|||+++++||+++. .|+..+....+++|+++||||+|+..+    +.+..++++++++.+++ ++
T Consensus        65 ~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~  144 (187)
T cd04132          65 LRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAY  144 (187)
T ss_pred             HHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEE
Confidence            9999999999999999999999999994 699888876778999999999999653    35778889999999988 99


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +++||++|.||+++|+.+++.+.....
T Consensus       145 ~e~Sa~~~~~v~~~f~~l~~~~~~~~~  171 (187)
T cd04132         145 LECSAKTMENVEEVFDTAIEEALKKEG  171 (187)
T ss_pred             EEccCCCCCCHHHHHHHHHHHHHhhhh
Confidence            999999999999999999999977554

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.

>PLN03108 Rab family protein; Provisional

Probab=99.96  E-value=1.6e-28  Score=231.00  Aligned_cols=169  Identities=37%  Similarity=0.683  Sum_probs=146.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .++.+||+|+|++|||||||+++| ....|         ...+.++++     .++....+.+++..+.+.+|||+|++.
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l-~~~~~---------~~~~~~ti~-----~~~~~~~i~~~~~~i~l~l~Dt~G~~~   67 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQF-TDKRF---------QPVHDLTIG-----VEFGARMITIDNKPIKLQIWDTAGQES   67 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHH-HhCCC---------CCCCCCCcc-----ceEEEEEEEECCEEEEEEEEeCCCcHH
Confidence            356799999999999999999997 33333         223334444     466677788899899999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..++..+++++|++|+|||++++++|+.+..|+..+.... +++|+++|+||+|+...+.+..+++++++++++++|++
T Consensus        68 ~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e  147 (210)
T PLN03108         68 FRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFME  147 (210)
T ss_pred             HHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999999999887654 57999999999999887889999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +||+++.||+++|+++++.++++..
T Consensus       148 ~Sa~~~~~v~e~f~~l~~~~~~~~~  172 (210)
T PLN03108        148 ASAKTAQNVEEAFIKTAAKIYKKIQ  172 (210)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999976543

>KOG0097|consensus

Probab=99.96  E-value=2.8e-29  Score=214.87  Aligned_cols=174  Identities=34%  Similarity=0.656  Sum_probs=154.4

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      -.+.+.+|.+++|+-|||||+|+.+| .+.+|-.       +.+  .++|     ++|-.+.+++.|.+++++||||+||
T Consensus         6 ynysyifkyiiigdmgvgkscllhqf-tekkfma-------dcp--htig-----vefgtriievsgqkiklqiwdtagq   70 (215)
T KOG0097|consen    6 YNYSYIFKYIIIGDMGVGKSCLLHQF-TEKKFMA-------DCP--HTIG-----VEFGTRIIEVSGQKIKLQIWDTAGQ   70 (215)
T ss_pred             cchhheEEEEEEccccccHHHHHHHH-HHHHHhh-------cCC--cccc-----eecceeEEEecCcEEEEEEeecccH
Confidence            35678899999999999999999996 4444421       112  2444     5888999999999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                      |+|+...+.||+++.+.++|||++.+.++..+..|+...+... |+..++++|||.||+.+|.++.+++.+|+++.|..|
T Consensus        71 erfravtrsyyrgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~f  150 (215)
T KOG0097|consen   71 ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMF  150 (215)
T ss_pred             HHHHHHHHHHhccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEE
Confidence            9999999999999999999999999999999999999888765 788899999999999999999999999999999999


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcCCcc
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNGMER  243 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~~~~  243 (432)
                      +|+|||+|.||++.|-+.++.+.++-+...
T Consensus       151 le~saktg~nvedafle~akkiyqniqdgs  180 (215)
T KOG0097|consen  151 LEASAKTGQNVEDAFLETAKKIYQNIQDGS  180 (215)
T ss_pred             EEecccccCcHHHHHHHHHHHHHHhhhcCc
Confidence            999999999999999999999988755443

>cd04112 Rab26 Rab26 subfamily

Probab=99.96  E-value=1.5e-28  Score=227.39  Aligned_cols=165  Identities=36%  Similarity=0.644  Sum_probs=141.5

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ....+..        ..+.++++     .++....+.+++..+.++||||+|++++..+
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~-~~~~~~~--------~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   66 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRF-KDGAFLN--------GNFIATVG-----IDFRNKVVTVDGVKVKLQIWDTAGQERFRSV   66 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHH-hcCCCCc--------cCcCCccc-----ceeEEEEEEECCEEEEEEEEeCCCcHHHHHh
Confidence            58999999999999999997 3333321        12223333     3555666788899999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++|+|||++++++|+++..|+..+.+.. .++|+++||||+|+..++.+..+++..+++.++++|+|+||+
T Consensus        67 ~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~  146 (191)
T cd04112          67 THAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAK  146 (191)
T ss_pred             hHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCC
Confidence            9999999999999999999999999999999998876 479999999999997778888889999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhhhc
Q psy3450         220 CDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       220 tg~nI~elf~~L~~~i~~~~  239 (432)
                      +|.|++++|++|++.+....
T Consensus       147 ~~~~v~~l~~~l~~~~~~~~  166 (191)
T cd04112         147 TGLNVELAFTAVAKELKHRK  166 (191)
T ss_pred             CCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999997654

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.

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.96  E-value=1.5e-28  Score=219.56  Aligned_cols=160  Identities=28%  Similarity=0.479  Sum_probs=137.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||++++ ....+         ...+.++.+      +.....+.+++..+.+++|||||++++..
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~   65 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQF-IQSYF---------VTDYDPTIE------DSYTKQCEIDGQWAILDILDTAGQEEFSA   65 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHH-HhCCC---------CcccCCCcc------ceEEEEEEECCEEEEEEEEECCCCcchhH
Confidence            479999999999999999997 33332         222333433      44456667888889999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++++|++++|||++++.+|+.+..|+..+.+..  .++|++||+||+|+..++.+..+++.++++..+++++++|
T Consensus        66 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  145 (164)
T cd04145          66 MREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETS  145 (164)
T ss_pred             HHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEee
Confidence            99999999999999999999999999999999987653  5789999999999987777888888899998899999999


Q ss_pred             CCCCCCHHHHHHHHHHHH
Q psy3450         218 PLCDFNIRESFTELSRRA  235 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i  235 (432)
                      |++|.||+++|++|++.+
T Consensus       146 a~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         146 AKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             CCCCCCHHHHHHHHHHhh
Confidence            999999999999998765

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

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.96  E-value=1.5e-28  Score=229.74  Aligned_cols=158  Identities=21%  Similarity=0.493  Sum_probs=136.5

Q ss_pred             eCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhhhcc
Q psy3450          66 VGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYS  145 (432)
Q Consensus        66 vG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~  145 (432)
                      +|++|||||||+++|          ..+.+...+.+++|     +++....+.+++..+.+.||||+|+++|..++..|+
T Consensus         1 vG~~~vGKTsLi~r~----------~~~~f~~~~~~Tig-----~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~   65 (200)
T smart00176        1 VGDGGTGKTTFVKRH----------LTGEFEKKYVATLG-----VEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYY   65 (200)
T ss_pred             CCCCCCCHHHHHHHH----------hcCCCCCCCCCcee-----EEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHh
Confidence            699999999999998          33344444555665     467777788889999999999999999999999999


Q ss_pred             cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHH
Q psy3450         146 RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR  225 (432)
Q Consensus       146 ~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~  225 (432)
                      +++|++|+|||++++.||+.+..|+.++.+..+++|++|||||+|+.. +.+..++ ..+++..++.|+||||++|.||+
T Consensus        66 ~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~  143 (200)
T smart00176       66 IQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFE  143 (200)
T ss_pred             cCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHH
Confidence            999999999999999999999999999998778899999999999854 5565544 46788889999999999999999


Q ss_pred             HHHHHHHHHHhhhcC
Q psy3450         226 ESFTELSRRALQRNG  240 (432)
Q Consensus       226 elf~~L~~~i~~~~~  240 (432)
                      ++|++|++.+.+...
T Consensus       144 ~~F~~l~~~i~~~~~  158 (200)
T smart00176      144 KPFLWLARKLIGDPN  158 (200)
T ss_pred             HHHHHHHHHHHhccc
Confidence            999999999976543

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.96  E-value=1.4e-28  Score=219.96  Aligned_cols=159  Identities=41%  Similarity=0.682  Sum_probs=138.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .         .+.+.....++.+     .++....+.+++..+.+++||++|+++|..+
T Consensus         1 ~ki~v~G~~~vGKTsli~~l-~---------~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~   65 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRF-V---------ENKFKEDSQHTIG-----VEFGSKIIRVGGKRVKLQIWDTAGQERFRSV   65 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHH-H---------hCCCCCCCCCcee-----eeEEEEEEEECCEEEEEEEEECcchHHHHHh
Confidence            58999999999999999998 3         3332222333333     3566677788888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++|+|||++++++|.++..|+.+++... +++|++||+||+|+...+.+..+++..+++..++.++++||+
T Consensus        66 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  145 (161)
T cd04113          66 TRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSAL  145 (161)
T ss_pred             HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECC
Confidence            9999999999999999999999999999999987665 789999999999998778888999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRR  234 (432)
Q Consensus       220 tg~nI~elf~~L~~~  234 (432)
                      ++.|++++|+++++.
T Consensus       146 ~~~~i~~~~~~~~~~  160 (161)
T cd04113         146 TGENVEEAFLKCARS  160 (161)
T ss_pred             CCCCHHHHHHHHHHh
Confidence            999999999999875

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.96  E-value=1.8e-28  Score=221.27  Aligned_cols=161  Identities=32%  Similarity=0.586  Sum_probs=137.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|++|||||||+++| ..+.+         ...+.+++|     .++..+.+.+++..+.++|||++|++++
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~l~i~D~~G~~~~   67 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRY-VTNKF---------DTQLFHTIG-----VEFLNKDLEVDGHFVTLQIWDTAGQERF   67 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHH-HcCCC---------CcCcCCcee-----eEEEEEEEEECCeEEEEEEEeCCChHHH
Confidence            35699999999999999999997 33333         332333443     3566677888999999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-  211 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-  211 (432)
                      ..++..+++++|++|+|||++++++|+.+..|+.++....     .++|++|||||+|+. ++.+..+++++++++++. 
T Consensus        68 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~  146 (170)
T cd04116          68 RSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDY  146 (170)
T ss_pred             HHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCC
Confidence            9999999999999999999999999999999999886543     468999999999986 577888999999998885 


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~  234 (432)
                      +++|+||++|.|++++|+++++.
T Consensus       147 ~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         147 PYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            89999999999999999999875

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.96  E-value=1.5e-28  Score=221.04  Aligned_cols=152  Identities=18%  Similarity=0.391  Sum_probs=127.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ..+.|..         .+.+..+      .+ .+.+.+++..+.+++|||+|++.    
T Consensus         1 ~ki~vvG~~gvGKTsli~~~-~~~~f~~---------~~~~~~~------~~-~~~i~~~~~~~~l~i~D~~g~~~----   59 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRY-LTGSYVQ---------LESPEGG------RF-KKEVLVDGQSHLLLIRDEGGAPD----   59 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHH-HhCCCCC---------CCCCCcc------ce-EEEEEECCEEEEEEEEECCCCCc----
Confidence            48999999999999999997 3344432         1222222      33 46788899999999999999975    


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCC--CCcccCHHHHHHHHHhc-CCcEEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLA--FNRTVTTREAEMYAIKN-QMAFFE  215 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~--~~r~v~~ee~~~~a~~~-~~~~~e  215 (432)
                       ..+++.+|++++|||+++++||+++..|+.++....  +++|++|||||.|+.  .++++..+++++++++. ++.|+|
T Consensus        60 -~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e  138 (158)
T cd04103          60 -AQFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYE  138 (158)
T ss_pred             -hhHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEE
Confidence             356788999999999999999999999999998765  679999999999985  36789999999999876 589999


Q ss_pred             EcCCCCCCHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~  234 (432)
                      |||++|.||+++|+.+++.
T Consensus       139 ~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         139 TCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             EecCCCCCHHHHHHHHHhh
Confidence            9999999999999999864

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.96  E-value=2.5e-28  Score=219.37  Aligned_cols=160  Identities=28%  Similarity=0.520  Sum_probs=132.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ ..+.|.         ....++.+     .++....+.+++..+.+++|||+|+++|..+
T Consensus         1 ~ki~vvG~~~vGKTsli~~~-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   65 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERF-LMDGYE---------PQQLSTYA-----LTLYKHNAKFEGKTILVDFWDTAGQERFQTM   65 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCCC---------CCcCCcee-----eEEEEEEEEECCEEEEEEEEeCCCchhhhhh
Confidence            58999999999999999997 333332         22222222     2445556677888999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      +..+++++|++|+|||++++.+|+++..|+..+.+..+++|+++|+||+|+...   ..++...+++..+++++++||++
T Consensus        66 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~  142 (161)
T cd04124          66 HASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAAD  142 (161)
T ss_pred             hHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCC
Confidence            999999999999999999999999999999999887778999999999998432   23455677777889999999999


Q ss_pred             CCCHHHHHHHHHHHHhhh
Q psy3450         221 DFNIRESFTELSRRALQR  238 (432)
Q Consensus       221 g~nI~elf~~L~~~i~~~  238 (432)
                      |.|++++|+.+++.+.++
T Consensus       143 ~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         143 GTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             CCCHHHHHHHHHHHHHhc
Confidence            999999999999988654

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.96  E-value=2.3e-28  Score=231.68  Aligned_cols=159  Identities=30%  Similarity=0.466  Sum_probs=132.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ..+.|.         . +.+++|     .++..+.    ...+.+.||||+|++.|..+
T Consensus         1 ~KIvivG~~~vGKTSLi~r~-~~~~f~---------~-~~~Tig-----~~~~~~~----~~~~~l~iwDt~G~e~~~~l   60 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRY-MERRFK---------D-TVSTVG-----GAFYLKQ----WGPYNISIWDTAGREQFHGL   60 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHH-hcCCCC---------C-CCCccc-----eEEEEEE----eeEEEEEEEeCCCcccchhh
Confidence            58999999999999999997 444442         1 223443     1333222    24678999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCC-------------------CcccCHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAF-------------------NRTVTTR  200 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~-------------------~r~v~~e  200 (432)
                      +..+++++|++|+|||+++++||+++..|+..+.+.. +++|+||||||+||.+                   .+++..+
T Consensus        61 ~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~  140 (220)
T cd04126          61 GSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLE  140 (220)
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHH
Confidence            9999999999999999999999999988887776543 6799999999999975                   6889999


Q ss_pred             HHHHHHHhcC--------------CcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         201 EAEMYAIKNQ--------------MAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       201 e~~~~a~~~~--------------~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++..++++++              ++|+||||++|.||+++|..+++.++...
T Consensus       141 e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~  193 (220)
T cd04126         141 DAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLI  193 (220)
T ss_pred             HHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999876              68999999999999999999999887543

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.96  E-value=3.7e-28  Score=220.08  Aligned_cols=161  Identities=34%  Similarity=0.631  Sum_probs=138.9

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc-
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC-  138 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~-  138 (432)
                      .+||+++|++|||||||++++ ....+         ...+.++++     .++....+.+++..+.+.+|||+|++++. 
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~   66 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRF-CAGRF---------PERTEATIG-----VDFRERTVEIDGERIKVQLWDTAGQERFRK   66 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHH-HhCCC---------CCcccccee-----EEEEEEEEEECCeEEEEEEEeCCChHHHHH
Confidence            479999999999999999998 33333         222333443     36667778889999999999999999886 


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .++..+++++|++++|||++++++|+.+..|+.++....  .++|+++|+||+|+...+++..+++.++++..+++|+|+
T Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~  146 (170)
T cd04115          67 SMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFET  146 (170)
T ss_pred             hhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEE
Confidence            578889999999999999999999999999999988764  579999999999998888888899999999999999999


Q ss_pred             cCCC---CCCHHHHHHHHHHHH
Q psy3450         217 SPLC---DFNIRESFTELSRRA  235 (432)
Q Consensus       217 SAkt---g~nI~elf~~L~~~i  235 (432)
                      ||++   +.|++++|..+++.+
T Consensus       147 Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         147 SAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             eccCCcCCCCHHHHHHHHHHHh
Confidence            9999   899999999999876

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.96  E-value=3.8e-28  Score=220.61  Aligned_cols=157  Identities=31%  Similarity=0.533  Sum_probs=134.4

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ .++.|.         ..+.++.      .+.....+.+++..+++++|||+|+++|..+
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~-~~~~~~---------~~~~~t~------~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   64 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSY-TTNGYP---------TEYVPTA------FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKL   64 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCCC---------CCCCCce------eeeeeEEEEECCEEEEEEEEECCCChhhccc
Confidence            58999999999999999997 333333         2233333      2555667788888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHHHHHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAEMYAI  207 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~~~a~  207 (432)
                      +..+++++|++|+|||++++++|+++ ..|+..+....+++|+++||||+|+..            ++.+..+++..+++
T Consensus        65 ~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~  144 (173)
T cd04130          65 RPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAE  144 (173)
T ss_pred             cccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHH
Confidence            99999999999999999999999998 579998887667899999999999853            46788889999999


Q ss_pred             hcCC-cEEEEcCCCCCCHHHHHHHHHH
Q psy3450         208 KNQM-AFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       208 ~~~~-~~~evSAktg~nI~elf~~L~~  233 (432)
                      +.+. .|+|+||++|.||+++|+.++.
T Consensus       145 ~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         145 KIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             HhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence            9987 9999999999999999998864

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,

>cd04118 Rab24 Rab24 subfamily

Probab=99.96  E-value=7.7e-28  Score=222.20  Aligned_cols=165  Identities=26%  Similarity=0.488  Sum_probs=139.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ..+.|..        ..+.+++|     .++..+.+.+++..+.+.+|||+|++++..+
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~-~~~~~~~--------~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~   66 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERY-VHHRFLV--------GPYQNTIG-----AAFVAKRMVVGERVVTLGIWDTAGSERYEAM   66 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCcCC--------cCccccee-----eEEEEEEEEECCEEEEEEEEECCCchhhhhh
Confidence            48999999999999999997 3333321        12333443     2455677888999999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC----CcccCHHHHHHHHHhcCCcEEEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF----NRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~----~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      +..+++++|++|+|||++++++|+++..|+..+....+++|+++|+||+|+.+    .+++..+++.+++..++++++++
T Consensus        67 ~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  146 (193)
T cd04118          67 SRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFET  146 (193)
T ss_pred             hHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEE
Confidence            99999999999999999999999999999999988767899999999999853    24566778888888889999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         217 SPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ||++|.|++++|+++++.+.++.
T Consensus       147 Sa~~~~gv~~l~~~i~~~~~~~~  169 (193)
T cd04118         147 SSKTGQNVDELFQKVAEDFVSRA  169 (193)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999997654

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.96  E-value=5.7e-28  Score=216.37  Aligned_cols=161  Identities=30%  Similarity=0.547  Sum_probs=135.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCCcccc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~e~~~  138 (432)
                      +||+++|++|||||||++++..+ ..|         ...+.++.|     .++..+.+.++ +..+++.+|||+|++.+.
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~   66 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVF---------PKNYLMTTG-----CDFVVKEVPVDTDNTVELFIFDSAGQELYS   66 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCc---------CccCCCceE-----EEEEEEEEEeCCCCEEEEEEEECCCHHHHH
Confidence            58999999999999999997221 123         223334443     35555556564 577999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      .++..+++++|++++|||++++++|+++..|+..+....+++|+++|+||+|+..++++..++++.++..++++++++||
T Consensus        67 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  146 (164)
T cd04101          67 DMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSA  146 (164)
T ss_pred             HHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeC
Confidence            99999999999999999999999999999999999887677999999999999877778877778888888899999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      ++|.|++++|+.+++.+
T Consensus       147 ~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         147 LRGVGYEEPFESLARAF  163 (164)
T ss_pred             CCCCChHHHHHHHHHHh
Confidence            99999999999999875

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.

>cd04142 RRP22 RRP22 subfamily

Probab=99.96  E-value=7.5e-28  Score=224.64  Aligned_cols=164  Identities=22%  Similarity=0.321  Sum_probs=131.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+|+|++|||||||+++| ..+.|+         ..+.++.+     .++....+.+++..+.++||||+|.+.+...
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~-~~~~f~---------~~~~pt~~-----~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~   65 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQF-LAQEFP---------EEYIPTEH-----RRLYRPAVVLSGRVYDLHILDVPNMQRYPGT   65 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHH-HcCCCC---------cccCCccc-----cccceeEEEECCEEEEEEEEeCCCcccCCcc
Confidence            58999999999999999997 444443         22333332     2444456678898899999999997654221


Q ss_pred             --------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCcccCHHHHHHHHH-
Q psy3450         141 --------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-  207 (432)
Q Consensus       141 --------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-  207 (432)
                              ...+++++|++|+|||+++++||+.+..|++.+.+..    +++|++|||||+|+...+.+..++++.++. 
T Consensus        66 ~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~  145 (198)
T cd04142          66 AGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRK  145 (198)
T ss_pred             chhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHH
Confidence                    2345789999999999999999999999999887653    679999999999997777778887777764 


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      .++++|+|+||++|.||+++|+.+++.++.+.
T Consensus       146 ~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~~  177 (198)
T cd04142         146 SWKCGYLECSAKYNWHILLLFKELLISATTRG  177 (198)
T ss_pred             hcCCcEEEecCCCCCCHHHHHHHHHHHhhccC
Confidence            56899999999999999999999999887643

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.

>cd04148 RGK RGK subfamily

Probab=99.96  E-value=1.6e-27  Score=226.10  Aligned_cols=197  Identities=21%  Similarity=0.267  Sum_probs=150.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ..+.+.        ...+.++.+     .++..+.+.+++..+.+.+|||+|++  ..+
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~-~~~~~~--------~~~~~~t~~-----~~~~~~~i~~~~~~~~l~i~Dt~G~~--~~~   64 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQF-TSGEYD--------DHAYDASGD-----DDTYERTVSVDGEESTLVVIDHWEQE--MWT   64 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHH-hcCCcC--------ccCcCCCcc-----ccceEEEEEECCEEEEEEEEeCCCcc--hHH
Confidence            58999999999999999997 333321        022222222     25667788888989999999999998  334


Q ss_pred             hhhccc-CceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         141 IRSYSR-GAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       141 ~~~~~~-~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ...+++ ++|++|+|||++++.+|+.+..|+..+.+..  .++|+|+|+||+|+...+++..+++.+++..++++|+|+|
T Consensus        65 ~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~S  144 (221)
T cd04148          65 EDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETS  144 (221)
T ss_pred             HhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEec
Confidence            455667 9999999999999999999999999987754  5799999999999988888888888999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhccc
Q psy3450         218 PLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGM  274 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l  274 (432)
                      |++|.||+++|+++++.+............. ..........+...++++++.+-..
T Consensus       145 A~~~~gv~~l~~~l~~~~~~~~~~~~~~~~~-~~~~~~~r~~~~~~~a~~~l~~~~~  200 (221)
T cd04148         145 AGLQHNVDELLEGIVRQIRLRRDSKEKNERR-SRRAYRGRRESLTSKAKRFLGKLVA  200 (221)
T ss_pred             CCCCCCHHHHHHHHHHHHHhhhccccccCcc-ccccccCccchHHHHHHHHHHHHhc
Confidence            9999999999999999987554433322110 0112222335677788888865443

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.96  E-value=1e-27  Score=213.99  Aligned_cols=162  Identities=48%  Similarity=0.779  Sum_probs=139.6

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ .+..         +.....++++     .++....+.+++..+.+++||++|++++..+
T Consensus         1 ~kv~v~G~~~~GKTtli~~l-~~~~---------~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~   65 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRF-TDGK---------FSEQYKSTIG-----VDFKTKTIEVDGKRVKLQIWDTAGQERFRSI   65 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHH-hcCC---------CCCCCCCcee-----eEEEEEEEEECCEEEEEEEEECCChHHHHHH
Confidence            58999999999999999998 2222         2222223332     3566677788888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++.+|++|+|||++++++++.+..|+..+.... +++|+++|+||+|+...+++..+++.+++++.+++++|+||+
T Consensus        66 ~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~  145 (164)
T smart00175       66 TSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAK  145 (164)
T ss_pred             HHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCC
Confidence            9999999999999999999999999999999988766 689999999999997767788888999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhh
Q psy3450         220 CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       220 tg~nI~elf~~L~~~i~~  237 (432)
                      +|.|++++|+++.+.+.+
T Consensus       146 ~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      146 TNTNVEEAFEELAREILK  163 (164)
T ss_pred             CCCCHHHHHHHHHHHHhh
Confidence            999999999999998754

Rab GTPases are implicated in vesicle trafficking.

>KOG0395|consensus

Probab=99.96  E-value=7.3e-28  Score=224.17  Aligned_cols=164  Identities=29%  Similarity=0.428  Sum_probs=149.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|.+|||||+|+.+|          ....+...+.|+++      +.+.+.+.++++.+.+.|+||+|+++|..
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf----------~~~~f~~~y~ptie------d~y~k~~~v~~~~~~l~ilDt~g~~~~~~   66 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQF----------LTGRFVEDYDPTIE------DSYRKELTVDGEVCMLEILDTAGQEEFSA   66 (196)
T ss_pred             ceEEEEECCCCCCcchheeee----------cccccccccCCCcc------ccceEEEEECCEEEEEEEEcCCCcccChH
Confidence            589999999999999999997          44445555777776      88899999999999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      +...|++++|++++||+++++.||+.+..+++.|.+..  .++|+++||||+||...|+|+.+++++++..++++|+|+|
T Consensus        67 ~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~S  146 (196)
T KOG0395|consen   67 MRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETS  146 (196)
T ss_pred             HHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEee
Confidence            99999999999999999999999999999999995433  5689999999999998899999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhc
Q psy3450         218 PLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~  239 (432)
                      |+.+.||+++|..|++.+....
T Consensus       147 ak~~~~v~~~F~~L~r~~~~~~  168 (196)
T KOG0395|consen  147 AKLNYNVDEVFYELVREIRLPR  168 (196)
T ss_pred             ccCCcCHHHHHHHHHHHHHhhh
Confidence            9999999999999999987633

>cd04135 Tc10 TC10 subfamily

Probab=99.96  E-value=1.1e-27  Score=216.87  Aligned_cols=159  Identities=26%  Similarity=0.418  Sum_probs=134.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|+|||||+++| ..+.|         ...+.++++      +.....+.+++..+.+.+|||+|++.|..+
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   64 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSY-ANDAF---------PEEYVPTVF------DHYAVSVTVGGKQYLLGLYDTAGQEDYDRL   64 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCC---------CCCCCCcee------eeeEEEEEECCEEEEEEEEeCCCccccccc
Confidence            58999999999999999997 33333         333334443      444556778888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHHHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYAI  207 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~a~  207 (432)
                      +..+++++|++|+|||++++.+|+++ ..|+..+....+++|+++||||+|+.+.            +.++.+++..+++
T Consensus        65 ~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~  144 (174)
T cd04135          65 RPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAK  144 (174)
T ss_pred             ccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHH
Confidence            99999999999999999999999999 4798888776778999999999998542            3677888999999


Q ss_pred             hcCC-cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         208 KNQM-AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       208 ~~~~-~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ..++ +|+||||++|.||+++|+.+++.+
T Consensus       145 ~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         145 EIGAHCYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             HcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence            9986 799999999999999999999876

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.96  E-value=8.9e-28  Score=231.60  Aligned_cols=160  Identities=28%  Similarity=0.422  Sum_probs=137.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ..+.|         ...+.++++      ++..+.+.++++.++++||||+|++.|..+
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~-~~~~f---------~~~y~pTi~------d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~   64 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRF-LGGRF---------EEQYTPTIE------DFHRKLYSIRGEVYQLDILDTSGNHPFPAM   64 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHH-HcCCC---------CCCCCCChh------HhEEEEEEECCEEEEEEEEECCCChhhhHH
Confidence            58999999999999999997 33333         334455554      667778889999999999999999999998


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh----------CCCCcEEEEEECccCCCCcccCHHHHHHHHHh-c
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH----------APGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-N  209 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~----------~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-~  209 (432)
                      +..++.++|++|+|||+++++||+++..|++++.+.          ..++|+|||+||+|+..++++..+++.+++.. .
T Consensus        65 ~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~  144 (247)
T cd04143          65 RRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDE  144 (247)
T ss_pred             HHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcC
Confidence            888999999999999999999999999999998653          24799999999999977678888888887764 4


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ++.|+++||++|.||+++|++|++.+.
T Consensus       145 ~~~~~evSAktg~gI~elf~~L~~~~~  171 (247)
T cd04143         145 NCAYFEVSAKKNSNLDEMFRALFSLAK  171 (247)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHhc
Confidence            678999999999999999999998763

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.95  E-value=2e-27  Score=214.62  Aligned_cols=160  Identities=26%  Similarity=0.446  Sum_probs=137.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .++.+         ...+.++.+      +...+.+.+++..+.+++|||+|+++|..+
T Consensus         2 ~ki~liG~~~~GKTsli~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   65 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQF-VQNVF---------IESYDPTIE------DSYRKQVEIDGRQCDLEILDTAGTEQFTAM   65 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HhCCC---------CcccCCcch------heEEEEEEECCEEEEEEEEeCCCcccchhh
Confidence            69999999999999999997 33333         222334443      444677788888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC-CcEEEEc
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-MAFFEVS  217 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-~~~~evS  217 (432)
                      ++.++++++++++|||++++++|+.+..|...+.+..  .++|+++|+||.|+...+.+..+++..+++.++ ++++++|
T Consensus        66 ~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~S  145 (168)
T cd04177          66 RELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETS  145 (168)
T ss_pred             hHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEee
Confidence            9999999999999999999999999999999887643  579999999999998778888888888888888 7999999


Q ss_pred             CCCCCCHHHHHHHHHHHHh
Q psy3450         218 PLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~  236 (432)
                      |++|.|++++|+++++.++
T Consensus       146 A~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177         146 ARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             CCCCCCHHHHHHHHHHHHh
Confidence            9999999999999998764

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.95  E-value=9.9e-28  Score=215.65  Aligned_cols=159  Identities=33%  Similarity=0.502  Sum_probs=131.6

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc-cchh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR-FCTI  140 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~-~~~l  140 (432)
                      ||+++|++|||||||++++ ....|.         ..+.++.+      ......+.+++..+.+++|||+|++. +...
T Consensus         1 ki~vvG~~~~GKtsli~~~-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   64 (165)
T cd04146           1 KIAVLGASGVGKSALVVRF-LTKRFI---------GEYDPNLE------SLYSRQVTIDGEQVSLEILDTAGQQQADTEQ   64 (165)
T ss_pred             CEEEECCCCCcHHHHHHHH-HhCccc---------cccCCChH------HhceEEEEECCEEEEEEEEECCCCcccccch
Confidence            6899999999999999997 333332         22222221      33345667888899999999999985 3455


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ...+++.+|++|+|||+++++||+.+..|+..+....   .++|+++||||+|+..++.+..+++..+++..+++|+|+|
T Consensus        65 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~S  144 (165)
T cd04146          65 LERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVS  144 (165)
T ss_pred             HHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeC
Confidence            6778999999999999999999999999998888754   4799999999999977788888999999999999999999


Q ss_pred             CCCCC-CHHHHHHHHHHHHh
Q psy3450         218 PLCDF-NIRESFTELSRRAL  236 (432)
Q Consensus       218 Aktg~-nI~elf~~L~~~i~  236 (432)
                      |++|. ||+++|+.|++.+.
T Consensus       145 a~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         145 AAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             CCCCchhHHHHHHHHHHHHh
Confidence            99995 99999999998763

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.95  E-value=1.8e-27  Score=212.33  Aligned_cols=159  Identities=36%  Similarity=0.645  Sum_probs=137.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ .+..+         ...+.++.+     .++....+.+++..+++++|||+|++++..+
T Consensus         1 ~ki~liG~~~~GKSsli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~   65 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRF-MYDTF---------DNQYQATIG-----IDFLSKTMYLEDKTVRLQLWDTAGQERFRSL   65 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HcCCC---------CccCCCcee-----eeEEEEEEEECCEEEEEEEEECCCcHHHHHH
Confidence            48999999999999999997 33332         222233333     4777788888888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++|+|||++++++|+++..|+..+.... .++|+++|+||+|+...+++..++...+++..+++++++||+
T Consensus        66 ~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  145 (161)
T cd01861          66 IPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAK  145 (161)
T ss_pred             HHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCC
Confidence            9999999999999999999999999999999987655 369999999999997777788888889998889999999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRR  234 (432)
Q Consensus       220 tg~nI~elf~~L~~~  234 (432)
                      ++.|++++|+++.+.
T Consensus       146 ~~~~v~~l~~~i~~~  160 (161)
T cd01861         146 AGHNVKELFRKIASA  160 (161)
T ss_pred             CCCCHHHHHHHHHHh
Confidence            999999999999864

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.95  E-value=2e-27  Score=215.71  Aligned_cols=164  Identities=17%  Similarity=0.177  Sum_probs=135.4

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+||+++|++|||||||+++| .++.|.        ...+.++++     .++....+.+++..+.+.+||++|++.+.
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~-~~~~f~--------~~~~~~T~~-----~~~~~~~~~~~~~~~~l~~~d~~g~~~~~   68 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAF-LGRSFS--------LNAYSPTIK-----PRYAVNTVEVYGQEKYLILREVGEDEVAI   68 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHH-hCCCCC--------cccCCCccC-----cceEEEEEEECCeEEEEEEEecCCccccc
Confidence            5689999999999999999997 333332        033444554     25556677888988999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-cEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-AFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~~~evS  217 (432)
                      .++..+++++|++|+|||++++.+|+.+..|+..+... .++|+++|+||+|+.+++++..++..++++.+++ .++++|
T Consensus        69 ~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~-~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S  147 (169)
T cd01892          69 LLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFML-GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFS  147 (169)
T ss_pred             ccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccC-CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEE
Confidence            99999999999999999999999999999999876432 4699999999999976665555667778888887 579999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++|.|++++|+.+++.+.+
T Consensus       148 a~~~~~v~~lf~~l~~~~~~  167 (169)
T cd01892         148 SKLGDSSNELFTKLATAAQY  167 (169)
T ss_pred             eccCccHHHHHHHHHHHhhC
Confidence            99999999999999998753

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.95  E-value=4.7e-27  Score=210.01  Aligned_cols=160  Identities=39%  Similarity=0.655  Sum_probs=138.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||+|++++ .+..+         .....++.|     .++....+.+++..+++.+||++|++++...
T Consensus         2 ~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~   66 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRF-VKNEF---------SENQESTIG-----AAFLTQTVNLDDTTVKFEIWDTAGQERYRSL   66 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCccc-----eeEEEEEEEECCEEEEEEEEeCCchHHHHHH
Confidence            79999999999999999998 33332         222333333     2456677888999999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++|+|||++++++|+.+..|+..+.... +++|+++|+||+|+...+.+..++...+++.+++.++++||+
T Consensus        67 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  146 (163)
T cd01860          67 APMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAK  146 (163)
T ss_pred             HHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECC
Confidence            9999999999999999999999999999999998776 679999999999998777788888889999989999999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRRA  235 (432)
Q Consensus       220 tg~nI~elf~~L~~~i  235 (432)
                      +|.|++++|++|++.+
T Consensus       147 ~~~~v~~l~~~l~~~l  162 (163)
T cd01860         147 TGENVNELFTEIAKKL  162 (163)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999999875

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

>PLN03118 Rab family protein; Provisional

Probab=99.95  E-value=5.3e-27  Score=220.45  Aligned_cols=169  Identities=37%  Similarity=0.616  Sum_probs=141.4

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      ....+..+||+++|++|||||||+++| ..+.+.          .+.++.|     .++....+.+++..+.+.||||+|
T Consensus         8 ~~~~~~~~kv~ivG~~~vGKTsli~~l-~~~~~~----------~~~~t~~-----~~~~~~~~~~~~~~~~l~l~Dt~G   71 (211)
T PLN03118          8 SSGYDLSFKILLIGDSGVGKSSLLVSF-ISSSVE----------DLAPTIG-----VDFKIKQLTVGGKRLKLTIWDTAG   71 (211)
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHH-HhCCCC----------CcCCCce-----eEEEEEEEEECCEEEEEEEEECCC
Confidence            344556799999999999999999998 322221          1223333     366667777888889999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHH-HHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR-WLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~-~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      +++|..++..+++++|++|+|||++++++|+++.. |...+....  .+.|++||+||+|+..++.+..++...+++..+
T Consensus        72 ~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~  151 (211)
T PLN03118         72 QERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHG  151 (211)
T ss_pred             chhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcC
Confidence            99999999999999999999999999999999965 766665443  468999999999998777888888889999999


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +.|+|+||++|.|++++|++|.+.+.+.
T Consensus       152 ~~~~e~SAk~~~~v~~l~~~l~~~~~~~  179 (211)
T PLN03118        152 CLFLECSAKTRENVEQCFEELALKIMEV  179 (211)
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999664

>KOG0393|consensus

Probab=99.95  E-value=5.5e-28  Score=221.92  Aligned_cols=166  Identities=28%  Similarity=0.490  Sum_probs=146.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCCccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~e~~  137 (432)
                      ..+|++|||+.+||||+|+..+ ..+.|+         ..+.|++      .|.+...+.++ |+.+.+.+|||+||++|
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~-t~~~fp---------~~yvPTV------Fdnys~~v~V~dg~~v~L~LwDTAGqedY   66 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISY-TTNAFP---------EEYVPTV------FDNYSANVTVDDGKPVELGLWDTAGQEDY   66 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEe-ccCcCc---------ccccCeE------EccceEEEEecCCCEEEEeeeecCCCccc
Confidence            4589999999999999999986 444444         4455555      46777888895 99999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~  204 (432)
                      ..+++..|.++|+||+||++.+++||+++ .+|+.++++++|++|+||||+|.||.++            ..++.+++..
T Consensus        67 DrlRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~cp~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~  146 (198)
T KOG0393|consen   67 DRLRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHCPNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLE  146 (198)
T ss_pred             ccccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhCCCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHH
Confidence            99998999999999999999999999998 8999999999999999999999999742            3688899999


Q ss_pred             HHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         205 YAIKNQM-AFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       205 ~a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +|++.|+ .|+||||++..|++++|+..++.++...+
T Consensus       147 lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~~~  183 (198)
T KOG0393|consen  147 LAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRPPQ  183 (198)
T ss_pred             HHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcccc
Confidence            9999995 89999999999999999999999977543

>cd01862 Rab7 Rab7 subfamily

Probab=99.95  E-value=9.6e-27  Score=209.58  Aligned_cols=163  Identities=34%  Similarity=0.649  Sum_probs=137.6

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ .+..+         .....++++     .++..+.+.+++..+++.+||++|++.+..+
T Consensus         1 ~ki~viG~~~~GKSsl~~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~   65 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQY-VNKKF---------SNQYKATIG-----ADFLTKEVTVDDKLVTLQIWDTAGQERFQSL   65 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHH-hcCCC---------CcCcCCccc-----eEEEEEEEEECCEEEEEEEEeCCChHHHHhH
Confidence            58999999999999999998 33222         222233333     3566677788898999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC-----CCcEEEEEECccCCCCcccCHHHHHHHHHhcC-CcEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-----GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-MAFF  214 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~-----~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-~~~~  214 (432)
                      +..+++++|++|+|||++++++|+++..|...+.....     ++|+++|+||+|+..++.+..++...+++..+ .+++
T Consensus        66 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  145 (172)
T cd01862          66 GVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYF  145 (172)
T ss_pred             HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEE
Confidence            99999999999999999999999999999888765542     79999999999997666677888888888887 7999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++||++|.|++++|+++.+.+.+.
T Consensus       146 ~~Sa~~~~gv~~l~~~i~~~~~~~  169 (172)
T cd01862         146 ETSAKEAINVEQAFETIARKALEQ  169 (172)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhc
Confidence            999999999999999999988765

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-

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.95  E-value=1e-26  Score=210.63  Aligned_cols=159  Identities=30%  Similarity=0.458  Sum_probs=132.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      .||+++|++|||||||+++| .++.|         ...+.++++      +.....+.+++..+.+.+|||+|+++|..+
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVF-SKDQF---------PEVYVPTVF------ENYVADIEVDGKQVELALWDTAGQEDYDRL   65 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCCccc------cceEEEEEECCEEEEEEEEeCCCchhhhhc
Confidence            58999999999999999997 43333         333344443      333456678888899999999999999988


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHHHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYAI  207 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~a~  207 (432)
                      +..+++++|++++|||++++++|+.+ ..|+..+.+..+++|+++|+||+|+...            +.+..++++++++
T Consensus        66 ~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~  145 (175)
T cd01870          66 RPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMAN  145 (175)
T ss_pred             cccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHH
Confidence            88899999999999999999999998 5699988877678999999999998542            3455677888888


Q ss_pred             hcCC-cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         208 KNQM-AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       208 ~~~~-~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ..+. ++++|||++|.|++++|++|++.+
T Consensus       146 ~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         146 KIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             HcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence            8775 899999999999999999998765

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.95  E-value=1.5e-26  Score=206.46  Aligned_cols=158  Identities=41%  Similarity=0.736  Sum_probs=134.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .+..+         .....++.+     .++....+.+++..+++++|||+|++.+..+
T Consensus         1 ~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~   65 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRF-TDDTF---------DPDLAATIG-----VDFKVKTLTVDGKKVKLAIWDTAGQERFRTL   65 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HcCCC---------CcccCCccc-----ceEEEEEEEECCEEEEEEEEECCCchhhhhh
Confidence            58999999999999999998 33332         222233333     3556666777888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..+++++|++|+|||++++++|+.+..|+..+....  +++|+++|+||+|+. .+.+..++...+++..+++++++||
T Consensus        66 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~Sa  144 (161)
T cd01863          66 TSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE-NREVTREEGLKFARKHNMLFIETSA  144 (161)
T ss_pred             hHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc-ccccCHHHHHHHHHHcCCEEEEEec
Confidence            9999999999999999999999999999999998765  579999999999996 4566778888999999999999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRR  234 (432)
Q Consensus       219 ktg~nI~elf~~L~~~  234 (432)
                      ++|.|++++|+++++.
T Consensus       145 ~~~~gi~~~~~~~~~~  160 (161)
T cd01863         145 KTRDGVQQAFEELVEK  160 (161)
T ss_pred             CCCCCHHHHHHHHHHh
Confidence            9999999999999875

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.95  E-value=2.3e-26  Score=205.02  Aligned_cols=160  Identities=28%  Similarity=0.459  Sum_probs=136.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ ....+         ...+.++.+      +...+.+..++..+.+.+|||+|++++..+
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l-~~~~~---------~~~~~~~~~------~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   64 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQF-MYDEF---------VEDYEPTKA------DSYRKKVVLDGEDVQLNILDTAGQEDYAAI   64 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCC---------ccccCCcch------hhEEEEEEECCEEEEEEEEECCChhhhhHH
Confidence            58999999999999999998 33333         223333333      444566778888999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..+++.+|++++|||++++.+|+.+..|+..+....  .++|+++|+||+|+..++....++...++++++++++++||
T Consensus        65 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  144 (164)
T cd04139          65 RDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSA  144 (164)
T ss_pred             HHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeC
Confidence            9999999999999999999999999999999888763  57999999999999765667778888888888899999999


Q ss_pred             CCCCCHHHHHHHHHHHHh
Q psy3450         219 LCDFNIRESFTELSRRAL  236 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~  236 (432)
                      ++|.|++++|+.+.+.+.
T Consensus       145 ~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139         145 KTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             CCCCCHHHHHHHHHHHHH
Confidence            999999999999998774

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.95  E-value=2.3e-26  Score=204.37  Aligned_cols=160  Identities=34%  Similarity=0.597  Sum_probs=135.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ....+.         ....++.+     .++....+.+.+..+.+.+||++|++.+..+
T Consensus         1 ~ki~i~G~~~~GKStli~~l-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~   65 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRY-VENKFN---------EKHESTTQ-----ASFFQKTVNIGGKRIDLAIWDTAGQERYHAL   65 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCCC---------CCcCCccc-----eeEEEEEEEECCEEEEEEEEECCchHHHHHh
Confidence            58999999999999999998 333222         11112221     2444556667788889999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      ++.+++++|++++|||++++++++.+..|+.++.... .++|+++|+||+|+...+++..+++.++++..+++++++||+
T Consensus        66 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~  145 (162)
T cd04123          66 GPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAK  145 (162)
T ss_pred             hHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCC
Confidence            9999999999999999999999999999999988766 368999999999998777788888888999899999999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRRA  235 (432)
Q Consensus       220 tg~nI~elf~~L~~~i  235 (432)
                      ++.|++++|+++.+.+
T Consensus       146 ~~~gi~~~~~~l~~~~  161 (162)
T cd04123         146 TGKGIEELFLSLAKRM  161 (162)
T ss_pred             CCCCHHHHHHHHHHHh
Confidence            9999999999998875

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.95  E-value=2.5e-26  Score=211.78  Aligned_cols=163  Identities=28%  Similarity=0.440  Sum_probs=134.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      .||+|+|++|||||||++++ ..+.++         ..+.++++      +.....+.+++..+.+.+|||+|++.+..+
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~   65 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVF-TLGEFP---------EEYHPTVF------ENYVTDCRVDGKPVQLALWDTAGQEEYERL   65 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HhCCCC---------cccCCccc------ceEEEEEEECCEEEEEEEEECCCChhcccc
Confidence            59999999999999999997 322332         22223332      334456677888899999999999988887


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCC----------CcccCHHHHHHHHHhc
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAF----------NRTVTTREAEMYAIKN  209 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~----------~r~v~~ee~~~~a~~~  209 (432)
                      ...+++++|++++|||+++.++|+++. .|+..++...+++|++|||||+|+.+          .+.+..+++..+++.+
T Consensus        66 ~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (187)
T cd04129          66 RPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEI  145 (187)
T ss_pred             chhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHh
Confidence            777889999999999999999999995 69999988778899999999999854          3556678888999999


Q ss_pred             CC-cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         210 QM-AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       210 ~~-~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +. +||||||++|.||+++|+++++.++.-.
T Consensus       146 ~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~  176 (187)
T cd04129         146 GAKKYMECSALTGEGVDDVFEAATRAALLVR  176 (187)
T ss_pred             CCcEEEEccCCCCCCHHHHHHHHHHHHhccc
Confidence            85 8999999999999999999998886544

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).

>cd04114 Rab30 Rab30 subfamily

Probab=99.94  E-value=4.2e-26  Score=205.28  Aligned_cols=163  Identities=35%  Similarity=0.606  Sum_probs=138.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||++++          ..+.+...+.++++     .++....+.+++..+.+.+||++|++.+
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~D~~g~~~~   69 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRF----------TQGLFPPGQGATIG-----VDFMIKTVEIKGEKIKLQIWDTAGQERF   69 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHH----------HhCCCCCCCCCcee-----eEEEEEEEEECCEEEEEEEEECCCcHHH
Confidence            45789999999999999999997          22222222233333     3566677888898899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      ...+..+++.+|++++|||++++++|+.+..|+.++.... .++|+++|+||+|+..++++..+....+.+.....++++
T Consensus        70 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~  149 (169)
T cd04114          70 RSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLET  149 (169)
T ss_pred             HHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEe
Confidence            9988899999999999999999999999999999887765 469999999999998777888777788888778899999


Q ss_pred             cCCCCCCHHHHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i  235 (432)
                      ||++|.|++++|++|.+.+
T Consensus       150 Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         150 SAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             eCCCCCCHHHHHHHHHHHh
Confidence            9999999999999999865

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.94  E-value=3.2e-26  Score=213.07  Aligned_cols=159  Identities=25%  Similarity=0.346  Sum_probs=130.8

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+++| ....         +...+.++.+      ++....+.+++..+.++|||++|++.|..++
T Consensus         1 kv~vvG~~~vGKTsll~~~-~~~~---------~~~~~~~t~~------~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~   64 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRF-LYDT---------FEPKYRRTVE------EMHRKEYEVGGVSLTLDILDTSGSYSFPAMR   64 (198)
T ss_pred             CEEEECCCCCCHHHHHHHH-HhCC---------CCccCCCchh------hheeEEEEECCEEEEEEEEECCCchhhhHHH
Confidence            6899999999999999998 3333         3332333332      4555677788888999999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCC-CcccCHHHHHHHHH-hcCCcEEEEc
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAF-NRTVTTREAEMYAI-KNQMAFFEVS  217 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~-~r~v~~ee~~~~a~-~~~~~~~evS  217 (432)
                      ..+++++|++|+|||++++.+|+++..|+..+....  .++|++||+||+|+.. ++.+..+++.+.+. .++++++++|
T Consensus        65 ~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~S  144 (198)
T cd04147          65 KLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETS  144 (198)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEec
Confidence            999999999999999999999999999998887765  4699999999999965 46666666555543 4567999999


Q ss_pred             CCCCCCHHHHHHHHHHHHh
Q psy3450         218 PLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~  236 (432)
                      |++|.|++++|+++++.+.
T Consensus       145 a~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147         145 AKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             CCCCCCHHHHHHHHHHHhh
Confidence            9999999999999999874

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.

>cd00157 Rho Rho (Ras homology) family

Probab=99.94  E-value=1.2e-25  Score=202.11  Aligned_cols=157  Identities=29%  Similarity=0.552  Sum_probs=129.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .+..+.         ..+.++.      .+.....+..++..+.+++||++|++++...
T Consensus         1 iki~i~G~~~~GKSsli~~l-~~~~~~---------~~~~~~~------~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~   64 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISY-TTGKFP---------TEYVPTV------FDNYSATVTVDGKQVNLGLWDTAGQEEYDRL   64 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCCCC---------CCCCCce------eeeeEEEEEECCEEEEEEEEeCCCccccccc
Confidence            58999999999999999998 333331         1122222      2444556677888999999999999998888


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCc-----------ccCHHHHHHHHHh
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNR-----------TVTTREAEMYAIK  208 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r-----------~v~~ee~~~~a~~  208 (432)
                      ...+++.+|++++|||++++++|..+ ..|+..+....+++|+++|+||+|+...+           .+..+++.+++..
T Consensus        65 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~  144 (171)
T cd00157          65 RPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKE  144 (171)
T ss_pred             chhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHH
Confidence            88889999999999999999999887 66888888877789999999999986543           3457788888888


Q ss_pred             cCC-cEEEEcCCCCCCHHHHHHHHHH
Q psy3450         209 NQM-AFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       209 ~~~-~~~evSAktg~nI~elf~~L~~  233 (432)
                      +++ +|+++||++|.|++++|++|++
T Consensus       145 ~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         145 IGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             hCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            887 9999999999999999999875

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

>cd01893 Miro1 Miro1 subfamily

Probab=99.93  E-value=1.7e-25  Score=201.86  Aligned_cols=160  Identities=24%  Similarity=0.297  Sum_probs=123.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| ..+.|+..         +..+.       +.......+++..+++++|||+|++++...
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l-~~~~~~~~---------~~~~~-------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   63 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSL-VSEEFPEN---------VPRVL-------PEITIPADVTPERVPTTIVDTSSRPQDRAN   63 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HhCcCCcc---------CCCcc-------cceEeeeeecCCeEEEEEEeCCCchhhhHH
Confidence            48999999999999999997 44444321         11111       112233445677899999999999988887


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHHHHHHHHHhcC--CcEEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTREAEMYAIKNQ--MAFFE  215 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~ee~~~~a~~~~--~~~~e  215 (432)
                      +..+++++|++++|||++++++|+.+ ..|+..++...+++|+++|+||+|+.+.+..  ..++...+++.+.  .++++
T Consensus        64 ~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e  143 (166)
T cd01893          64 LAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVE  143 (166)
T ss_pred             HhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEE
Confidence            88888999999999999999999998 4788888877678999999999999765442  1233444444443  38999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~  237 (432)
                      +||++|.|++++|+.+.+.+++
T Consensus       144 ~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         144 CSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             eccccccCHHHHHHHHHHHhcC
Confidence            9999999999999999988754

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.93  E-value=2.6e-26  Score=207.45  Aligned_cols=152  Identities=20%  Similarity=0.302  Sum_probs=122.2

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIR  142 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~  142 (432)
                      |+++|++|||||||+++| .++.+         ...+.+++|     .+  .  ..+++..+++.+||++|+++|..++.
T Consensus         2 i~ivG~~~vGKTsli~~~-~~~~~---------~~~~~pt~g-----~~--~--~~i~~~~~~l~i~Dt~G~~~~~~~~~   62 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSL-SSERS---------LESVVPTTG-----FN--S--VAIPTQDAIMELLEIGGSQNLRKYWK   62 (164)
T ss_pred             EEEECCCCCCHHHHHHHH-hcCCC---------cccccccCC-----cc--e--EEEeeCCeEEEEEECCCCcchhHHHH
Confidence            789999999999999997 33333         233445554     11  1  23455568899999999999999999


Q ss_pred             hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH----HHHHHHHHhcCCcEEEEcC
Q psy3450         143 SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT----REAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~----ee~~~~a~~~~~~~~evSA  218 (432)
                      .+++++|++|+|||.+++.+|..++.|+.++....+++|+++|+||.|+...+.+..    .++..++++.++.++++||
T Consensus        63 ~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa  142 (164)
T cd04162          63 RYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSL  142 (164)
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeee
Confidence            999999999999999999999999999998876557899999999999976554432    2345666777889999999


Q ss_pred             CC------CCCHHHHHHHHHH
Q psy3450         219 LC------DFNIRESFTELSR  233 (432)
Q Consensus       219 kt------g~nI~elf~~L~~  233 (432)
                      ++      ++||+++|+.++.
T Consensus       143 ~~~~s~~~~~~v~~~~~~~~~  163 (164)
T cd04162         143 DDDGSPSRMEAVKDLLSQLIN  163 (164)
T ss_pred             cCCCChhHHHHHHHHHHHHhc
Confidence            98      9999999999874

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.

>cd00876 Ras Ras family

Probab=99.93  E-value=2.2e-25  Score=197.64  Aligned_cols=157  Identities=31%  Similarity=0.471  Sum_probs=133.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+++++ +..+.         ..+.++.+      +.....+..++..+.+++||++|++.+..++
T Consensus         1 ki~i~G~~~~GKTsli~~l~-~~~~~---------~~~~~~~~------~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~   64 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFV-KGTFV---------EEYDPTIE------DSYRKTIVVDGETYTLDILDTAGQEEFSAMR   64 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHH-hCCCC---------cCcCCChh------HeEEEEEEECCEEEEEEEEECCChHHHHHHH
Confidence            68999999999999999983 22222         22223332      4455666778778999999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC--CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP--GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~--~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      ..+++++|++++|||++++++++++..|...+.....  +.|+++|+||+|+...+.+..+++..++++++.+++++||+
T Consensus        65 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~  144 (160)
T cd00876          65 DLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAK  144 (160)
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccC
Confidence            9999999999999999999999999999988877654  79999999999998777788889999999988999999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRR  234 (432)
Q Consensus       220 tg~nI~elf~~L~~~  234 (432)
                      ++.|++++|++|++.
T Consensus       145 ~~~~i~~l~~~l~~~  159 (160)
T cd00876         145 DNINIDEVFKLLVRE  159 (160)
T ss_pred             CCCCHHHHHHHHHhh
Confidence            999999999999875

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

>cd00154 Rab Rab family

Probab=99.93  E-value=2.6e-25  Score=195.62  Aligned_cols=157  Identities=46%  Similarity=0.807  Sum_probs=134.5

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ .+..+         ...+.++.+     .++....+..++..+.+.+||++|++.+...
T Consensus         1 ~~i~~~G~~~~GKStl~~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~   65 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRF-VDGKF---------DENYKSTIG-----VDFKSKTIEIDGKTVKLQIWDTAGQERFRSI   65 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHH-HhCcC---------CCccCCcee-----eeeEEEEEEECCEEEEEEEEecCChHHHHHH
Confidence            58999999999999999998 33322         222223332     3566677777888899999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++|+|||++++++++.+..|+..+.... ++.|+++|+||+|+....+...++..+++++++++++++||+
T Consensus        66 ~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  145 (159)
T cd00154          66 TPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAK  145 (159)
T ss_pred             HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecC
Confidence            9999999999999999999999999999999998876 679999999999997567778889999999889999999999


Q ss_pred             CCCCHHHHHHHHH
Q psy3450         220 CDFNIRESFTELS  232 (432)
Q Consensus       220 tg~nI~elf~~L~  232 (432)
                      ++.|++++|++|.
T Consensus       146 ~~~~i~~~~~~i~  158 (159)
T cd00154         146 TGENVEELFQSLA  158 (159)
T ss_pred             CCCCHHHHHHHHh
Confidence            9999999999986

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

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.93  E-value=5.6e-25  Score=200.52  Aligned_cols=163  Identities=28%  Similarity=0.410  Sum_probs=136.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      .||+++|++|||||||+++| ....+.         ..+.++.+      +.....+.+++..+.+++|||+|++++..+
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~   65 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQF-VEGHFV---------ESYYPTIE------NTFSKIIRYKGQDYHLEIVDTAGQDEYSIL   65 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHH-HhCCCc---------cccCcchh------hhEEEEEEECCEEEEEEEEECCChHhhHHH
Confidence            58999999999999999998 333332         22223332      333566677888889999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +..++..++++++|||+++..+|+.+..|+..+.+..  .+.|+|+|+||+|+...+.+..++...+++.++.+++++||
T Consensus        66 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  145 (180)
T cd04137          66 PQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSA  145 (180)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeC
Confidence            9999999999999999999999999999888877643  46899999999999776777777788888888899999999


Q ss_pred             CCCCCHHHHHHHHHHHHhhhc
Q psy3450         219 LCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~~~~  239 (432)
                      +++.|++++|+++.+.+.+..
T Consensus       146 ~~~~gv~~l~~~l~~~~~~~~  166 (180)
T cd04137         146 RENENVEEAFELLIEEIEKVE  166 (180)
T ss_pred             CCCCCHHHHHHHHHHHHHHhc
Confidence            999999999999999886654

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

>cd04149 Arf6 Arf6 subfamily

Probab=99.93  E-value=1.9e-25  Score=202.70  Aligned_cols=152  Identities=21%  Similarity=0.276  Sum_probs=118.1

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||++++ ..+.+.          .+.+++|     +++  ..+..  ..+.+++|||+|++++..
T Consensus         9 ~~kv~i~G~~~~GKTsli~~l-~~~~~~----------~~~~t~g-----~~~--~~~~~--~~~~~~l~Dt~G~~~~~~   68 (168)
T cd04149           9 EMRILMLGLDAAGKTTILYKL-KLGQSV----------TTIPTVG-----FNV--ETVTY--KNVKFNVWDVGGQDKIRP   68 (168)
T ss_pred             ccEEEEECcCCCCHHHHHHHH-ccCCCc----------cccCCcc-----cce--EEEEE--CCEEEEEEECCCCHHHHH
Confidence            589999999999999999997 222221          1233443     122  22223  458899999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHh-----cCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-----NQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-----~~~~  212 (432)
                      ++..+++++|++|+|||++++.+|+++..|+.++...  .+++|++||+||+|+.+  .+..++++.+.+.     ..+.
T Consensus        69 ~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~  146 (168)
T cd04149          69 LWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWY  146 (168)
T ss_pred             HHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc--CCCHHHHHHHcCCCccCCCcEE
Confidence            9999999999999999999999999998888776543  26799999999999954  3556666665431     2347


Q ss_pred             EEEEcCCCCCCHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~  233 (432)
                      ++++||++|.||+++|++|.+
T Consensus       147 ~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         147 VQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             EEEeeCCCCCChHHHHHHHhc
Confidence            899999999999999999864

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.93  E-value=1.6e-24  Score=204.17  Aligned_cols=168  Identities=23%  Similarity=0.484  Sum_probs=139.8

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .....+||+++|++|||||||++++          ..+.+...+.+++|     +++....+..++..+.+++|||+|++
T Consensus         5 ~~~~~~kv~liG~~g~GKTtLi~~~----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~i~i~~~Dt~g~~   69 (215)
T PTZ00132          5 DEVPEFKLILVGDGGVGKTTFVKRH----------LTGEFEKKYIPTLG-----VEVHPLKFYTNCGPICFNVWDTAGQE   69 (215)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHH----------HhCCCCCCCCCccc-----eEEEEEEEEECCeEEEEEEEECCCch
Confidence            3455689999999999999999987          33334444555555     35556666678889999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +|..++..++++++++|+|||+++..+|.++..|+..+....+++|+++||||+|+.+ +.+..+. ..+++..++.|++
T Consensus        70 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i~lv~nK~Dl~~-~~~~~~~-~~~~~~~~~~~~e  147 (215)
T PTZ00132         70 KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIPIVLVGNKVDVKD-RQVKARQ-ITFHRKKNLQYYD  147 (215)
T ss_pred             hhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECccCcc-ccCCHHH-HHHHHHcCCEEEE
Confidence            9999999999999999999999999999999999999987777899999999999854 3344333 4677778899999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +||++|.|++++|.+|++.+..+..
T Consensus       148 ~Sa~~~~~v~~~f~~ia~~l~~~p~  172 (215)
T PTZ00132        148 ISAKSNYNFEKPFLWLARRLTNDPN  172 (215)
T ss_pred             EeCCCCCCHHHHHHHHHHHHhhccc
Confidence            9999999999999999999976544

>KOG4252|consensus

Probab=99.93  E-value=3.8e-27  Score=209.13  Aligned_cols=181  Identities=27%  Similarity=0.472  Sum_probs=164.3

Q ss_pred             hcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEE
Q psy3450          46 ETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVK  125 (432)
Q Consensus        46 ~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~  125 (432)
                      .++-+.....+.+.-+|++|+|..+|||||+|+++          ..+.++..+..++|     +++....+.++++.+.
T Consensus         6 ~~~~~am~e~d~e~aiK~vivGng~VGKssmiqry----------CkgifTkdykktIg-----vdflerqi~v~~Edvr   70 (246)
T KOG4252|consen    6 FFRGMAMDETDYERAIKFVIVGNGSVGKSSMIQRY----------CKGIFTKDYKKTIG-----VDFLERQIKVLIEDVR   70 (246)
T ss_pred             hhccCCCCchhhhhhEEEEEECCCccchHHHHHHH----------hccccccccccccc-----hhhhhHHHHhhHHHHH
Confidence            33434445566778899999999999999999998          67777777778887     7888888889999999


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHH
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMY  205 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~  205 (432)
                      +.+|||+||++|..+...||++|++.+|||+-+|+.||+.+..|++++.....++|.++|-||+||.++.++..++++.+
T Consensus        71 ~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~IPtV~vqNKIDlveds~~~~~evE~l  150 (246)
T KOG4252|consen   71 SMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETERIPTVFVQNKIDLVEDSQMDKGEVEGL  150 (246)
T ss_pred             HHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhccCCeEEeeccchhhHhhhcchHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCC
Q psy3450         206 AIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGM  241 (432)
Q Consensus       206 a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~~~  241 (432)
                      ++.....++.+|++...||.++|.+|++.+.++..+
T Consensus       151 ak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  151 AKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             HHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999998776543

>cd04158 ARD1 ARD1 subfamily

Probab=99.93  E-value=3.6e-25  Score=200.56  Aligned_cols=156  Identities=17%  Similarity=0.250  Sum_probs=122.1

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+++| ....+         .. +.+++|     .++  ..+..  ..+.+++|||+|++++..++
T Consensus         1 ~vvlvG~~~~GKTsl~~~l-~~~~~---------~~-~~~T~~-----~~~--~~~~~--~~~~i~l~Dt~G~~~~~~~~   60 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKL-KQDEF---------MQ-PIPTIG-----FNV--ETVEY--KNLKFTIWDVGGKHKLRPLW   60 (169)
T ss_pred             CEEEECCCCCCHHHHHHHH-hcCCC---------CC-cCCcCc-----eeE--EEEEE--CCEEEEEEECCCChhcchHH
Confidence            6899999999999999998 22222         11 233333     122  23333  35789999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC------CcE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ------MAF  213 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~------~~~  213 (432)
                      ..+++++|++++|||++++++|+++..|+..+....  .+.|++||+||+|+.+  .++.+++..+++..+      +.+
T Consensus        61 ~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~  138 (169)
T cd04158          61 KHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYI  138 (169)
T ss_pred             HHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEE
Confidence            999999999999999999999999999998886542  4689999999999953  466777777664322      268


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +++||++|.||+++|++|++.+....
T Consensus       139 ~~~Sa~~g~gv~~~f~~l~~~~~~~~  164 (169)
T cd04158         139 QGCDARSGMGLYEGLDWLSRQLVAAG  164 (169)
T ss_pred             EeCcCCCCCCHHHHHHHHHHHHhhcc
Confidence            89999999999999999998875543

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.93  E-value=6.4e-25  Score=205.49  Aligned_cols=147  Identities=20%  Similarity=0.297  Sum_probs=120.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-----CeEEEEEEEeCCCCc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-----GKRVKLQLWDTSGQG  135 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-----~~~v~l~i~Dt~G~e  135 (432)
                      +||+++|+++||||||+++| .++         .+...+.+++|     .++..+.+.++     ++.+.++||||+|++
T Consensus         1 vKIvlvGd~gVGKTSLi~~~-~~~---------~f~~~~~~Tig-----~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e   65 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLI-CKN---------QVLGRPSWTVG-----CSVDVKHHTYKEGTPEEKTFFVELWDVGGSE   65 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HcC---------CCCCCCCccee-----eeEEEEEEEEcCCCCCCcEEEEEEEecCCch
Confidence            58999999999999999997 333         33333445554     34555555553     568999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--------------------CCCCcEEEEEECccCCCCc
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--------------------APGVPKVLVGNRLHLAFNR  195 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--------------------~~~iPiILVgNK~DL~~~r  195 (432)
                      +|..++..|++++|++|+|||+++++||+++..|+.++...                    .+++|++|||||.|+.++|
T Consensus        66 ~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r  145 (202)
T cd04102          66 SVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEK  145 (202)
T ss_pred             hHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhc
Confidence            99999999999999999999999999999999999999763                    1468999999999998777


Q ss_pred             ccCHHH----HHHHHHhcCCcEEEEcCCCCC
Q psy3450         196 TVTTRE----AEMYAIKNQMAFFEVSPLCDF  222 (432)
Q Consensus       196 ~v~~ee----~~~~a~~~~~~~~evSAktg~  222 (432)
                      .+..+.    ...+|++.+++.++.+++++.
T Consensus       146 ~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~  176 (202)
T cd04102         146 ESSGNLVLTARGFVAEQGNAEEINLNCTNGR  176 (202)
T ss_pred             ccchHHHhhHhhhHHHhcCCceEEEecCCcc
Confidence            666653    446788899999999988653

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.93  E-value=4e-25  Score=222.47  Aligned_cols=200  Identities=19%  Similarity=0.255  Sum_probs=149.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc-
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR-  136 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~-  136 (432)
                      ...+||+++|++|||||||+|+| .+..+..          .++..+   +|.+.....+..++  .++.||||||+.+ 
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l-~~~k~~i----------vs~k~~---tTr~~~~~~~~~~~--~qi~~~DTpG~~~~  113 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRI-IGEKLSI----------VTPKVQ---TTRSIITGIITLKD--TQVILYDTPGIFEP  113 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHH-hCCceee----------ccCCCC---CccCcEEEEEEeCC--eEEEEEECCCcCCC
Confidence            45679999999999999999997 4444321          111121   22344445555665  4579999999853 


Q ss_pred             cchhhh-------hcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         137 FCTIIR-------SYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       137 ~~~l~~-------~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                      +..+..       .+++++|++|+|+|.++  +|.++. .|+..++..  +.|+++|+||+|+.+.   ..+++.+++..
T Consensus       114 ~~~l~~~~~r~~~~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~--~~p~IlViNKiDl~~~---~~~~~~~~l~~  186 (339)
T PRK15494        114 KGSLEKAMVRCAWSSLHSADLVLLIIDSLK--SFDDITHNILDKLRSL--NIVPIFLLNKIDIESK---YLNDIKAFLTE  186 (339)
T ss_pred             cccHHHHHHHHHHHHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc--CCCEEEEEEhhcCccc---cHHHHHHHHHh
Confidence            322221       24689999999999655  566663 456555543  3678899999999642   24556666655


Q ss_pred             cC--CcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCcee
Q psy3450         209 NQ--MAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHL  286 (432)
Q Consensus       209 ~~--~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~  286 (432)
                      .+  ..++++||++|.|++++|++|.+.+              +...++++.+..++.+.+|+                 
T Consensus       187 ~~~~~~i~~iSAktg~gv~eL~~~L~~~l--------------~~~~~~~~~~~~td~~~~~~-----------------  235 (339)
T PRK15494        187 NHPDSLLFPISALSGKNIDGLLEYITSKA--------------KISPWLYAEDDITDLPMRFI-----------------  235 (339)
T ss_pred             cCCCcEEEEEeccCccCHHHHHHHHHHhC--------------CCCCCCCCCCCCCCCCHHHH-----------------
Confidence            44  5899999999999999999999887              66778999999999999999                 


Q ss_pred             EEEEEEeeccccCCccccccccccccchhhhh
Q psy3450         287 LTYFQYCFAGLVRPSVDVNKNKYNLLSFSVIS  318 (432)
Q Consensus       287 ~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (432)
                             .+|+|||+++..+++|+||+..|..
T Consensus       236 -------~~eiiRe~~~~~~~~EiP~~~~v~i  260 (339)
T PRK15494        236 -------AAEITREQLFLNLQKELPYKLTVQT  260 (339)
T ss_pred             -------HHHHHHHHHHhhCCcccCceEEEEE
Confidence                   8999999999999999999999953

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.93  E-value=6.3e-25  Score=201.89  Aligned_cols=157  Identities=18%  Similarity=0.231  Sum_probs=118.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||++++ ..+.+         . .+.+++|       +....+..  ..+.+++||++|++++.
T Consensus        16 ~~~ki~ivG~~~~GKTsl~~~l-~~~~~---------~-~~~pt~g-------~~~~~~~~--~~~~~~i~D~~Gq~~~~   75 (181)
T PLN00223         16 KEMRILMVGLDAAGKTTILYKL-KLGEI---------V-TTIPTIG-------FNVETVEY--KNISFTVWDVGGQDKIR   75 (181)
T ss_pred             CccEEEEECCCCCCHHHHHHHH-ccCCC---------c-cccCCcc-------eeEEEEEE--CCEEEEEEECCCCHHHH
Confidence            3479999999999999999997 22222         1 1234443       22223333  35789999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHhc-----CC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-----QM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-----~~  211 (432)
                      .++..|++++|++|+|||++++++|+++..|+..+...  .+++|++||+||+|+.+.  +..++..+...-.     .+
T Consensus        76 ~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~l~l~~~~~~~~  153 (181)
T PLN00223         76 PLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHW  153 (181)
T ss_pred             HHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCce
Confidence            99999999999999999999999999988777776432  257999999999999643  3334433332211     12


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .++++||++|+||+++|++|++.+.+
T Consensus       154 ~~~~~Sa~~g~gv~e~~~~l~~~~~~  179 (181)
T PLN00223        154 YIQSTCATSGEGLYEGLDWLSNNIAN  179 (181)
T ss_pred             EEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            46689999999999999999988755

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.93  E-value=2.8e-25  Score=199.53  Aligned_cols=151  Identities=19%  Similarity=0.297  Sum_probs=113.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||++++ ..+.+.          .+.+++|     .++  ..+..  ..+.+.+|||+|++++..+
T Consensus         1 ~kv~~~G~~~~GKTsli~~l-~~~~~~----------~~~pt~g-----~~~--~~~~~--~~~~~~l~D~~G~~~~~~~   60 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKL-KLGEIV----------TTIPTIG-----FNV--ETVEY--KNISFTVWDVGGQDKIRPL   60 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHH-hcCCCc----------ccCCCCC-----cce--EEEEE--CCEEEEEEECCCCHhHHHH
Confidence            48999999999999999997 222222          1234443     122  23333  3588999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHH-HHHHH----hcCCcE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREA-EMYAI----KNQMAF  213 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~-~~~a~----~~~~~~  213 (432)
                      +..+++++|++|+|||++++.+|+++.+|+..+....  .++|++||+||+|+.+.  +..++. ..+..    ..++.+
T Consensus        61 ~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~  138 (159)
T cd04150          61 WRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYI  138 (159)
T ss_pred             HHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEE
Confidence            9999999999999999999999999988777764322  46899999999999542  233332 22211    223467


Q ss_pred             EEEcCCCCCCHHHHHHHHHH
Q psy3450         214 FEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~  233 (432)
                      +++||++|.||+++|++|.+
T Consensus       139 ~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         139 QATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             EEeeCCCCCCHHHHHHHHhc
Confidence            89999999999999999864

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.92  E-value=4.9e-25  Score=201.14  Aligned_cols=154  Identities=19%  Similarity=0.245  Sum_probs=116.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||++++ ..+.+         . .+.+++|     .++  ..+..  ..+.+++|||+|++++..
T Consensus        13 ~~ki~l~G~~~~GKTsL~~~~-~~~~~---------~-~~~~t~~-----~~~--~~~~~--~~~~l~l~D~~G~~~~~~   72 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKL-KLGES---------V-TTIPTIG-----FNV--ETVTY--KNISFTVWDVGGQDKIRP   72 (175)
T ss_pred             ccEEEEEcCCCCCHHHHHHHH-hcCCC---------C-CcCCccc-----cce--EEEEE--CCEEEEEEECCCChhhHH
Confidence            589999999999999999997 22222         1 1234443     122  23333  357899999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHH-----hcCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----KNQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~~~~~  212 (432)
                      ++..|++++|++|+|||++++++|+++..|+..+...  .+++|++||+||.|+.+.  ...++......     ...+.
T Consensus        73 ~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~  150 (175)
T smart00177       73 LWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA--MKAAEITEKLGLHSIRDRNWY  150 (175)
T ss_pred             HHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC--CCHHHHHHHhCccccCCCcEE
Confidence            9999999999999999999999999998888877543  257899999999999643  23333333221     12345


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++++||++|.||+++|++|.+.+
T Consensus       151 ~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      151 IQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHh
Confidence            77999999999999999998775

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).

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.92  E-value=1.6e-24  Score=199.14  Aligned_cols=166  Identities=21%  Similarity=0.364  Sum_probs=126.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-CCeEEEEEEEeCCCCcccc
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-DGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-~~~~v~l~i~Dt~G~e~~~  138 (432)
                      .+||+++|++|||||||++++ ..+.+..          ..++.|     +++....+.+ ++..+.+.+|||+|++++.
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~-~~~~~~~----------~~~t~~-----~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~   66 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRL-KFNEFVN----------TVPTKG-----FNTEKIKVSLGNSKGITFHFWDVGGQEKLR   66 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHH-hcCCcCC----------cCCccc-----cceeEEEeeccCCCceEEEEEECCCcHhHH
Confidence            479999999999999999997 3333321          112332     2333333433 4467889999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh--c----C
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK--N----Q  210 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~--~----~  210 (432)
                      .++..+++++|++|+|||++++.+++.+..|+.++....  .+.|++||+||+|+..  .+..++...++..  .    +
T Consensus        67 ~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~  144 (183)
T cd04152          67 PLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN--ALSVSEVEKLLALHELSASTP  144 (183)
T ss_pred             HHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc--cCCHHHHHHHhCccccCCCCc
Confidence            999999999999999999999999999988988877543  4689999999999853  3444555544421  1    2


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcc
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQRNGMER  243 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~  243 (432)
                      ++++++||++|.|++++|++|++.+.+..++.+
T Consensus       145 ~~~~~~SA~~~~gi~~l~~~l~~~l~~~~~~~~  177 (183)
T cd04152         145 WHVQPACAIIGEGLQEGLEKLYEMILKRRKMLR  177 (183)
T ss_pred             eEEEEeecccCCCHHHHHHHHHHHHHHHHhhhh
Confidence            468999999999999999999999976655443

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.92  E-value=5.2e-25  Score=215.07  Aligned_cols=197  Identities=18%  Similarity=0.122  Sum_probs=142.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc-h-
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC-T-  139 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~-~-  139 (432)
                      +|+++|.+|||||||+|+| .+..+...+          +..+   +|.+.. ..+...+ ..++.||||||..... . 
T Consensus         2 ~V~liG~pnvGKSTLln~L-~~~~~~~vs----------~~~~---TTr~~i-~~i~~~~-~~qii~vDTPG~~~~~~~l   65 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQL-HGQKISITS----------PKAQ---TTRNRI-SGIHTTG-ASQIIFIDTPGFHEKKHSL   65 (270)
T ss_pred             EEEEECCCCCCHHHHHHHH-hCCcEeecC----------CCCC---cccCcE-EEEEEcC-CcEEEEEECcCCCCCcchH
Confidence            6899999999999999998 333332111          1111   111222 2222233 2568999999975431 1 


Q ss_pred             ---h---hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-c
Q psy3450         140 ---I---IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-A  212 (432)
Q Consensus       140 ---l---~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~  212 (432)
                         +   ...+++++|++++|+|+++..+++  ..++..+..  .+.|+++|+||+|+.+.. ...+....++...+. +
T Consensus        66 ~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~--~~i~~~l~~--~~~p~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~  140 (270)
T TIGR00436        66 NRLMMKEARSAIGGVDLILFVVDSDQWNGDG--EFVLTKLQN--LKRPVVLTRNKLDNKFKD-KLLPLIDKYAILEDFKD  140 (270)
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEECCCCCchH--HHHHHHHHh--cCCCEEEEEECeeCCCHH-HHHHHHHHHHhhcCCCc
Confidence               1   234678999999999999887765  444555544  358999999999996422 223344455555554 8


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCceeEEEEEE
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQY  292 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y~~~  292 (432)
                      ++++||++|.|++++++.+.+.+              +...+.++.+..++.+.+|+                       
T Consensus       141 v~~iSA~~g~gi~~L~~~l~~~l--------------~~~~~~~~~~~~t~~~~~~~-----------------------  183 (270)
T TIGR00436       141 IVPISALTGDNTSFLAAFIEVHL--------------PEGPFRYPEDYVTDQPDRFK-----------------------  183 (270)
T ss_pred             eEEEecCCCCCHHHHHHHHHHhC--------------CCCCCCCCCcccCCCCHHHH-----------------------
Confidence            99999999999999999998876              45556788888899888887                       


Q ss_pred             eeccccCCccccccccccccchhhh
Q psy3450         293 CFAGLVRPSVDVNKNKYNLLSFSVI  317 (432)
Q Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~  317 (432)
                       .+|++||+++..+++|+||+..|.
T Consensus       184 -~~e~ire~~~~~~~~e~p~~~~~~  207 (270)
T TIGR00436       184 -ISEIIREKIIRYTKEEIPHSVRVE  207 (270)
T ss_pred             -HHHHHHHHHHHhcccccCceEEEE
Confidence             889999999999999999999984

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd04154 Arl2 Arl2 subfamily

Probab=99.92  E-value=1.9e-24  Score=196.29  Aligned_cols=154  Identities=20%  Similarity=0.336  Sum_probs=119.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|++|||||||+++| .+..+.          .+.+++|       +....+.++  .+.+.+|||+|++.+
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l-~~~~~~----------~~~~t~g-------~~~~~~~~~--~~~l~l~D~~G~~~~   71 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKL-LGEDID----------TISPTLG-------FQIKTLEYE--GYKLNIWDVGGQKTL   71 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHH-ccCCCC----------CcCCccc-------cceEEEEEC--CEEEEEEECCCCHHH
Confidence            34589999999999999999997 222211          1223333       333445555  377899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHH-----hcC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----KNQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~~~  210 (432)
                      ..++..+++++|++++|||++++.+|+++..|+..+...  ..++|++||+||+|+.+.  ...+++..+.+     ..+
T Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~  149 (173)
T cd04154          72 RPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA--LSEEEIREALELDKISSHH  149 (173)
T ss_pred             HHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC--CCHHHHHHHhCccccCCCc
Confidence            999999999999999999999999999998888877543  267999999999999643  24555555543     235


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~  233 (432)
                      ++++++||++|.|++++|++++.
T Consensus       150 ~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         150 WRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             eEEEeccCCCCcCHHHHHHHHhc
Confidence            68999999999999999999864

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.92  E-value=2.3e-24  Score=198.25  Aligned_cols=158  Identities=18%  Similarity=0.248  Sum_probs=118.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||++++ ..+.+.         . +.+++|     .++  ..+..  ..+.+++|||+|++++..
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~-~~~~~~---------~-~~~T~~-----~~~--~~~~~--~~~~~~l~D~~G~~~~~~   76 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKL-KLGEVV---------T-TIPTIG-----FNV--ETVEY--KNLKFTMWDVGGQDKLRP   76 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHH-hcCCcc---------c-cCCccc-----cce--EEEEE--CCEEEEEEECCCCHhHHH
Confidence            489999999999999999997 323332         1 223443     122  23333  457899999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHH-----hcCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----KNQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~~~~~  212 (432)
                      ++..+++++|++|+|||++++++|+++..|+..+...  ..++|++||+||.|+.+.  +..++......     ...+.
T Consensus        77 ~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~  154 (182)
T PTZ00133         77 LWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNA--MSTTEVTEKLGLHSVRQRNWY  154 (182)
T ss_pred             HHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC--CCHHHHHHHhCCCcccCCcEE
Confidence            9999999999999999999999999998777766432  256899999999998542  33333322211     12235


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++++||++|.|++++|++|.+.+.+++
T Consensus       155 ~~~~Sa~tg~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        155 IQGCCATTAQGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             EEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence            779999999999999999999886654

>cd04157 Arl6 Arl6 subfamily

Probab=99.91  E-value=2e-24  Score=192.54  Aligned_cols=152  Identities=20%  Similarity=0.309  Sum_probs=112.9

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      +|+++|++|||||||+++| .+..+        ....+.+++|       +....+.  ...+.+.+|||+|++++..++
T Consensus         1 ~i~~vG~~~~GKTsl~~~l-~~~~~--------~~~~~~~t~g-------~~~~~~~--~~~~~~~l~Dt~G~~~~~~~~   62 (162)
T cd04157           1 NILVVGLDNSGKTTIINQL-KPENA--------QSQIIVPTVG-------FNVESFE--KGNLSFTAFDMSGQGKYRGLW   62 (162)
T ss_pred             CEEEECCCCCCHHHHHHHH-cccCC--------CcceecCccc-------cceEEEE--ECCEEEEEEECCCCHhhHHHH
Confidence            5899999999999999998 22211        1222344554       1122222  335788999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCcccCHHHHHHHHH-----hcCCc
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----KNQMA  212 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~~~~~  212 (432)
                      ..+++++|++|+|||++++.+|+.+..|+..+....    .++|+++|+||+|+....  ..++......     ...+.
T Consensus        63 ~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~  140 (162)
T cd04157          63 EHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWH  140 (162)
T ss_pred             HHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEE
Confidence            999999999999999999999998888888875532    479999999999996432  2233222211     12346


Q ss_pred             EEEEcCCCCCCHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~  233 (432)
                      ++++||++|.|++++|++|.+
T Consensus       141 ~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         141 IFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             EEEeeCCCCCchHHHHHHHhc
Confidence            899999999999999999864

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

>PTZ00099 rab6; Provisional

Probab=99.91  E-value=1.4e-23  Score=192.41  Aligned_cols=137  Identities=34%  Similarity=0.542  Sum_probs=123.4

Q ss_pred             CccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh
Q psy3450          97 SPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH  176 (432)
Q Consensus        97 ~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~  176 (432)
                      ..+.+++|     +++..+.+.+++..+++.||||+|+++|..++..|++++|++|+|||++++++|+++..|+..+...
T Consensus         7 ~~~~~Tig-----~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~   81 (176)
T PTZ00099          7 NNYQSTIG-----IDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNE   81 (176)
T ss_pred             CCCCCccc-----eEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            34556666     5787888899999999999999999999999999999999999999999999999999999998765


Q ss_pred             C-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       177 ~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      . +++|++|||||+||...+.+..+++..+++.+++.|+|+||++|.||+++|++|++.+.+.
T Consensus        82 ~~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~  144 (176)
T PTZ00099         82 RGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNL  144 (176)
T ss_pred             cCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4 6789999999999987778899999999999999999999999999999999999998653

>COG1159 Era GTPase [General function prediction only]

Probab=99.91  E-value=3.9e-24  Score=205.91  Aligned_cols=202  Identities=17%  Similarity=0.154  Sum_probs=151.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .--|+++|.||||||||+|++ .+.+....+..+++++....++              ...+ ..++.|+||||..+-..
T Consensus         6 sGfVaIiGrPNvGKSTLlN~l-~G~KisIvS~k~QTTR~~I~GI--------------~t~~-~~QiIfvDTPGih~pk~   69 (298)
T COG1159           6 SGFVAIIGRPNVGKSTLLNAL-VGQKISIVSPKPQTTRNRIRGI--------------VTTD-NAQIIFVDTPGIHKPKH   69 (298)
T ss_pred             EEEEEEEcCCCCcHHHHHHHH-hcCceEeecCCcchhhhheeEE--------------EEcC-CceEEEEeCCCCCCcch
Confidence            346899999999999999997 7777666555555544332222              2223 67889999999764333


Q ss_pred             hh--------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         140 II--------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       140 l~--------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                      ..        ...+.++|+++||.|+++...-. ....++.++.  .+.|++++.||+|.........+....+.....+
T Consensus        70 ~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~-d~~il~~lk~--~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f  146 (298)
T COG1159          70 ALGELMNKAARSALKDVDLILFVVDADEGWGPG-DEFILEQLKK--TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPF  146 (298)
T ss_pred             HHHHHHHHHHHHHhccCcEEEEEEeccccCCcc-HHHHHHHHhh--cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCc
Confidence            22        23568999999999998854322 1333444444  3479999999999866544223333333344444


Q ss_pred             -cEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCceeEEEE
Q psy3450         212 -AFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYF  290 (432)
Q Consensus       212 -~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y~  290 (432)
                       .++++||++|.|++.+.+.+...+              +...+.++.+.+++.+.||+                     
T Consensus       147 ~~ivpiSA~~g~n~~~L~~~i~~~L--------------peg~~~yp~d~itD~~~rf~---------------------  191 (298)
T COG1159         147 KEIVPISALKGDNVDTLLEIIKEYL--------------PEGPWYYPEDQITDRPERFL---------------------  191 (298)
T ss_pred             ceEEEeeccccCCHHHHHHHHHHhC--------------CCCCCcCChhhccCChHHHH---------------------
Confidence             899999999999999999999888              67888999999999999999                     


Q ss_pred             EEeeccccCCccccccccccccchhhhh
Q psy3450         291 QYCFAGLVRPSVDVNKNKYNLLSFSVIS  318 (432)
Q Consensus       291 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (432)
                         ++|++||+++.++++|+||+.+|+.
T Consensus       192 ---~aEiiREk~~~~l~eElPhsv~VeI  216 (298)
T COG1159         192 ---AAEIIREKLLLLLREELPHSVAVEI  216 (298)
T ss_pred             ---HHHHHHHHHHHhcccccCceEEEEE
Confidence               8999999999999999999999953

>PLN00023 GTP-binding protein; Provisional

Probab=99.90  E-value=2.9e-23  Score=204.81  Aligned_cols=141  Identities=23%  Similarity=0.379  Sum_probs=115.6

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-------------Ce
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-------------GK  122 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-------------~~  122 (432)
                      +....+||+|+|+.|||||||+++|          ..+.+...+.+++|     .++..+.+.++             ++
T Consensus        17 ~~~~~iKIVLLGdsGVGKTSLI~rf----------~~g~F~~~~~pTIG-----~d~~ik~I~~~~~~~~~~~ik~d~~k   81 (334)
T PLN00023         17 PPCGQVRVLVVGDSGVGKSSLVHLI----------VKGSSIARPPQTIG-----CTVGVKHITYGSPGSSSNSIKGDSER   81 (334)
T ss_pred             CCccceEEEEECCCCCcHHHHHHHH----------hcCCcccccCCcee-----eeEEEEEEEECCcccccccccccCCc
Confidence            3456689999999999999999998          44444444555665     35555666654             35


Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-------------CCCcEEEEEECc
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-------------PGVPKVLVGNRL  189 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-------------~~iPiILVgNK~  189 (432)
                      .+.++||||+|+++|..++..|++++|++|+|||++++++|+++..|++++....             .++|++|||||+
T Consensus        82 ~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~  161 (334)
T PLN00023         82 DFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKA  161 (334)
T ss_pred             eEEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECc
Confidence            7899999999999999999999999999999999999999999999999998752             258999999999


Q ss_pred             cCCCCc---c---cCHHHHHHHHHhcCC
Q psy3450         190 HLAFNR---T---VTTREAEMYAIKNQM  211 (432)
Q Consensus       190 DL~~~r---~---v~~ee~~~~a~~~~~  211 (432)
                      ||..++   .   +..++++++|+++++
T Consensus       162 DL~~~~~~r~~s~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        162 DIAPKEGTRGSSGNLVDAARQWVEKQGL  189 (334)
T ss_pred             cccccccccccccccHHHHHHHHHHcCC
Confidence            996543   2   368899999999874

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.90  E-value=2e-23  Score=189.04  Aligned_cols=152  Identities=21%  Similarity=0.298  Sum_probs=115.5

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      +|+++|++|||||||+++| .+. +         ...+.+++|       +....+..+  .+.+++||++|++++..++
T Consensus         1 ~i~~~G~~~~GKTsl~~~l-~~~-~---------~~~~~~t~g-------~~~~~~~~~--~~~~~i~D~~G~~~~~~~~   60 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSAL-QGE-I---------PKKVAPTVG-------FTPTKLRLD--KYEVCIFDLGGGANFRGIW   60 (167)
T ss_pred             CEEEECCCCCCHHHHHHHH-hCC-C---------CccccCccc-------ceEEEEEEC--CEEEEEEECCCcHHHHHHH
Confidence            4799999999999999997 222 2         223344554       223344444  4778999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCH-H---HHHHHHHhcC--CcE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTT-R---EAEMYAIKNQ--MAF  213 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~-e---e~~~~a~~~~--~~~  213 (432)
                      ..|++++|++|+|||++++.+|+++..|+..+....  .++|++||+||+|+.+.+.... .   .+..++++.+  +.+
T Consensus        61 ~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~  140 (167)
T cd04161          61 VNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHI  140 (167)
T ss_pred             HHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEE
Confidence            999999999999999999999999999999887643  5789999999999975442111 1   1223333333  468


Q ss_pred             EEEcCCCC------CCHHHHHHHHHH
Q psy3450         214 FEVSPLCD------FNIRESFTELSR  233 (432)
Q Consensus       214 ~evSAktg------~nI~elf~~L~~  233 (432)
                      ++|||++|      .|+++.|+||..
T Consensus       141 ~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         141 EPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             EEeEceeCCCCccccCHHHHHHHHhc
Confidence            88999998      899999999974

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.90  E-value=2.8e-23  Score=185.18  Aligned_cols=151  Identities=24%  Similarity=0.404  Sum_probs=113.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+++| ....+..          ..+++|       +....+..+ ..+.+.+|||+|++.+..++
T Consensus         1 ~i~i~G~~~~GKTsl~~~~-~~~~~~~----------~~~t~~-------~~~~~~~~~-~~~~l~i~D~~G~~~~~~~~   61 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKL-KHAELVT----------TIPTVG-------FNVEMLQLE-KHLSLTVWDVGGQEKMRTVW   61 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHH-hcCCccc----------ccCccC-------cceEEEEeC-CceEEEEEECCCCHhHHHHH
Confidence            5899999999999999998 3332211          123332       222334443 45789999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHH------HHhcCCcE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMY------AIKNQMAF  213 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~------a~~~~~~~  213 (432)
                      ..+++++|++|+|||++++.++.++..|+.++....  .+.|+++|+||+|+...  ...++....      +...++++
T Consensus        62 ~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~  139 (160)
T cd04156          62 KCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYV  139 (160)
T ss_pred             HHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEE
Confidence            999999999999999999999999988888875432  57999999999998532  223333222      22234579


Q ss_pred             EEEcCCCCCCHHHHHHHHHH
Q psy3450         214 FEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~  233 (432)
                      +++||++|.||+++|++|.+
T Consensus       140 ~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         140 QPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             EecccccCCChHHHHHHHhc
Confidence            99999999999999999864

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.90  E-value=6.7e-23  Score=188.56  Aligned_cols=154  Identities=19%  Similarity=0.282  Sum_probs=120.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||++++ .++.+.          .+.++.+       .....+.+++  +.+.+||++|++.+.
T Consensus        18 ~~~ki~ilG~~~~GKStLi~~l-~~~~~~----------~~~~T~~-------~~~~~i~~~~--~~~~l~D~~G~~~~~   77 (190)
T cd00879          18 KEAKILFLGLDNAGKTTLLHML-KDDRLA----------QHVPTLH-------PTSEELTIGN--IKFKTFDLGGHEQAR   77 (190)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH-hcCCCc----------ccCCccC-------cceEEEEECC--EEEEEEECCCCHHHH
Confidence            3589999999999999999997 332221          1223332       2234455555  568999999999998


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh--------
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK--------  208 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~--------  208 (432)
                      .++..+++++|++++|+|+++.++|+....|+..+.+..  .+.|+++|+||+|+..  .+..++++.+.+.        
T Consensus        78 ~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~  155 (190)
T cd00879          78 RLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKG  155 (190)
T ss_pred             HHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCccccccccc
Confidence            888999999999999999999999998888888876533  5699999999999853  5666777766642        


Q ss_pred             --------cCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         209 --------NQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       209 --------~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                              ..+.+++|||++|.|++++|++|.+.
T Consensus       156 ~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         156 VSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             ccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence                    22468999999999999999999865

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.90  E-value=9.1e-23  Score=185.80  Aligned_cols=152  Identities=18%  Similarity=0.254  Sum_probs=114.9

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||++++ ..+.+.         . +.+++|       .....+.++  .+.+.+||++|++.+..
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l-~~~~~~---------~-~~~t~~-------~~~~~~~~~--~~~~~l~D~~G~~~~~~   74 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQF-LLGEVV---------H-TSPTIG-------SNVEEIVYK--NIRFLMWDIGGQESLRS   74 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHH-ccCCCC---------C-cCCccc-------cceEEEEEC--CeEEEEEECCCCHHHHH
Confidence            479999999999999999997 333332         1 123333       112233344  47889999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHH-HHH----HhcCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAE-MYA----IKNQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~-~~a----~~~~~~  212 (432)
                      .+..+++++|++|+|||++++++|..+..|+..+.+..  .++|+++|+||+|+.+  .+..++.. .+.    +..+++
T Consensus        75 ~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~  152 (174)
T cd04153          75 SWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG--AMTPAEISESLGLTSIRDHTWH  152 (174)
T ss_pred             HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC--CCCHHHHHHHhCcccccCCceE
Confidence            99999999999999999999999998877777765432  5689999999999854  23334332 222    234567


Q ss_pred             EEEEcCCCCCCHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~  233 (432)
                      ++++||++|.||+++|++|.+
T Consensus       153 ~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         153 IQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             EEecccCCCCCHHHHHHHHhc
Confidence            999999999999999999874

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.89  E-value=3.9e-23  Score=184.58  Aligned_cols=150  Identities=21%  Similarity=0.297  Sum_probs=109.2

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||+|++++ ..+.+..          ..+++|       +....+..  ..+.+++|||+|++.+..++
T Consensus         1 kv~lvG~~~~GKTsl~~~l-~~~~~~~----------~~~t~~-------~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~   60 (158)
T cd04151           1 RILILGLDNAGKTTILYRL-QLGEVVT----------TIPTIG-------FNVETVTY--KNLKFQVWDLGGQTSIRPYW   60 (158)
T ss_pred             CEEEECCCCCCHHHHHHHH-ccCCCcC----------cCCccC-------cCeEEEEE--CCEEEEEEECCCCHHHHHHH
Confidence            6899999999999999997 2222211          123332       22223333  34788999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHH-HH----HhcCCcEE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEM-YA----IKNQMAFF  214 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~-~a----~~~~~~~~  214 (432)
                      ..+++++|++|+|||++++.++....+|+..+.+.  ..++|++||+||+|+.+..  ..++... +.    ...+.+++
T Consensus        61 ~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~  138 (158)
T cd04151          61 RCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIF  138 (158)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEE
Confidence            99999999999999999988888776666554332  2579999999999986432  2233222 21    11234799


Q ss_pred             EEcCCCCCCHHHHHHHHHH
Q psy3450         215 EVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~  233 (432)
                      ++||++|.|++++|++|++
T Consensus       139 ~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         139 KTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             EeeccCCCCHHHHHHHHhc
Confidence            9999999999999999975

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.89  E-value=1e-22  Score=182.73  Aligned_cols=157  Identities=22%  Similarity=0.323  Sum_probs=116.5

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      +|+++|++|||||||++++ ......   ..+.....+.+++       ......+.++  ...+.+|||+|++.+..++
T Consensus         1 ~i~~vG~~~~GKstLi~~l-~~~~~~---~~~~~~~~~~~t~-------~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~   67 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQL-KTLFSK---YKGLPPSKITPTV-------GLNIGTIEVG--NARLKFWDLGGQESLRSLW   67 (167)
T ss_pred             CEEEEecCCCCHHHHHHHH-hhhccc---ccCCcccccCCcc-------ccceEEEEEC--CEEEEEEECCCChhhHHHH
Confidence            5899999999999999997 222111   0111111222233       2223344555  4678999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh-------cCCc
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-------NQMA  212 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-------~~~~  212 (432)
                      ..+++++|++++|+|++++++++....|+..+.+..  .++|+++|+||+|+..  ....++...+.+.       .+++
T Consensus        68 ~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~  145 (167)
T cd04160          68 DKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPD--ALSVEEIKEVFQDKAEEIGRRDCL  145 (167)
T ss_pred             HHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEcccccc--CCCHHHHHHHhccccccccCCceE
Confidence            999999999999999999999999888888876542  5799999999999854  3444555554433       2458


Q ss_pred             EEEEcCCCCCCHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~  233 (432)
                      ++++||++|.|++++|++|++
T Consensus       146 ~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         146 VLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             EEEeeCCCCcCHHHHHHHHhc
Confidence            999999999999999999875

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.89  E-value=8.5e-23  Score=181.85  Aligned_cols=150  Identities=19%  Similarity=0.296  Sum_probs=114.9

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|.+|||||||++++. +..+.          ...++.+       +....+.++  .+.+.+||++|++.+...+
T Consensus         1 ki~iiG~~~~GKssli~~~~-~~~~~----------~~~~t~~-------~~~~~~~~~--~~~~~i~D~~G~~~~~~~~   60 (158)
T cd00878           1 RILILGLDGAGKTTILYKLK-LGEVV----------TTIPTIG-------FNVETVEYK--NVSFTVWDVGGQDKIRPLW   60 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHh-cCCCC----------CCCCCcC-------cceEEEEEC--CEEEEEEECCCChhhHHHH
Confidence            68999999999999999982 22211          1223332       223334444  4678999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHH-----hcCCcEE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----KNQMAFF  214 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~~~~~~~  214 (432)
                      ..+++++|++++|||+++++++..+..|+..+....  .+.|+++|+||+|+...+  ..++..+...     ...++++
T Consensus        61 ~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~  138 (158)
T cd00878          61 KHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQ  138 (158)
T ss_pred             HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEE
Confidence            999999999999999999999999988888776643  579999999999986533  2333333322     2345899


Q ss_pred             EEcCCCCCCHHHHHHHHHH
Q psy3450         215 EVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~  233 (432)
                      ++||++|.|++++|++|..
T Consensus       139 ~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         139 PCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             EeeCCCCCCHHHHHHHHhh
Confidence            9999999999999999875

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=6e-22  Score=207.94  Aligned_cols=211  Identities=19%  Similarity=0.099  Sum_probs=141.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc---
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG---  135 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e---  135 (432)
                      ..+||+++|.+|||||||+|+|.......           ..+..|   ++.+.....+.+++..  +.+|||+|..   
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~-----------~s~~~g---tT~d~~~~~~~~~~~~--~~l~DTaG~~~~~  273 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSV-----------VDDVAG---TTVDPVDSLIELGGKT--WRFVDTAGLRRRV  273 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCccc-----------ccCCCC---ccCCcceEEEEECCEE--EEEEECCCccccc
Confidence            46899999999999999999983222111           111112   2345556667777765  4799999963   


Q ss_pred             -------ccchhh-hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc--cCHHHHHH-
Q psy3450         136 -------RFCTII-RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT--VTTREAEM-  204 (432)
Q Consensus       136 -------~~~~l~-~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~--v~~ee~~~-  204 (432)
                             .|..+. ..+++++|++|+|||+++..+++++. ++..+..  .+.|+|||+||+|+.++..  ...++... 
T Consensus       274 ~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~--~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~  350 (472)
T PRK03003        274 KQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE--AGRALVLAFNKWDLVDEDRRYYLEREIDRE  350 (472)
T ss_pred             cccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH--cCCCEEEEEECcccCChhHHHHHHHHHHHh
Confidence                   333332 23578999999999999998888764 4555543  4689999999999964221  11112222 


Q ss_pred             HHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCc
Q psy3450         205 YAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGK  284 (432)
Q Consensus       205 ~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk  284 (432)
                      +.....++++++||++|.||+++|+.+.+.+.......                  .+...-+++............+|+
T Consensus       351 l~~~~~~~~~~~SAk~g~gv~~lf~~i~~~~~~~~~~i------------------~t~~ln~~~~~~~~~~~~p~~~g~  412 (472)
T PRK03003        351 LAQVPWAPRVNISAKTGRAVDKLVPALETALESWDTRI------------------PTGRLNAWLGELVAATPPPVRGGK  412 (472)
T ss_pred             cccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcccC------------------CHHHHHHHHHHHHHcCCCCCCCCe
Confidence            22223468999999999999999999998775433211                  133344555554444444557899


Q ss_pred             eeEEEEEEeeccccCCccccccc
Q psy3450         285 HLLTYFQYCFAGLVRPSVDVNKN  307 (432)
Q Consensus       285 ~~~~y~~~~~~~~~~~~~~~~~~  307 (432)
                      .+++||.+|. ..-||.+-++.|
T Consensus       413 ~~k~~y~~q~-~~~pp~f~~~~~  434 (472)
T PRK03003        413 QPRILFATQA-STRPPTFVLFTT  434 (472)
T ss_pred             eeeEEEEECC-CCCCCEEEEEeC
Confidence            9999999988 666666666543

>PRK00089 era GTPase Era; Reviewed

Probab=99.88  E-value=2.3e-22  Score=198.28  Aligned_cols=199  Identities=18%  Similarity=0.149  Sum_probs=139.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch-
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT-  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~-  139 (432)
                      -.|+++|++|||||||+|+| .+..+......+.+             +.+. ...+... ...++.+|||||...... 
T Consensus         6 g~V~iiG~pn~GKSTLin~L-~g~~~~~vs~~~~t-------------t~~~-i~~i~~~-~~~qi~~iDTPG~~~~~~~   69 (292)
T PRK00089          6 GFVAIVGRPNVGKSTLLNAL-VGQKISIVSPKPQT-------------TRHR-IRGIVTE-DDAQIIFVDTPGIHKPKRA   69 (292)
T ss_pred             EEEEEECCCCCCHHHHHHHH-hCCceeecCCCCCc-------------cccc-EEEEEEc-CCceEEEEECCCCCCchhH
Confidence            46999999999999999997 44433221111111             1111 1122222 236789999999754322 


Q ss_pred             -------hhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC-
Q psy3450         140 -------IIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-  210 (432)
Q Consensus       140 -------l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-  210 (432)
                             .....+.++|++++|+|+++..  ... ..++..+..  .+.|+++|+||+|+...+....+....+.+..+ 
T Consensus        70 l~~~~~~~~~~~~~~~D~il~vvd~~~~~--~~~~~~i~~~l~~--~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~  145 (292)
T PRK00089         70 LNRAMNKAAWSSLKDVDLVLFVVDADEKI--GPGDEFILEKLKK--VKTPVILVLNKIDLVKDKEELLPLLEELSELMDF  145 (292)
T ss_pred             HHHHHHHHHHHHHhcCCEEEEEEeCCCCC--ChhHHHHHHHHhh--cCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCC
Confidence                   2234568899999999998832  222 223333332  358999999999996433333445555655554 


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCceeEEEE
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYF  290 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y~  290 (432)
                      .+++++||+++.|++++++++.+.+              +...++++.+..++...+++                     
T Consensus       146 ~~i~~iSA~~~~gv~~L~~~L~~~l--------------~~~~~~y~~~~~td~~~r~~---------------------  190 (292)
T PRK00089        146 AEIVPISALKGDNVDELLDVIAKYL--------------PEGPPYYPEDQITDRPERFL---------------------  190 (292)
T ss_pred             CeEEEecCCCCCCHHHHHHHHHHhC--------------CCCCCCCCCCCCCCCCHHHH---------------------
Confidence            5899999999999999999999877              34556778888888888887                     


Q ss_pred             EEeeccccCCccccccccccccchhhh
Q psy3450         291 QYCFAGLVRPSVDVNKNKYNLLSFSVI  317 (432)
Q Consensus       291 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (432)
                         ++|++|++++..+++|+||+..|.
T Consensus       191 ---~~EiiRe~~~~~l~~e~p~~~~v~  214 (292)
T PRK00089        191 ---AAEIIREKLLRLLGDELPYSVAVE  214 (292)
T ss_pred             ---HHHHHHHHHHhhCCccCCceEEEE
Confidence               789999999999999999999884

>cd01890 LepA LepA subfamily

Probab=99.88  E-value=9.8e-22  Score=178.60  Aligned_cols=165  Identities=17%  Similarity=0.211  Sum_probs=114.6

Q ss_pred             EEEEeCcccchhHHHHHhhhcCC-CCcccccCCCCcCccccCCCcc-ccccceeEEEE--EE---CCeEEEEEEEeCCCC
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLES-RFPRFWLDGSSESPFCSGSGKY-DDMLAYKTTTI--LL---DGKRVKLQLWDTSGQ  134 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~-~~~~~~~~~~~~~~~~~~ig~~-~~tid~~~~~i--~i---~~~~v~l~i~Dt~G~  134 (432)
                      +|+++|+++||||||+++|.... .+..    ......+.++.+.. ...+.+..+.+  .+   ++..+.++||||||+
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   77 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSK----REMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGH   77 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCc----CCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCC
Confidence            58999999999999999984321 1110    00111111111000 00013332222  22   667889999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC---
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM---  211 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~---  211 (432)
                      ++|..++..+++++|++|+|||+++..+++.+..|.....   .++|+++|+||+|+.+.+  ..+...++++.+++   
T Consensus        78 ~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~---~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~  152 (179)
T cd01890          78 VDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALE---NNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPS  152 (179)
T ss_pred             hhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHH---cCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcc
Confidence            9999999999999999999999999888877776654332   458999999999985422  22233456666665   


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .++++||++|.|++++|++|.+.+
T Consensus       153 ~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         153 EAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             cEEEeeccCCCCHHHHHHHHHhhC
Confidence            489999999999999999998765

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.88  E-value=9.3e-22  Score=181.05  Aligned_cols=154  Identities=19%  Similarity=0.281  Sum_probs=117.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|.+|||||||++++ .++.+..          +.++.+       .....+.+++  +++.+||++|++.+.
T Consensus        16 ~~~~i~ivG~~~~GKTsli~~l-~~~~~~~----------~~~t~~-------~~~~~~~~~~--~~~~~~D~~G~~~~~   75 (184)
T smart00178       16 KHAKILFLGLDNAGKTTLLHML-KNDRLAQ----------HQPTQH-------PTSEELAIGN--IKFTTFDLGGHQQAR   75 (184)
T ss_pred             ccCEEEEECCCCCCHHHHHHHH-hcCCCcc----------cCCccc-------cceEEEEECC--EEEEEEECCCCHHHH
Confidence            3489999999999999999997 3333321          112221       2223334443  678999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh--------
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK--------  208 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~--------  208 (432)
                      .++..+++++|++|+|+|+++++++.....|+.++.+..  .++|+++|+||+|+.  +.++.+++.+...-        
T Consensus        76 ~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~--~~~~~~~i~~~l~l~~~~~~~~  153 (184)
T smart00178       76 RLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAP--YAASEDELRYALGLTNTTGSKG  153 (184)
T ss_pred             HHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc--CCCCHHHHHHHcCCCccccccc
Confidence            999999999999999999999999998888887765432  578999999999985  34556665543311        


Q ss_pred             ----cCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         209 ----NQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       209 ----~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                          ....+++|||++|.|+++++++|.+.
T Consensus       154 ~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      154 KVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             ccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence                12369999999999999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.88  E-value=1.4e-21  Score=175.59  Aligned_cols=155  Identities=15%  Similarity=0.186  Sum_probs=106.5

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch--
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT--  139 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~--  139 (432)
                      +|+++|++|||||||+++| .+..+...        .+   .   .++.+.....+..  ..+.++||||||+.....  
T Consensus         2 ~i~~~G~~~~GKssli~~l-~~~~~~~~--------~~---~---~~t~~~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~   64 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKL-TRAKPEVA--------PY---P---FTTKSLFVGHFDY--KYLRWQVIDTPGLLDRPLEE   64 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHH-hcCCCccC--------CC---C---CcccceeEEEEcc--CceEEEEEECCCcCCccccC
Confidence            7899999999999999998 33322110        00   0   0111222222222  347889999999843110  


Q ss_pred             -------hhhhcccCceEEEEEEeCCCCCCh--hhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         140 -------IIRSYSRGAQGILLVYDITNKWSF--DGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       140 -------l~~~~~~~ad~iIlV~Dvt~~~Sf--~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                             ........+|++|+|+|+++..++  +....|+..+.....+.|+++|+||+|+...+.+..  ..++++..+
T Consensus        65 ~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~  142 (168)
T cd01897          65 RNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKPVIVVLNKIDLLTFEDLSE--IEEEEELEG  142 (168)
T ss_pred             CchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCCeEEEEEccccCchhhHHH--HHHhhhhcc
Confidence                   000111236899999999987654  666778888876656799999999999965444332  455555567


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+++++||++|.|++++|+++.+.+
T Consensus       143 ~~~~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         143 EEVLKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             CceEEEEecccCCHHHHHHHHHHHh
Confidence            7999999999999999999999876

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.87  E-value=9.4e-22  Score=173.10  Aligned_cols=150  Identities=22%  Similarity=0.370  Sum_probs=112.0

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIR  142 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~  142 (432)
                      |+++|++|||||||++++ .+..+         ...+.++.+     +++  ..+..++  +.+.+||++|++.+..++.
T Consensus         2 i~i~G~~~~GKssl~~~l-~~~~~---------~~~~~~t~~-----~~~--~~~~~~~--~~~~~~D~~g~~~~~~~~~   62 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVI-AGGQF---------SEDTIPTVG-----FNM--RKVTKGN--VTLKVWDLGGQPRFRSMWE   62 (159)
T ss_pred             EEEEcCCCCCHHHHHHHH-ccCCC---------CcCccCCCC-----cce--EEEEECC--EEEEEEECCCCHhHHHHHH
Confidence            789999999999999997 33333         223334443     122  2333433  7899999999999999999


Q ss_pred             hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHH-----HhcCCcEEE
Q psy3450         143 SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKNQMAFFE  215 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~~~~~~e  215 (432)
                      .+++++|++++|+|+++++++.....|+..+....  .++|+++|+||+|+.+...  .++.....     ....+++++
T Consensus        63 ~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  140 (159)
T cd04159          63 RYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYS  140 (159)
T ss_pred             HHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEE
Confidence            99999999999999999988988877777765432  5789999999999865332  22222111     122367899


Q ss_pred             EcCCCCCCHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSR  233 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~  233 (432)
                      +||++|.|++++|++|.+
T Consensus       141 ~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         141 ISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             EEeccCCChHHHHHHHhh
Confidence            999999999999999875

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.87  E-value=6.4e-21  Score=197.67  Aligned_cols=220  Identities=22%  Similarity=0.192  Sum_probs=147.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|.+|||||||+|+|+..+....           ....|   ++.+.....+..++.  .+.+|||||..++
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~-----------~~~~g---tt~~~~~~~~~~~~~--~~~liDT~G~~~~  233 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIV-----------SDIAG---TTRDSIDIPFERNGK--KYLLIDTAGIRRK  233 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeec-----------CCCCC---ceECcEeEEEEECCc--EEEEEECCCcccc
Confidence            4568999999999999999999843332211           11112   223444455556664  5799999997654


Q ss_pred             chhh-----------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         138 CTII-----------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       138 ~~l~-----------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                      ....           ..+++.+|++|+|+|+++..+.++.. ++..+..  .+.|+++|+||+|+.+. ....++..+..
T Consensus       234 ~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~--~~~~iiiv~NK~Dl~~~-~~~~~~~~~~~  309 (429)
T TIGR03594       234 GKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLR-IAGLILE--AGKALVIVVNKWDLVKD-EKTREEFKKEL  309 (429)
T ss_pred             ccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH--cCCcEEEEEECcccCCC-HHHHHHHHHHH
Confidence            3321           23678999999999999988776653 4444433  35899999999999621 11122222222


Q ss_pred             -Hh----cCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccC
Q psy3450         207 -IK----NQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSN  281 (432)
Q Consensus       207 -~~----~~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~  281 (432)
                       ..    .+++++++||++|.|++++|+++.+.+........                  +....+++............
T Consensus       310 ~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~~~~~~~~~~i~------------------t~~ln~~l~~~~~~~~~p~~  371 (429)
T TIGR03594       310 RRKLPFLDFAPIVFISALTGQGVDKLLDAIDEVYENANRRIS------------------TSKLNRVLEEAVAAHPPPLV  371 (429)
T ss_pred             HHhcccCCCCceEEEeCCCCCCHHHHHHHHHHHHHHhcCcCC------------------HHHHHHHHHHHHHcCCCCCC
Confidence             22    24699999999999999999999987754332211                  11222344333333333446


Q ss_pred             CCceeEEEEEEeeccccCCccccccccccccchhh
Q psy3450         282 KGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSV  316 (432)
Q Consensus       282 ~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (432)
                      +|+..++||..|. ..-||.+.++.|++..++++-
T Consensus       372 ~~~~~k~~y~~q~-~~~pp~~~~~~n~~~~~~~~y  405 (429)
T TIGR03594       372 NGRRLKIKYATQV-GTNPPTFVLFGNRPELLPFSY  405 (429)
T ss_pred             CCceeeEEEEECC-CCCCCEEEEEEcCcccCCHHH
Confidence            8999999999998 567999999999998887764

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.86  E-value=6.5e-21  Score=179.09  Aligned_cols=164  Identities=35%  Similarity=0.499  Sum_probs=127.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++|          ....+...+.++++     ..+........+..+++.+|||+|+++|+.+
T Consensus         6 ~kivv~G~~g~GKTtl~~~l----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~   70 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRL----------VGDEFPEGYPPTIG-----NLDPAKTIEPYRRNIKLQLWDTAGQEEYRSL   70 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHH----------hcCcCcccCCCcee-----eeeEEEEEEeCCCEEEEEeecCCCHHHHHHH
Confidence            89999999999999999998          34444433444443     2444555555555889999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhh-HHHHHHHHHhhC-CCCcEEEEEECccCCCCc------------ccCHHHHHHHH
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDG-IDRWLKEVEEHA-PGVPKVLVGNRLHLAFNR------------TVTTREAEMYA  206 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~-l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r------------~v~~ee~~~~a  206 (432)
                      +..|+.+++++++|||.++..++.+ ...|..++.... .+.|+++|+||+|+...+            ....+.....+
T Consensus        71 ~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (219)
T COG1100          71 RPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKA  150 (219)
T ss_pred             HHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHH
Confidence            9999999999999999999555555 499999999887 479999999999997653            33333333333


Q ss_pred             Hhc---CCcEEEEcCC--CCCCHHHHHHHHHHHHhhhc
Q psy3450         207 IKN---QMAFFEVSPL--CDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       207 ~~~---~~~~~evSAk--tg~nI~elf~~L~~~i~~~~  239 (432)
                      ...   ...++++|++  ++.+|+++|..+++.+.+..
T Consensus       151 ~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         151 VLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEI  188 (219)
T ss_pred             hhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHHhh
Confidence            322   3359999999  99999999999999986543

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.86  E-value=1.7e-21  Score=170.78  Aligned_cols=134  Identities=17%  Similarity=0.188  Sum_probs=99.2

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc-----c
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG-----R  136 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e-----~  136 (432)
                      ||+++|++|||||||+++| .++.+         .  +.++++            +.+.+     .+|||+|+.     .
T Consensus         2 kv~liG~~~vGKSsL~~~l-~~~~~---------~--~~~t~~------------~~~~~-----~~iDt~G~~~~~~~~   52 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQAL-QGEEI---------L--YKKTQA------------VEYND-----GAIDTPGEYVENRRL   52 (142)
T ss_pred             eEEEECCCCCCHHHHHHHH-cCCcc---------c--ccccee------------EEEcC-----eeecCchhhhhhHHH
Confidence            8999999999999999997 22221         1  111111            11222     689999983     3


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-cEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-AFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~~~e  215 (432)
                      +..+.. .++++|++|+|||++++.++.. ..|...+     ..|+++|+||+|+.+ +....++++++++..+. ++++
T Consensus        53 ~~~~~~-~~~~ad~vilv~d~~~~~s~~~-~~~~~~~-----~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~  124 (142)
T TIGR02528        53 YSALIV-TAADADVIALVQSATDPESRFP-PGFASIF-----VKPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFE  124 (142)
T ss_pred             HHHHHH-HhhcCCEEEEEecCCCCCcCCC-hhHHHhc-----cCCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEE
Confidence            444433 4799999999999999999876 3454432     249999999999964 44566777888888776 8999


Q ss_pred             EcCCCCCCHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELS  232 (432)
Q Consensus       216 vSAktg~nI~elf~~L~  232 (432)
                      +||++|.|++++|+++.
T Consensus       125 ~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528       125 ISSVDEQGLEALVDYLN  141 (142)
T ss_pred             EecCCCCCHHHHHHHHh
Confidence            99999999999999874

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.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.86  E-value=1e-20  Score=173.10  Aligned_cols=156  Identities=23%  Similarity=0.369  Sum_probs=124.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|..|+|||||++++          ..+... ...|+.       .+....+.+++  +.+.+||.+|++.+
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l----------~~~~~~-~~~pT~-------g~~~~~i~~~~--~~~~~~d~gG~~~~   71 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRL----------KNGEIS-ETIPTI-------GFNIEEIKYKG--YSLTIWDLGGQESF   71 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHH----------HSSSEE-EEEEES-------SEEEEEEEETT--EEEEEEEESSSGGG
T ss_pred             CcEEEEEEECCCccchHHHHHHh----------hhcccc-ccCccc-------ccccceeeeCc--EEEEEEeccccccc
Confidence            56789999999999999999998          222111 134444       45566666766  66899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHH------hc
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAI------KN  209 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~------~~  209 (432)
                      +.+|+.|++++|++|+|+|.++.+.+.+..+.+..+....  .++|++|++||.|+.+  ....+++.....      ..
T Consensus        72 ~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~--~~~~~~i~~~l~l~~l~~~~  149 (175)
T PF00025_consen   72 RPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPD--AMSEEEIKEYLGLEKLKNKR  149 (175)
T ss_dssp             GGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTT--SSTHHHHHHHTTGGGTTSSS
T ss_pred             cccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccC--cchhhHHHhhhhhhhcccCC
Confidence            9999999999999999999999999999888777776542  5799999999999854  355566554432      23


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+.++.|||++|.|+.|.|+||.+++
T Consensus       150 ~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  150 PWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             CEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             ceEEEeeeccCCcCHHHHHHHHHhcC
Confidence            35689999999999999999999875

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 ....

>cd01898 Obg Obg subfamily

Probab=99.86  E-value=7.2e-21  Score=171.07  Aligned_cols=156  Identities=16%  Similarity=0.141  Sum_probs=109.1

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc----cc
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG----RF  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e----~~  137 (432)
                      .|+++|++|||||||++++. +....   ...        ..+   ++.+.....+.+++ ...+.+|||||+.    .+
T Consensus         2 ~v~ivG~~~~GKStl~~~l~-~~~~~---v~~--------~~~---~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~   65 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAIS-NAKPK---IAD--------YPF---TTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEG   65 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHh-cCCcc---ccC--------CCc---cccCCcceEEEcCC-CCeEEEEecCcccCccccc
Confidence            58999999999999999982 22110   000        000   01122222233333 2478999999974    22


Q ss_pred             chhhhhcc---cCceEEEEEEeCCCC-CChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHHh-c
Q psy3450         138 CTIIRSYS---RGAQGILLVYDITNK-WSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-N  209 (432)
Q Consensus       138 ~~l~~~~~---~~ad~iIlV~Dvt~~-~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-~  209 (432)
                      ..+...++   +.+|++++|+|++++ ++++.+..|.+++....   .+.|+++|+||+|+.+...+ .+....+..+ .
T Consensus        66 ~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~  144 (170)
T cd01898          66 KGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELW  144 (170)
T ss_pred             CCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCC
Confidence            23334443   469999999999999 89999999999887764   36899999999999654433 3444555555 3


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      +.+++++||+++.|++++|+++.+.
T Consensus       145 ~~~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         145 GKPVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             CCCEEEEecCCCCCHHHHHHHHHhh
Confidence            6789999999999999999999864

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.85  E-value=2.7e-20  Score=162.56  Aligned_cols=155  Identities=34%  Similarity=0.471  Sum_probs=118.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|.+|+|||||++++.... ++.         .+.++.+     .++....+..++..+.+.+||++|++++..+
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~-~~~---------~~~~~~~-----~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~   66 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNK-FIT---------EYKPGTT-----RNYVTTVIEEDGKTYKFNLLDTAGQEDYRAI   66 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC-CcC---------cCCCCce-----eeeeEEEEEECCEEEEEEEEECCCcccchHH
Confidence            799999999999999999983322 321         1122222     3555555677777788999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCC-CChhhHH-HHHHHHHhhCC-CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         141 IRSYSRGAQGILLVYDITNK-WSFDGID-RWLKEVEEHAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~-~Sf~~l~-~~l~~i~~~~~-~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      +..+.++++.++.++|+... .++.+.. .|...+..... +.|+++|+||+|+...+ ...+....+......+++++|
T Consensus        67 ~~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~s  145 (161)
T TIGR00231        67 RRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLS  145 (161)
T ss_pred             HHHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEee
Confidence            98899999999999999887 7777764 77777776654 79999999999996533 333333334444456899999


Q ss_pred             CCCCCCHHHHHHHH
Q psy3450         218 PLCDFNIRESFTEL  231 (432)
Q Consensus       218 Aktg~nI~elf~~L  231 (432)
                      |++|.|++++|++|
T Consensus       146 a~~~~gv~~~~~~l  159 (161)
T TIGR00231       146 AETGKNIDSAFKIV  159 (161)
T ss_pred             cCCCCCHHHHHHHh
Confidence            99999999999986

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.85  E-value=9.5e-21  Score=171.14  Aligned_cols=151  Identities=23%  Similarity=0.341  Sum_probs=112.5

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||++++ .+..+.          ...++.|       +....+..++  ..+.+||++|++.+
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l-~~~~~~----------~~~~t~g-------~~~~~i~~~~--~~~~~~D~~G~~~~   71 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQL-ASEDIS----------HITPTQG-------FNIKTVQSDG--FKLNVWDIGGQRAI   71 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHH-hcCCCc----------ccCCCCC-------cceEEEEECC--EEEEEEECCCCHHH
Confidence            33689999999999999999997 222211          1223333       2233445555  56899999999998


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC-----
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-----  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-----  210 (432)
                      ...+..+++++|++++|+|+++..++.....|+..+....  .++|+++++||+|+.+..  ..++   +.+..+     
T Consensus        72 ~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~--~~~~---i~~~l~~~~~~  146 (173)
T cd04155          72 RPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAA--PAEE---IAEALNLHDLR  146 (173)
T ss_pred             HHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCC--CHHH---HHHHcCCcccC
Confidence            8888899999999999999999988988877776665432  469999999999985432  2222   233333     


Q ss_pred             ---CcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         211 ---MAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       211 ---~~~~evSAktg~nI~elf~~L~~  233 (432)
                         .+++++||++|.|++++|++|++
T Consensus       147 ~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         147 DRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             CCeEEEEEeECCCCCCHHHHHHHHhc
Confidence               24789999999999999999975

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.85  E-value=5.9e-20  Score=185.98  Aligned_cols=253  Identities=20%  Similarity=0.161  Sum_probs=171.5

Q ss_pred             EEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCcc
Q psy3450          20 LLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPF   99 (432)
Q Consensus        20 ~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~   99 (432)
                      ++.+.||.|-..+++.....++ . .    ......+....+||+++|.||||||||+|++..+++..           .
T Consensus       144 ~ISA~Hg~Gi~dLld~v~~~l~-~-~----e~~~~~~~~~~ikiaiiGrPNvGKSsLiN~ilgeeR~I-----------v  206 (444)
T COG1160         144 PISAEHGRGIGDLLDAVLELLP-P-D----EEEEEEEETDPIKIAIIGRPNVGKSSLINAILGEERVI-----------V  206 (444)
T ss_pred             EeehhhccCHHHHHHHHHhhcC-C-c----ccccccccCCceEEEEEeCCCCCchHHHHHhccCceEE-----------e
Confidence            4467777777776666655332 0 0    00111111367999999999999999999984444432           3


Q ss_pred             ccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh-----------hhcccCceEEEEEEeCCCCCChhhHHH
Q psy3450         100 CSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII-----------RSYSRGAQGILLVYDITNKWSFDGIDR  168 (432)
Q Consensus       100 ~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~-----------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~  168 (432)
                      ++..|++   .|.....++.+++.  +.++||+|..+-....           ...+..+|++++|.|++.+-+-++. +
T Consensus       207 ~~~aGTT---RD~I~~~~e~~~~~--~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~-~  280 (444)
T COG1160         207 SDIAGTT---RDSIDIEFERDGRK--YVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDL-R  280 (444)
T ss_pred             cCCCCcc---ccceeeeEEECCeE--EEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHH-H
Confidence            3444533   45555666778866  4899999964322211           1346789999999999988655443 3


Q ss_pred             HHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh----c-CCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcc
Q psy3450         169 WLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK----N-QMAFFEVSPLCDFNIRESFTELSRRALQRNGMER  243 (432)
Q Consensus       169 ~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~----~-~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~  243 (432)
                      ....+.+  .+.+++||.||||+.++++...++.+...+.    . .++.+.+||++|.+++++|+.+.+..........
T Consensus       281 ia~~i~~--~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~~~~~~ri~  358 (444)
T COG1160         281 IAGLIEE--AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIYECATRRIS  358 (444)
T ss_pred             HHHHHHH--cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHHHHhccccC
Confidence            3344443  3579999999999976654555555433322    2 3589999999999999999999887754433222


Q ss_pred             cccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCceeEEEEEEeeccccCCccccccccccccchhh
Q psy3450         244 LWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSV  316 (432)
Q Consensus       244 ~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (432)
                                        +...-+.++......+....+|+.+++||..|. ...||.+.++.|++..++|+=
T Consensus       359 ------------------Ts~LN~~l~~a~~~~pP~~~~G~r~ki~Ya~q~-~~~PP~fvlf~N~~~~~~~sY  412 (444)
T COG1160         359 ------------------TSLLNRVLEDAVAKHPPPVRYGRRLKIKYATQV-STNPPTFVLFGNRPKALHFSY  412 (444)
T ss_pred             ------------------HHHHHHHHHHHHHhCCCCccCCceEEEEEEecC-CCCCCEEEEEecchhhCchHH
Confidence                              222334444444444455678999999999999 789999999999999999875

>cd04171 SelB SelB subfamily

Probab=99.84  E-value=5.7e-20  Score=163.65  Aligned_cols=157  Identities=17%  Similarity=0.109  Sum_probs=101.8

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      -|+++|++|||||||+++| .+...      ..+.....++     .+++.....+.+++ ...+.+|||||+++|....
T Consensus         2 ~i~i~G~~~~GKssl~~~l-~~~~~------~~~~~~~~~~-----~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~   68 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKAL-TGIET------DRLPEEKKRG-----ITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNM   68 (164)
T ss_pred             EEEEEecCCCCHHHHHHHH-hCccc------ccchhhhccC-----ceEEeeeEEEEecC-CcEEEEEECCChHHHHHHH
Confidence            5889999999999999998 22110      0011111111     12233334444542 3578999999999887766


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc--ccCHHHHHHHHHh---cCCcEEEE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR--TVTTREAEMYAIK---NQMAFFEV  216 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r--~v~~ee~~~~a~~---~~~~~~ev  216 (432)
                      ..+++++|++++|+|+++... .+...++..+... ...|+++|+||+|+..+.  ....++..++.+.   .+.+++++
T Consensus        69 ~~~~~~ad~ii~V~d~~~~~~-~~~~~~~~~~~~~-~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (164)
T cd04171          69 LAGAGGIDLVLLVVAADEGIM-PQTREHLEILELL-GIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPV  146 (164)
T ss_pred             HhhhhcCCEEEEEEECCCCcc-HhHHHHHHHHHHh-CCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEE
Confidence            778899999999999987321 1122222222222 224999999999996532  1122344444444   45799999


Q ss_pred             cCCCCCCHHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELSR  233 (432)
Q Consensus       217 SAktg~nI~elf~~L~~  233 (432)
                      ||++|.|++++|+.+.+
T Consensus       147 Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         147 SAVTGEGIEELKEYLDE  163 (164)
T ss_pred             eCCCCcCHHHHHHHHhh
Confidence            99999999999998864

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

>cd01878 HflX HflX subfamily

Probab=99.83  E-value=5.3e-20  Score=171.58  Aligned_cols=156  Identities=19%  Similarity=0.159  Sum_probs=110.0

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .+..++|+|+|++|||||||++++.....+..               +.+..+++.....+.+++. ..+.+|||+|..+
T Consensus        38 ~~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~---------------~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~  101 (204)
T cd01878          38 RSGIPTVALVGYTNAGKSTLFNALTGADVYAE---------------DQLFATLDPTTRRLRLPDG-REVLLTDTVGFIR  101 (204)
T ss_pred             hcCCCeEEEECCCCCCHHHHHHHHhcchhccC---------------CccceeccceeEEEEecCC-ceEEEeCCCcccc
Confidence            35568999999999999999999833221110               0011122333444445443 3689999999732


Q ss_pred             ---------cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         137 ---------FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       137 ---------~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                               +...+ ..+.++|++++|+|++++.++.++..|.+.+.... .++|+++|+||+|+.......     ..+
T Consensus       102 ~~~~~~~~~~~~~~-~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~-----~~~  175 (204)
T cd01878         102 DLPHQLVEAFRSTL-EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE-----ERL  175 (204)
T ss_pred             CCCHHHHHHHHHHH-HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH-----HHh
Confidence                     11111 23578999999999999999988888887776654 468999999999986533221     344


Q ss_pred             HhcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         207 IKNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       207 ~~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ...+.+++++||++|.|++++|++|.+.
T Consensus       176 ~~~~~~~~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         176 EAGRPDAVFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             hcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence            4556789999999999999999999865

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.

>KOG0073|consensus

Probab=99.83  E-value=1.3e-19  Score=159.47  Aligned_cols=160  Identities=19%  Similarity=0.338  Sum_probs=127.0

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..++|+++|..|+||||++++|          ... ......|+.       -|..+++.+++  +++++||.+||.
T Consensus        12 ~kerE~riLiLGLdNsGKTti~~kl----------~~~-~~~~i~pt~-------gf~Iktl~~~~--~~L~iwDvGGq~   71 (185)
T KOG0073|consen   12 LKEREVRILILGLDNSGKTTIVKKL----------LGE-DTDTISPTL-------GFQIKTLEYKG--YTLNIWDVGGQK   71 (185)
T ss_pred             hhhheeEEEEEecCCCCchhHHHHh----------cCC-CccccCCcc-------ceeeEEEEecc--eEEEEEEcCCcc
Confidence            3445799999999999999999997          221 122333444       57777777766  778999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHh-hC-CCCcEEEEEECccCCCCcccCHHH------HHHHHH
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE-HA-PGVPKVLVGNRLHLAFNRTVTTRE------AEMYAI  207 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~-~~-~~iPiILVgNK~DL~~~r~v~~ee------~~~~a~  207 (432)
                      .++..|+.||..+|++|+|+|.+|+..|++....+..+.. .. .+.|++|++||.|+..  .+..++      .+.+++
T Consensus        72 ~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~--~l~~~~i~~~~~L~~l~k  149 (185)
T KOG0073|consen   72 TLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPG--ALSLEEISKALDLEELAK  149 (185)
T ss_pred             hhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCcc--ccCHHHHHHhhCHHHhcc
Confidence            9999999999999999999999999988887655555432 22 5689999999999962  233332      345667


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ...++++-|||.+|+++.+-|+||+..+..
T Consensus       150 s~~~~l~~cs~~tge~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  150 SHHWRLVKCSAVTGEDLLEGIDWLCDDLMS  179 (185)
T ss_pred             ccCceEEEEeccccccHHHHHHHHHHHHHH
Confidence            778899999999999999999999999866

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.83  E-value=1.3e-19  Score=181.79  Aligned_cols=160  Identities=17%  Similarity=0.147  Sum_probs=117.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCcc-ccccceeEEEEEECCeEEEEEEEeCCCCcc---
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY-DDMLAYKTTTILLDGKRVKLQLWDTSGQGR---  136 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~-~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~---  136 (432)
                      ..|.|||.||||||||++++... +.               .++.| .+|+......+.+++ ...+.+||+||..+   
T Consensus       159 adVglVG~PNaGKSTLln~ls~a-~~---------------~va~ypfTT~~p~~G~v~~~~-~~~~~i~D~PGli~ga~  221 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAA-KP---------------KIADYPFTTLHPNLGVVRVDD-YKSFVIADIPGLIEGAS  221 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcC-CC---------------ccCCCCCceeCceEEEEEeCC-CcEEEEEeCCCccCCCC
Confidence            36899999999999999998221 10               01111 123344444444532 24579999999742   


Q ss_pred             -cchhhhh---cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC---CCcEEEEEECccCCCCcccCHHHHHHHHHhc
Q psy3450         137 -FCTIIRS---YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP---GVPKVLVGNRLHLAFNRTVTTREAEMYAIKN  209 (432)
Q Consensus       137 -~~~l~~~---~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~---~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~  209 (432)
                       ...+...   ++++++++|+|+|+++.++++++..|..++..+.+   +.|++||+||+|+.+...+..++.+.+++..
T Consensus       222 ~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~  301 (335)
T PRK12299        222 EGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAAL  301 (335)
T ss_pred             ccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhc
Confidence             2223333   45679999999999998899999999999987653   6899999999999765544444555566667


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +.+++++||+++.||+++|++|.+.+.+
T Consensus       302 ~~~i~~iSAktg~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        302 GGPVFLISAVTGEGLDELLRALWELLEE  329 (335)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            7899999999999999999999988754

>KOG1707|consensus

Probab=99.82  E-value=1.2e-20  Score=194.05  Aligned_cols=247  Identities=20%  Similarity=0.231  Sum_probs=173.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..++|+++|+.||||||||-.+ ..+.|+.. .+...+....|               ..+..+.+...|.||+..+.-+
T Consensus         8 kdVRIvliGD~G~GKtSLImSL-~~eef~~~-VP~rl~~i~IP---------------advtPe~vpt~ivD~ss~~~~~   70 (625)
T KOG1707|consen    8 KDVRIVLIGDEGVGKTSLIMSL-LEEEFVDA-VPRRLPRILIP---------------ADVTPENVPTSIVDTSSDSDDR   70 (625)
T ss_pred             cceEEEEECCCCccHHHHHHHH-Hhhhcccc-ccccCCccccC---------------CccCcCcCceEEEecccccchh
Confidence            4689999999999999999997 66655433 22222222112               1123344557899998666555


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHH-HHHHHHhcC-C-
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTRE-AEMYAIKNQ-M-  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee-~~~~a~~~~-~-  211 (432)
                      .....-++.||++.+||+++++++.+.+ .+|+..+++..   .++||||||||+|+.+....+.+. ...+..++. + 
T Consensus        71 ~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiE  150 (625)
T KOG1707|consen   71 LCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIE  150 (625)
T ss_pred             HHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHH
Confidence            5556778999999999999999999999 88999999887   689999999999997655443343 444555543 3 


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCceeEEEEE
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQ  291 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y~~  291 (432)
                      ..|+|||++..|+.|+|....+.+++             ...|+++.+.-.-+.++   ++.+.|+|+            
T Consensus       151 tciecSA~~~~n~~e~fYyaqKaVih-------------Pt~PLyda~~qelkp~~---v~al~RIFk------------  202 (625)
T KOG1707|consen  151 TCIECSALTLANVSELFYYAQKAVIH-------------PTSPLYDAEEQELKPRC---VKALKRIFK------------  202 (625)
T ss_pred             HHHhhhhhhhhhhHhhhhhhhheeec-------------cCccccccccccccHHH---HHHHHHHHh------------
Confidence            68999999999999999999998866             34556665533333322   122233333            


Q ss_pred             EeeccccCCccccccccccccchhh----hhHhhhhhhhhhcccceeeccCCCChHHHHHhhh
Q psy3450         292 YCFAGLVRPSVDVNKNKYNLLSFSV----ISLQELCCRAIVARTTVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  350 (432)
                      .|+...-----+-.+|+++--+|.-    ..+.++..-.-..|++++.-++|.||+||+.|.-
T Consensus       203 i~D~d~D~~Lsd~Eln~fQ~~CF~~pl~p~~l~~vk~vv~e~~p~gv~~~~ltl~GFLfL~~l  265 (625)
T KOG1707|consen  203 ISDSDNDGALSDAELNDFQKKCFNTPLDPQELEDVKNVVQEICPDGVYERGLTLPGFLFLNTL  265 (625)
T ss_pred             hhccccccccchhhhhHHHHHhcCCCCCHHHHHHHHHHHHhhcCchhhhccccccchHHHHHH
Confidence            3333333333344455555555543    6777777778888999999999999999999953

>PRK04213 GTP-binding protein; Provisional

Probab=99.82  E-value=6.2e-20  Score=170.57  Aligned_cols=150  Identities=21%  Similarity=0.252  Sum_probs=98.5

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC----
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG----  133 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G----  133 (432)
                      ...+||+++|++|||||||+|+| .+..+.         ....++.       .+....+..+    .+.+|||+|    
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l-~~~~~~---------~~~~~~~-------t~~~~~~~~~----~~~l~Dt~G~~~~   65 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVREL-TGKKVR---------VGKRPGV-------TRKPNHYDWG----DFILTDLPGFGFM   65 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-hCCCCc---------cCCCCce-------eeCceEEeec----ceEEEeCCccccc
Confidence            34579999999999999999998 222222         1111222       2222223333    479999999    


Q ss_pred             -------Ccccchhhhhccc----CceEEEEEEeCCCCCChhhHHHH------------HHHHHhhCCCCcEEEEEECcc
Q psy3450         134 -------QGRFCTIIRSYSR----GAQGILLVYDITNKWSFDGIDRW------------LKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       134 -------~e~~~~l~~~~~~----~ad~iIlV~Dvt~~~Sf~~l~~~------------l~~i~~~~~~iPiILVgNK~D  190 (432)
                             ++.++.++..|++    .++++++|+|.++...+.  ..|            +..+..  .++|+++|+||+|
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~--~~~p~iiv~NK~D  141 (201)
T PRK04213         66 SGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEII--ERWEGRGEIPIDVEMFDFLRE--LGIPPIVAVNKMD  141 (201)
T ss_pred             cccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccccccc--cccccCCCcHHHHHHHHHHHH--cCCCeEEEEECcc
Confidence                   5666666666654    357788888865432210  222            222222  4689999999999


Q ss_pred             CCCCcccCHHHHHHHHHhcCC---------cEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         191 LAFNRTVTTREAEMYAIKNQM---------AFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       191 L~~~r~v~~ee~~~~a~~~~~---------~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +.+.+   .+...++++.+++         +++++||++| ||+++|++|.+.+.
T Consensus       142 l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~  192 (201)
T PRK04213        142 KIKNR---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLH  192 (201)
T ss_pred             ccCcH---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhc
Confidence            96433   3445566666654         5899999999 99999999998763

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.82  E-value=2.9e-19  Score=158.30  Aligned_cols=148  Identities=21%  Similarity=0.192  Sum_probs=106.6

Q ss_pred             EeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch-----
Q psy3450          65 LVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT-----  139 (432)
Q Consensus        65 vvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~-----  139 (432)
                      ++|++|||||||++++ .+..+..         ...++     ++++.....+.+++  ..+.+|||||++.+..     
T Consensus         1 l~G~~~~GKssl~~~~-~~~~~~~---------~~~~~-----~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~   63 (158)
T cd01879           1 LVGNPNVGKTTLFNAL-TGARQKV---------GNWPG-----VTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDE   63 (158)
T ss_pred             CCCCCCCCHHHHHHHH-hcCcccc---------cCCCC-----cccccceEEEeeCC--eEEEEEECCCccccCCCChhH
Confidence            6899999999999998 2222211         01111     22355556666776  4689999999987654     


Q ss_pred             -hhhhccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         140 -IIRSYSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       140 -l~~~~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                       ++..++.  ++|++|+|+|+++++..   ..|...+...  ++|+++|+||+|+.+.+.+.. +...+++.++.+++++
T Consensus        64 ~~~~~~~~~~~~d~vi~v~d~~~~~~~---~~~~~~~~~~--~~~~iiv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~i  137 (158)
T cd01879          64 KVARDFLLGEKPDLIVNVVDATNLERN---LYLTLQLLEL--GLPVVVALNMIDEAEKRGIKI-DLDKLSELLGVPVVPT  137 (158)
T ss_pred             HHHHHHhcCCCCcEEEEEeeCCcchhH---HHHHHHHHHc--CCCEEEEEehhhhcccccchh-hHHHHHHhhCCCeEEE
Confidence             3455664  99999999999886543   3444444433  589999999999976544433 3456777788999999


Q ss_pred             cCCCCCCHHHHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i  235 (432)
                      ||++|.|++++|+.+.+.+
T Consensus       138 Sa~~~~~~~~l~~~l~~~~  156 (158)
T cd01879         138 SARKGEGIDELKDAIAELA  156 (158)
T ss_pred             EccCCCCHHHHHHHHHHHh
Confidence            9999999999999998764

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.81  E-value=7.8e-19  Score=182.53  Aligned_cols=219  Identities=22%  Similarity=0.200  Sum_probs=143.9

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..++|+++|.+|+|||||+|+|+..+....           ....|   ++.+.....+..++.  .+.+|||+|..+.
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~-----------~~~~g---tt~~~~~~~~~~~~~--~~~lvDT~G~~~~  234 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIV-----------SDIAG---TTRDSIDTPFERDGQ--KYTLIDTAGIRRK  234 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceee-----------cCCCC---ceEEEEEEEEEECCe--eEEEEECCCCCCC
Confidence            4579999999999999999999843332211           11112   223444444455554  4689999996432


Q ss_pred             chh----------h-hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH-HH
Q psy3450         138 CTI----------I-RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE-MY  205 (432)
Q Consensus       138 ~~l----------~-~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~-~~  205 (432)
                      ..+          . ..+++.+|++|+|+|+++..+.++.. ++..+.+  .+.|+++|+||+|+.++..  .++.. .+
T Consensus       235 ~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~--~~~~~ivv~NK~Dl~~~~~--~~~~~~~~  309 (435)
T PRK00093        235 GKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLR-IAGLALE--AGRALVIVVNKWDLVDEKT--MEEFKKEL  309 (435)
T ss_pred             cchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH--cCCcEEEEEECccCCCHHH--HHHHHHHH
Confidence            211          1 23678999999999999987776653 3344433  3579999999999963221  11221 22


Q ss_pred             HHh----cCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccC
Q psy3450         206 AIK----NQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSN  281 (432)
Q Consensus       206 a~~----~~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~  281 (432)
                      ...    ..++++++||++|.|++++|+.+.+..........                  +....+++............
T Consensus       310 ~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~~~~~~~~~~i~------------------t~~ln~~l~~~~~~~~~p~~  371 (435)
T PRK00093        310 RRRLPFLDYAPIVFISALTGQGVDKLLEAIDEAYENANRRIS------------------TSVLNRVLEEAVERHPPPLV  371 (435)
T ss_pred             HHhcccccCCCEEEEeCCCCCCHHHHHHHHHHHHHHHcCcCC------------------hHHHHHHHHHHHHcCCCCCC
Confidence            222    24699999999999999999999887654332211                  11122333333333333446


Q ss_pred             CCceeEEEEEEeeccccCCccccccccccccchhh
Q psy3450         282 KGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSV  316 (432)
Q Consensus       282 ~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (432)
                      .|+.+++||..|.. .-+|.+.+..|++..++.+-
T Consensus       372 ~~~~~k~~~~~q~~-~~pp~f~~~~n~~~~~~~~y  405 (435)
T PRK00093        372 KGRRLKIKYATQVG-TNPPTFVLFVNDPELLPFSY  405 (435)
T ss_pred             CCeeeeEEEEEcCC-CCCCEEEEEeCCcccCCHHH
Confidence            89999999999995 57999999999998777654

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.80  E-value=4.6e-19  Score=179.15  Aligned_cols=154  Identities=21%  Similarity=0.175  Sum_probs=109.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc--
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG--  135 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e--  135 (432)
                      +..++|+++|.+|||||||+|+|...+.+..               ....+|.++....+.+++. ..+.||||+|..  
T Consensus       187 ~~~~~ValvG~~NvGKSSLln~L~~~~~~v~---------------~~~~tT~d~~~~~i~~~~~-~~i~l~DT~G~~~~  250 (351)
T TIGR03156       187 ADVPTVALVGYTNAGKSTLFNALTGADVYAA---------------DQLFATLDPTTRRLDLPDG-GEVLLTDTVGFIRD  250 (351)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCceeec---------------cCCccccCCEEEEEEeCCC-ceEEEEecCccccc
Confidence            4568999999999999999999832211100               1112334666677777432 468999999972  


Q ss_pred             -------ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         136 -------RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       136 -------~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                             .|...+ ..++++|++|+|+|++++.+++++..|...+.... .+.|+++|+||+|+.+...     ..... 
T Consensus       251 l~~~lie~f~~tl-e~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~~~~-  323 (351)
T TIGR03156       251 LPHELVAAFRATL-EEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IERLE-  323 (351)
T ss_pred             CCHHHHHHHHHHH-HHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HHHHH-
Confidence                   222222 24789999999999999998888877776666543 4689999999999964322     11111 


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ....+++++||++|.|++++++.|.+.
T Consensus       324 ~~~~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       324 EGYPEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             hCCCCEEEEEccCCCCHHHHHHHHHhh
Confidence            223468999999999999999998764

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).

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.80  E-value=1e-18  Score=150.35  Aligned_cols=153  Identities=41%  Similarity=0.698  Sum_probs=113.7

Q ss_pred             EeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhhhc
Q psy3450          65 LVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSY  144 (432)
Q Consensus        65 vvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~  144 (432)
                      ++|++|+|||||++++.......         ....++.      +++........+....+.+||++|+..+......+
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~---------~~~~~t~------~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~   65 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVP---------EEYETTI------IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLY   65 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCC---------cccccch------hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHH
Confidence            68999999999999983222211         1111111      25555666666778899999999998888777888


Q ss_pred             ccCceEEEEEEeCCCCCChhhHHHH--HHHHHhhCCCCcEEEEEECccCCCCcccCHHH-HHHHHHhcCCcEEEEcCCCC
Q psy3450         145 SRGAQGILLVYDITNKWSFDGIDRW--LKEVEEHAPGVPKVLVGNRLHLAFNRTVTTRE-AEMYAIKNQMAFFEVSPLCD  221 (432)
Q Consensus       145 ~~~ad~iIlV~Dvt~~~Sf~~l~~~--l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee-~~~~a~~~~~~~~evSAktg  221 (432)
                      ++.+|++++|+|++++.++..+..|  .........+.|+++|+||+|+.......... ..........+++++|++++
T Consensus        66 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~  145 (157)
T cd00882          66 YRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTG  145 (157)
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCC
Confidence            9999999999999999999888777  22233344679999999999986543332222 33445556789999999999


Q ss_pred             CCHHHHHHHHH
Q psy3450         222 FNIRESFTELS  232 (432)
Q Consensus       222 ~nI~elf~~L~  232 (432)
                      .|+++++++|.
T Consensus       146 ~~i~~~~~~l~  156 (157)
T cd00882         146 ENVEELFEELA  156 (157)
T ss_pred             CChHHHHHHHh
Confidence            99999999985

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

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.80  E-value=3.3e-19  Score=165.26  Aligned_cols=158  Identities=16%  Similarity=0.159  Sum_probs=104.3

Q ss_pred             EEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCc---cccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESP---FCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~---~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +|+++|+++||||||+++|+.. +.|...+........   ...+.|     +.+..+...++.+.+.+.+|||||+++|
T Consensus         4 ~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g-----~t~~~~~~~~~~~~~~~~l~DtpG~~~~   78 (194)
T cd01891           4 NIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERG-----ITILAKNTAVTYKDTKINIVDTPGHADF   78 (194)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcc-----cccccceeEEEECCEEEEEEECCCcHHH
Confidence            7999999999999999998432 333322110000000   011112     2333334444555678999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc-cCHHHHHHHHH-------hc
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT-VTTREAEMYAI-------KN  209 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~-v~~ee~~~~a~-------~~  209 (432)
                      ..++..+++++|++++|||+++.. +.....|+..+..  .++|+++|+||+|+...+. ...+++.++..       +.
T Consensus        79 ~~~~~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (194)
T cd01891          79 GGEVERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE--LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQL  155 (194)
T ss_pred             HHHHHHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH--cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccC
Confidence            999999999999999999998752 3444455555443  3689999999999964332 12334444442       23


Q ss_pred             CCcEEEEcCCCCCCHHHH
Q psy3450         210 QMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       210 ~~~~~evSAktg~nI~el  227 (432)
                      +++++++||++|.|+.+.
T Consensus       156 ~~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         156 DFPVLYASAKNGWASLNL  173 (194)
T ss_pred             ccCEEEeehhcccccccc
Confidence            678999999999887433

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.80  E-value=2.3e-18  Score=189.12  Aligned_cols=243  Identities=16%  Similarity=0.116  Sum_probs=148.7

Q ss_pred             EEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCcc
Q psy3450          20 LLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPF   99 (432)
Q Consensus        20 ~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~   99 (432)
                      .+...+|.|...++......++.  ....   ......+..+||+++|++|||||||+|+|...+...           .
T Consensus       415 ~iSA~~g~GI~eLl~~i~~~l~~--~~~~---~~a~~~~~~~kI~ivG~~nvGKSSLin~l~~~~~~~-----------v  478 (712)
T PRK09518        415 PISAMHGRGVGDLLDEALDSLKV--AEKT---SGFLTPSGLRRVALVGRPNVGKSSLLNQLTHEERAV-----------V  478 (712)
T ss_pred             EEECCCCCCchHHHHHHHHhccc--cccc---ccccCCCCCcEEEEECCCCCCHHHHHHHHhCccccc-----------c
Confidence            34566666665555554443322  0000   000012345899999999999999999983322110           0


Q ss_pred             ccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc----------cchhh-hhcccCceEEEEEEeCCCCCChhhHHH
Q psy3450         100 CSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR----------FCTII-RSYSRGAQGILLVYDITNKWSFDGIDR  168 (432)
Q Consensus       100 ~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~----------~~~l~-~~~~~~ad~iIlV~Dvt~~~Sf~~l~~  168 (432)
                      ....|   +|.+.....+.+++..  +.+|||+|..+          |..+. ..+++.+|++|+|+|+++..+++++. 
T Consensus       479 ~~~~g---tT~d~~~~~~~~~~~~--~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~-  552 (712)
T PRK09518        479 NDLAG---TTRDPVDEIVEIDGED--WLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLK-  552 (712)
T ss_pred             CCCCC---CCcCcceeEEEECCCE--EEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHH-
Confidence            01111   2235555566677765  56999999642          22221 23468999999999999998888765 


Q ss_pred             HHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH-Hhc----CCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcc
Q psy3450         169 WLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA-IKN----QMAFFEVSPLCDFNIRESFTELSRRALQRNGMER  243 (432)
Q Consensus       169 ~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a-~~~----~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~  243 (432)
                      ++..+..  .+.|++||+||+|+.++..  .+..++.. ..+    ..+++++||++|.|++++|+.+.+.+.+......
T Consensus       553 i~~~~~~--~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~~~~~i~  628 (712)
T PRK09518        553 VMSMAVD--AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALESWDQRIP  628 (712)
T ss_pred             HHHHHHH--cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcccCC
Confidence            4444443  3589999999999964321  12222212 121    3477999999999999999999998754332111


Q ss_pred             cccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCceeEEEEEEeeccccCCccccccc
Q psy3450         244 LWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKN  307 (432)
Q Consensus       244 ~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y~~~~~~~~~~~~~~~~~~  307 (432)
                                        +...-++++...........+|+..++||.+|. ..-||.+-++.|
T Consensus       629 ------------------T~~Ln~~l~~~~~~~~~p~~~g~~~ki~y~~q~-~~~Pp~f~~f~~  673 (712)
T PRK09518        629 ------------------TGKLNAFLGKIQAEHPHPLRGGKQPRILFATQA-STRPPRFVIFTT  673 (712)
T ss_pred             ------------------hHHHHHHHHHHHhhCCCCccCCeeeeEEEEECC-CCCCCEEEEEcC
Confidence                              222334444433333344478999999999888 456666665544

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.80  E-value=9.7e-19  Score=156.71  Aligned_cols=156  Identities=13%  Similarity=0.103  Sum_probs=103.1

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCCcccchh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      .|+++|++|+|||||+++| ....+...         ...+.     +.+.....+..+ +....+.+|||+|++.|..+
T Consensus         2 ~i~iiG~~~~GKtsli~~l-~~~~~~~~---------~~~~~-----t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~   66 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKI-RKTNVAAG---------EAGGI-----TQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNM   66 (168)
T ss_pred             EEEEEecCCCCHHHHHHHH-Hhcccccc---------cCCCe-----EEeeccEEEecccCCcceEEEEeCCCcHHHHHH
Confidence            4899999999999999998 33333211         00011     112222233333 23567899999999999888


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC-HHHHHHHHH----h--cCCcE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT-TREAEMYAI----K--NQMAF  213 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~-~ee~~~~a~----~--~~~~~  213 (432)
                      +..++..+|++++|+|+++....+. ...+..+..  .++|+++|+||+|+....... .++...+..    .  ..+++
T Consensus        67 ~~~~~~~~d~il~v~d~~~~~~~~~-~~~~~~~~~--~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  143 (168)
T cd01887          67 RARGASLTDIAILVVAADDGVMPQT-IEAIKLAKA--ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQI  143 (168)
T ss_pred             HHHHHhhcCEEEEEEECCCCccHHH-HHHHHHHHH--cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcE
Confidence            8888999999999999988543222 222233333  458999999999986432111 111111111    1  13589


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHH
Q psy3450         214 FEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i  235 (432)
                      +++||++|.|+++++++|.+..
T Consensus       144 ~~~Sa~~~~gi~~l~~~l~~~~  165 (168)
T cd01887         144 VPTSAKTGEGIDDLLEAILLLA  165 (168)
T ss_pred             EEeecccCCCHHHHHHHHHHhh
Confidence            9999999999999999998765

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.

>KOG1673|consensus

Probab=99.80  E-value=2.9e-19  Score=155.75  Aligned_cols=167  Identities=20%  Similarity=0.428  Sum_probs=138.9

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ..-.+||-++|++.+|||||+-.+ ++         +..+..+..+.|     +.+..+++.+.+..+.+.|||.+|+++
T Consensus        17 n~Vslkv~llGD~qiGKTs~mvkY-V~---------~~~de~~~q~~G-----vN~mdkt~~i~~t~IsfSIwdlgG~~~   81 (205)
T KOG1673|consen   17 NLVSLKVGLLGDAQIGKTSLMVKY-VQ---------NEYDEEYTQTLG-----VNFMDKTVSIRGTDISFSIWDLGGQRE   81 (205)
T ss_pred             cceEEEEEeecccccCceeeehhh-hc---------chhHHHHHHHhC-----ccceeeEEEecceEEEEEEEecCCcHh
Confidence            345689999999999999999996 33         333334444555     689999999999999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCC-----cccCHHHHHHHHHhcCC
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFN-----RTVTTREAEMYAIKNQM  211 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~-----r~v~~ee~~~~a~~~~~  211 (432)
                      +..+.+....++-+++|+||++.++++..+.+|+.+.+..+...--|+||+|.|+--.     .+.-..+++.+|+.+++
T Consensus        82 ~~n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiPilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnA  161 (205)
T KOG1673|consen   82 FINMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIPILVGTKYDLFIDLPPELQETISRQARKYAKVMNA  161 (205)
T ss_pred             hhccCceeecCcEEEEEEEecCchHHHHHHHHHHHHHhccCCccceEEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999887754444788999996211     11112357788999999


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +.|.+|+..+.||+++|..+.-.+++-
T Consensus       162 sL~F~Sts~sINv~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  162 SLFFCSTSHSINVQKIFKIVLAKLFNL  188 (205)
T ss_pred             cEEEeeccccccHHHHHHHHHHHHhCC
Confidence            999999999999999999998888653

>KOG0096|consensus

Probab=99.80  E-value=1.5e-19  Score=162.50  Aligned_cols=171  Identities=22%  Similarity=0.469  Sum_probs=143.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+|++++|+.|.|||++++++          ..+.++..+.+++|     ++.......-+...+++..|||+|+|.+
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~----------ltgeFe~~y~at~G-----v~~~pl~f~tn~g~irf~~wdtagqEk~   72 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRH----------LTGEFEKTYPATLG-----VEVHPLLFDTNRGQIRFNVWDTAGQEKK   72 (216)
T ss_pred             cceEEEEEecCCcccccchhhhh----------hcccceecccCcce-----eEEeeeeeecccCcEEEEeeecccceee
Confidence            46789999999999999999998          77778887888887     5555555545555799999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ..+...||-.+.+.|++||++..-.+.++.+|...+.+.+.++||+++|||.|... +++. .....+-+..++.|+++|
T Consensus        73 gglrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~~NiPiv~cGNKvDi~~-r~~k-~k~v~~~rkknl~y~~iS  150 (216)
T KOG0096|consen   73 GGLRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVRENIPIVLCGNKVDIKA-RKVK-AKPVSFHRKKNLQYYEIS  150 (216)
T ss_pred             cccccccEEecceeEEEeeeeehhhhhcchHHHHHHHHHhcCCCeeeeccceeccc-cccc-cccceeeecccceeEEee
Confidence            99999999999999999999999999999999999999999999999999999753 3322 222334556778999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhcCCcccc
Q psy3450         218 PLCDFNIRESFTELSRRALQRNGMERLW  245 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~~~~~~~  245 (432)
                      |+.+.|.+.-|.++++.+......+-..
T Consensus       151 aksn~NfekPFl~LarKl~G~p~Lefva  178 (216)
T KOG0096|consen  151 AKSNYNFERPFLWLARKLTGDPSLEFVA  178 (216)
T ss_pred             cccccccccchHHHhhhhcCCCCeEEEe
Confidence            9999999999999999997766555443

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.80  E-value=9.8e-19  Score=178.85  Aligned_cols=189  Identities=13%  Similarity=0.074  Sum_probs=131.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch--
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT--  139 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~--  139 (432)
                      .|.|||.||||||||+|++. +.+. ...          .   ...+|.....-.+..++ ...+.|+||||..+-..  
T Consensus       161 dValVG~PNaGKSTLln~Lt-~~k~-~vs----------~---~p~TT~~p~~Giv~~~~-~~~i~~vDtPGi~~~a~~~  224 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVS-AAKP-KVA----------D---YPFTTLVPNLGVVRVDD-ERSFVVADIPGLIEGASEG  224 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHh-CCcc-ccc----------C---CCCCccCcEEEEEEeCC-CcEEEEEeCCCccccccch
Confidence            69999999999999999982 2211 100          0   01122333333444433 23579999999753211  


Q ss_pred             --hh---hhcccCceEEEEEEeCC---CCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         140 --II---RSYSRGAQGILLVYDIT---NKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       140 --l~---~~~~~~ad~iIlV~Dvt---~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                        +.   ...++++|++++|+|++   +.+.++++..|+.++..+.   .+.|++||+||+|+.....+ .+....+.+.
T Consensus       225 ~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~  303 (390)
T PRK12298        225 AGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEA  303 (390)
T ss_pred             hhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHH
Confidence              11   13468899999999998   5567788888888887754   36899999999998643332 3344455555


Q ss_pred             cC--CcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCcee
Q psy3450         209 NQ--MAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHL  286 (432)
Q Consensus       209 ~~--~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~  286 (432)
                      .+  .+++.+||+++.|++++++.|.+.+.              ..+++++.+..++...+|+                 
T Consensus       304 ~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~--------------~~~~~~~~~~~td~~~~~~-----------------  352 (390)
T PRK12298        304 LGWEGPVYLISAASGLGVKELCWDLMTFIE--------------ENPREEAEEAEAPEKVEFM-----------------  352 (390)
T ss_pred             hCCCCCEEEEECCCCcCHHHHHHHHHHHhh--------------hCcccCCcccccCccHHHH-----------------
Confidence            44  47899999999999999999998872              2345567777777777777                 


Q ss_pred             EEEEEEeeccccCCccccc
Q psy3450         287 LTYFQYCFAGLVRPSVDVN  305 (432)
Q Consensus       287 ~~y~~~~~~~~~~~~~~~~  305 (432)
                             ++|+|||++...
T Consensus       353 -------~~EiiRE~~~~~  364 (390)
T PRK12298        353 -------WDDYHREQLEEV  364 (390)
T ss_pred             -------HHHHHHHHhhcc
Confidence                   788999998754

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.79  E-value=9.2e-19  Score=157.54  Aligned_cols=141  Identities=15%  Similarity=0.166  Sum_probs=100.2

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc----
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF----  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~----  137 (432)
                      ||+++|.+|||||||+|++. +. +.        .              ......+.+++.    .+|||||+...    
T Consensus         3 ~i~~iG~~~~GKstl~~~l~-~~-~~--------~--------------~~~~~~v~~~~~----~~iDtpG~~~~~~~~   54 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQ-GN-YT--------L--------------ARKTQAVEFNDK----GDIDTPGEYFSHPRW   54 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHc-CC-Cc--------c--------------CccceEEEECCC----CcccCCccccCCHHH
Confidence            79999999999999999972 11 10        0              001111222332    26999997322    


Q ss_pred             -chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC--cEE
Q psy3450         138 -CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM--AFF  214 (432)
Q Consensus       138 -~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~--~~~  214 (432)
                       ..+. ..++++|++|+|+|+++.+++.  ..|+..+   ..+.|+++++||+|+.+   ...+.+.+++++.++  +++
T Consensus        55 ~~~~~-~~~~~ad~il~v~d~~~~~s~~--~~~~~~~---~~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~  125 (158)
T PRK15467         55 YHALI-TTLQDVDMLIYVHGANDPESRL--PAGLLDI---GVSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIF  125 (158)
T ss_pred             HHHHH-HHHhcCCEEEEEEeCCCccccc--CHHHHhc---cCCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEE
Confidence             2222 3468999999999999988764  3455543   24579999999999854   345667777777775  899


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++||++|.|++++|+++.+.+.+..
T Consensus       126 ~~Sa~~g~gi~~l~~~l~~~~~~~~  150 (158)
T PRK15467        126 ELNSHDPQSVQQLVDYLASLTKQEE  150 (158)
T ss_pred             EEECCCccCHHHHHHHHHHhchhhh
Confidence            9999999999999999988875543

>KOG3883|consensus

Probab=99.79  E-value=2.6e-18  Score=149.45  Aligned_cols=170  Identities=26%  Similarity=0.374  Sum_probs=138.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCCccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~e~~  137 (432)
                      ...||+++|..+||||+||.++..++..+.        .+..++++      |.+...++.+ |..-++.|+||+|...+
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~--------~e~~pTiE------DiY~~svet~rgarE~l~lyDTaGlq~~   73 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPG--------TELHPTIE------DIYVASVETDRGAREQLRLYDTAGLQGG   73 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCC--------Cccccchh------hheeEeeecCCChhheEEEeecccccCc
Confidence            457999999999999999999855544432        23455664      6666666554 44667999999998777


Q ss_pred             -chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         138 -CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       138 -~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                       ..+-+.|+.-+|+++||||..|++||+.+..+-.+|.+..  ..+||++++||.|+.+++++..+-+..||+.-.+..+
T Consensus        74 ~~eLprhy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~  153 (198)
T KOG3883|consen   74 QQELPRHYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLW  153 (198)
T ss_pred             hhhhhHhHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEE
Confidence             5566789999999999999999999998765555555544  4699999999999999999999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcCCc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNGME  242 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~~~  242 (432)
                      |++|.+...+-|.|..++..+.+.....
T Consensus       154 eVta~dR~sL~epf~~l~~rl~~pqskS  181 (198)
T KOG3883|consen  154 EVTAMDRPSLYEPFTYLASRLHQPQSKS  181 (198)
T ss_pred             EEEeccchhhhhHHHHHHHhccCCcccc
Confidence            9999999999999999998886644433

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.78  E-value=2.8e-18  Score=171.96  Aligned_cols=157  Identities=15%  Similarity=0.150  Sum_probs=112.6

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCcc-ccccceeEEEEEECCeEEEEEEEeCCCCccc--
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY-DDMLAYKTTTILLDGKRVKLQLWDTSGQGRF--  137 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~-~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~--  137 (432)
                      ..|++||.+|||||||++++... +.               .++.| .+|.......+.+++ ..++.||||||..+.  
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~-~~---------------~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~  220 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAA-KP---------------KIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGAS  220 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcC-Cc---------------cccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCc
Confidence            46999999999999999998221 11               00110 122233334444544 356799999997532  


Q ss_pred             --chhhhhc---ccCceEEEEEEeCCCC---CChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         138 --CTIIRSY---SRGAQGILLVYDITNK---WSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       138 --~~l~~~~---~~~ad~iIlV~Dvt~~---~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                        ..+...|   +++++++|+|+|+++.   ++++++..|.+++..+.   .+.|++||+||+|+..... ..+..+.++
T Consensus       221 ~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~  299 (329)
T TIGR02729       221 EGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELK  299 (329)
T ss_pred             ccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHH
Confidence              2344444   4579999999999987   67888888988887654   4689999999999965432 234455666


Q ss_pred             HhcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         207 IKNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       207 ~~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +..+.+++++||+++.||+++++++.+.+
T Consensus       300 ~~~~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       300 KALGKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             HHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            67778999999999999999999998765

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.78  E-value=1.3e-18  Score=156.80  Aligned_cols=154  Identities=17%  Similarity=0.163  Sum_probs=103.9

Q ss_pred             EeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc----cchh
Q psy3450          65 LVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR----FCTI  140 (432)
Q Consensus        65 vvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~----~~~l  140 (432)
                      ++|++|||||||++++. +..+..   .     .+   .   .+|.+.....+.+++ ...+.+|||||..+    ...+
T Consensus         1 iiG~~~~GKStll~~l~-~~~~~~---~-----~~---~---~~t~~~~~~~~~~~~-~~~~~i~DtpG~~~~~~~~~~~   64 (176)
T cd01881           1 LVGLPNVGKSTLLNALT-NAKPKV---A-----NY---P---FTTLEPNLGVVEVPD-GARIQVADIPGLIEGASEGRGL   64 (176)
T ss_pred             CCCCCCCcHHHHHHHHh-cCCccc---c-----CC---C---ceeecCcceEEEcCC-CCeEEEEeccccchhhhcCCCc
Confidence            58999999999999982 222100   0     00   0   011122222333441 34579999999732    2222


Q ss_pred             h---hhcccCceEEEEEEeCCCC------CChhhHHHHHHHHHhhC--------CCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         141 I---RSYSRGAQGILLVYDITNK------WSFDGIDRWLKEVEEHA--------PGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       141 ~---~~~~~~ad~iIlV~Dvt~~------~Sf~~l~~~l~~i~~~~--------~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      .   ..+++++|++++|+|+++.      .+++++..|..++....        .+.|+++|+||+|+...+........
T Consensus        65 ~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~  144 (176)
T cd01881          65 GNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVR  144 (176)
T ss_pred             cHHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHH
Confidence            2   2346789999999999988      57888888888876543        36899999999999654443333223


Q ss_pred             HHHHhcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         204 MYAIKNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       204 ~~a~~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ......+..++++||+++.|++++++++.+.
T Consensus       145 ~~~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         145 ELALEEGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             HHhcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            3444456789999999999999999998764

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.78  E-value=3.4e-18  Score=177.61  Aligned_cols=155  Identities=19%  Similarity=0.256  Sum_probs=114.7

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+|+|.... ...          .....|   +|.++....+.+++.  .+.+|||+|+.+
T Consensus       200 ~~~g~kVvIvG~~nvGKSSLiN~L~~~~-~ai----------vs~~pg---tTrd~~~~~i~~~g~--~v~l~DTaG~~~  263 (442)
T TIGR00450       200 LDDGFKLAIVGSPNVGKSSLLNALLKQD-RAI----------VSDIKG---TTRDVVEGDFELNGI--LIKLLDTAGIRE  263 (442)
T ss_pred             hhcCCEEEEECCCCCcHHHHHHHHhCCC-Ccc----------cCCCCC---cEEEEEEEEEEECCE--EEEEeeCCCccc
Confidence            3456899999999999999999983221 110          001112   334666777778774  468999999865


Q ss_pred             cchh--------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         137 FCTI--------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       137 ~~~l--------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                      +...        ...+++++|++|+|||++++.++++.  |+..+..  .+.|+++|+||+|+...      +...+++.
T Consensus       264 ~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~--~~~piIlV~NK~Dl~~~------~~~~~~~~  333 (442)
T TIGR00450       264 HADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF--LIIDLNK--SKKPFILVLNKIDLKIN------SLEFFVSS  333 (442)
T ss_pred             chhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH--HHHHHhh--CCCCEEEEEECccCCCc------chhhhhhh
Confidence            5432        23578999999999999999888765  7776653  35899999999999542      22345667


Q ss_pred             cCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         209 NQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       209 ~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++.+++++||++ .||+++|+.|.+.+.+.
T Consensus       334 ~~~~~~~vSak~-~gI~~~~~~L~~~i~~~  362 (442)
T TIGR00450       334 KVLNSSNLSAKQ-LKIKALVDLLTQKINAF  362 (442)
T ss_pred             cCCceEEEEEec-CCHHHHHHHHHHHHHHH
Confidence            778999999998 69999999999988654

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.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.78  E-value=8.9e-19  Score=148.81  Aligned_cols=116  Identities=32%  Similarity=0.599  Sum_probs=86.1

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+|+|++|||||||+++| .+..+...       .......+     ..+.............+.+||++|++.+...+
T Consensus         1 kI~V~G~~g~GKTsLi~~l-~~~~~~~~-------~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~   67 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRL-CGGEFPDN-------SVPEETSE-----ITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQH   67 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHH-HHSS---------------SSTT-----SCEEEEEEEETTEEEEEEEEEESSSHCHHCTS
T ss_pred             CEEEECcCCCCHHHHHHHH-hcCCCccc-------ccccccCC-----CcEEEEEEEecCCceEEEEEecCccceecccc
Confidence            7999999999999999998 33333200       00001111     13444456667777779999999999888877


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhH---HHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGI---DRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l---~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      ..++.++|++|+|||+++++||+.+   ..|+..+....+++|++|||||.|
T Consensus        68 ~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   68 QFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             HHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             cchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            7789999999999999999999987   446777776667899999999998

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.78  E-value=7.4e-18  Score=148.53  Aligned_cols=147  Identities=18%  Similarity=0.198  Sum_probs=103.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|+|||||++++. +..+...          ....   .++.++....+..++  ..+.+|||+|..++...
T Consensus         2 ~~i~l~G~~~~GKstli~~l~-~~~~~~~----------~~~~---~~~~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~   65 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALA-GRDRAIV----------SDIA---GTTRDVIEESIDIGG--IPVRLIDTAGIRETEDE   65 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHH-CCceEec----------cCCC---CCccceEEEEEEeCC--EEEEEEECCCcCCCcch
Confidence            589999999999999999973 2221100          0001   112244444455554  56799999998655321


Q ss_pred             --------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         141 --------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       141 --------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                              ...++..+|++++|+|++++.+..+...|..     ..+.|+++|+||+|+.+....       .....+.+
T Consensus        66 ~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~-----~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~  133 (157)
T cd04164          66 IEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL-----PADKPIIVVLNKSDLLPDSEL-------LSLLAGKP  133 (157)
T ss_pred             HHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh-----hcCCCEEEEEEchhcCCcccc-------ccccCCCc
Confidence                    2245679999999999999888777654433     346899999999998654332       23445679


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++++||+++.|+++++++|.+.+
T Consensus       134 ~~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         134 IIAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhh
Confidence            99999999999999999988754

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.

>KOG0070|consensus

Probab=99.78  E-value=1.5e-18  Score=156.29  Aligned_cols=158  Identities=17%  Similarity=0.274  Sum_probs=125.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ....+|+++|-.++||||++.+|          ..++...+ .|++       .+...++.+.  .+.+.+||.+||+++
T Consensus        15 ~~e~~IlmlGLD~AGKTTILykL----------k~~E~vtt-vPTi-------GfnVE~v~yk--n~~f~vWDvGGq~k~   74 (181)
T KOG0070|consen   15 KKEMRILMVGLDAAGKTTILYKL----------KLGEIVTT-VPTI-------GFNVETVEYK--NISFTVWDVGGQEKL   74 (181)
T ss_pred             cceEEEEEEeccCCCceeeeEee----------ccCCcccC-CCcc-------ccceeEEEEc--ceEEEEEecCCCccc
Confidence            44689999999999999999998          33333333 5666       4666666666  478999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh-----cC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-----NQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-----~~  210 (432)
                      +.+|+.|+++.+++|||+|.+|++.+.+.++-+..+....  .+.|+++.+||.|++.  ..+..++.+....     ..
T Consensus        75 R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~--als~~ei~~~L~l~~l~~~~  152 (181)
T KOG0070|consen   75 RPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPG--ALSAAEITNKLGLHSLRSRN  152 (181)
T ss_pred             ccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccc--cCCHHHHHhHhhhhccCCCC
Confidence            9999999999999999999999999999877666665554  4799999999999964  3444444433322     23


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ..+..|+|.+|+|+.|.++++...+..
T Consensus       153 w~iq~~~a~~G~GL~egl~wl~~~~~~  179 (181)
T KOG0070|consen  153 WHIQSTCAISGEGLYEGLDWLSNNLKK  179 (181)
T ss_pred             cEEeeccccccccHHHHHHHHHHHHhc
Confidence            467889999999999999999998854

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.77  E-value=3.1e-18  Score=178.55  Aligned_cols=150  Identities=23%  Similarity=0.206  Sum_probs=110.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|.+|||||||+|+|...+...           .....|   +|.++....+.+++.  .+.+|||+|.+++.
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~-----------v~~~~g---tT~d~~~~~i~~~g~--~i~l~DT~G~~~~~  277 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAI-----------VTDIAG---TTRDVIEEHINLDGI--PLRLIDTAGIRETD  277 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcc-----------cCCCCC---cccccEEEEEEECCe--EEEEEeCCCCCCCc
Confidence            34799999999999999999983222110           011111   334666777777774  57999999987654


Q ss_pred             hh--------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         139 TI--------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       139 ~l--------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      ..        ...+++++|++|+|||++++.++++...|..     ..+.|+++|+||+|+.......        ...+
T Consensus       278 ~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~-----~~~~piiiV~NK~DL~~~~~~~--------~~~~  344 (449)
T PRK05291        278 DEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE-----LKDKPVIVVLNKADLTGEIDLE--------EENG  344 (449)
T ss_pred             cHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh-----cCCCCcEEEEEhhhccccchhh--------hccC
Confidence            32        2246789999999999999988886655543     3468999999999996433221        3345


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .+++++||++|.|+++++++|.+.+..
T Consensus       345 ~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        345 KPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             CceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence            689999999999999999999988743

>PRK11058 GTPase HflX; Provisional

Probab=99.77  E-value=7.6e-18  Score=174.19  Aligned_cols=158  Identities=18%  Similarity=0.146  Sum_probs=107.1

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc--
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF--  137 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~--  137 (432)
                      ..+|+++|.+|||||||+|+|...+.+...               ...+|++.....+.+.+. ..+.+|||+|..+.  
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~---------------~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp  260 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAAD---------------QLFATLDPTLRRIDVADV-GETVLADTVGFIRHLP  260 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeecc---------------CCCCCcCCceEEEEeCCC-CeEEEEecCcccccCC
Confidence            368999999999999999998322211100               011234555556666553 25689999998432  


Q ss_pred             chhhh------hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         138 CTIIR------SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       138 ~~l~~------~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      ..++.      ..++++|++|+|+|++++.+++++..|...+.... .++|+++|+||+|+.....   ....  ....+
T Consensus       261 ~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~~--~~~~~  335 (426)
T PRK11058        261 HDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRID--RDEEN  335 (426)
T ss_pred             HHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHHH--HHhcC
Confidence            22222      23688999999999999988888765555444433 4689999999999854211   1111  11234


Q ss_pred             Cc-EEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 MA-FFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~-~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      .+ ++++||++|.|+++++++|.+.+...
T Consensus       336 ~~~~v~ISAktG~GIdeL~e~I~~~l~~~  364 (426)
T PRK11058        336 KPIRVWLSAQTGAGIPLLFQALTERLSGE  364 (426)
T ss_pred             CCceEEEeCCCCCCHHHHHHHHHHHhhhc
Confidence            44 58999999999999999999988543

>cd01894 EngA1 EngA1 subfamily

Probab=99.76  E-value=9.7e-18  Score=147.97  Aligned_cols=147  Identities=16%  Similarity=0.042  Sum_probs=98.4

Q ss_pred             EEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch----
Q psy3450          64 LLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT----  139 (432)
Q Consensus        64 vvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~----  139 (432)
                      +++|.+|||||||+++++......        ..   ...   ..+.+........++  ..+.+|||||.+.+..    
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~--------~~---~~~---~~t~~~~~~~~~~~~--~~~~i~DtpG~~~~~~~~~~   64 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAI--------VE---DTP---GVTRDRIYGEAEWGG--REFILIDTGGIEPDDEGISK   64 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEe--------ec---CCC---CceeCceeEEEEECC--eEEEEEECCCCCCchhHHHH
Confidence            489999999999999983221110        00   000   111233444444555  5689999999987544    


Q ss_pred             ----hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-cEE
Q psy3450         140 ----IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-AFF  214 (432)
Q Consensus       140 ----l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~~~  214 (432)
                          ....+++++|++++|+|..+..+..+. .+...++..  +.|+++|+||+|+......     .......+. +++
T Consensus        65 ~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~-~~~~~~~~~--~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~  136 (157)
T cd01894          65 EIREQAELAIEEADVILFVVDGREGLTPADE-EIAKYLRKS--KKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPI  136 (157)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeccccCCccHH-HHHHHHHhc--CCCEEEEEECcccCChHHH-----HHHHHhcCCCCeE
Confidence                233567889999999999876555432 222333332  4899999999999653322     223334565 889


Q ss_pred             EEcCCCCCCHHHHHHHHHHH
Q psy3450         215 EVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~  234 (432)
                      ++||++|.|++++|+++++.
T Consensus       137 ~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         137 PISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             EEecccCCCHHHHHHHHHhh
Confidence            99999999999999999875

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.

>KOG0075|consensus

Probab=99.76  E-value=1.4e-18  Score=150.22  Aligned_cols=155  Identities=21%  Similarity=0.363  Sum_probs=118.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+.+.++|-.++|||||+|..          ..+++.....|+.|       |...  .++...+.+.+||.+||.+|+.
T Consensus        20 emel~lvGLq~sGKtt~Vn~i----------a~g~~~edmiptvG-------fnmr--k~tkgnvtiklwD~gGq~rfrs   80 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVI----------ARGQYLEDMIPTVG-------FNMR--KVTKGNVTIKLWDLGGQPRFRS   80 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEE----------eeccchhhhccccc-------ceeE--EeccCceEEEEEecCCCccHHH
Confidence            478999999999999999987          44455555666665       3333  3455678899999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHH-----HHhcCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMY-----AIKNQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~-----a~~~~~~  212 (432)
                      +|..|+++++++++|+|+.+++.+...+.-+..+....  .++|++++|||.|+.+  ....++...-     .....+.
T Consensus        81 mWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~--AL~~~~li~rmgL~sitdREvc  158 (186)
T KOG0075|consen   81 MWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPG--ALSKIALIERMGLSSITDREVC  158 (186)
T ss_pred             HHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcc--cccHHHHHHHhCccccccceEE
Confidence            99999999999999999999988877755444443332  5799999999999853  2333322111     1122356


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +|.+|++...||+-+.+||+++-
T Consensus       159 C~siScke~~Nid~~~~Wli~hs  181 (186)
T KOG0075|consen  159 CFSISCKEKVNIDITLDWLIEHS  181 (186)
T ss_pred             EEEEEEcCCccHHHHHHHHHHHh
Confidence            89999999999999999999875

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.76  E-value=7.5e-18  Score=153.46  Aligned_cols=163  Identities=15%  Similarity=0.117  Sum_probs=107.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCC-------cCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSS-------ESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~-------~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +|+++|.+|+|||||+|.|... ...........       ......+     .+++.....+...  ...+.||||||+
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~--~~~~~liDtpG~   72 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYV-TGDIERDGTVEETFLDVLKEERERG-----ITIKSGVATFEWP--DRRVNFIDTPGH   72 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHh-cCCCCcCCceecccccCCHHHHHcC-----CCeecceEEEeeC--CEEEEEEeCCCc
Confidence            4899999999999999998332 22211000000       0000000     1122222233333  467899999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc--cCHHHHHHHHHh----
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT--VTTREAEMYAIK----  208 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~--v~~ee~~~~a~~----  208 (432)
                      ..+...+..+++.+|++++|+|+++..+... ..++..+..  .+.|+++|+||+|+..+..  ...+++.+..+.    
T Consensus        73 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~--~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  149 (189)
T cd00881          73 EDFSSEVIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE--GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFI  149 (189)
T ss_pred             HHHHHHHHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH--CCCCeEEEEECCCCcchhcHHHHHHHHHHHHcccccc
Confidence            9888888889999999999999988765443 344444444  4689999999999964221  112333333333    


Q ss_pred             ----------cCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         209 ----------NQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       209 ----------~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                                ...+++++||++|.|++++|+++.+.+
T Consensus       150 ~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         150 STKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             chhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence                      246899999999999999999998876

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.75  E-value=2.1e-17  Score=177.41  Aligned_cols=166  Identities=16%  Similarity=0.167  Sum_probs=116.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCC-CCcccccCCCCc----CccccCCCccccccceeEEEEEE---CCeEEEEEEEeC
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLES-RFPRFWLDGSSE----SPFCSGSGKYDDMLAYKTTTILL---DGKRVKLQLWDT  131 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~-~~~~~~~~~~~~----~~~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~Dt  131 (432)
                      .-+|+++|+.++|||||+++|.... .+..........    .....++     ++......+.+   ++..++++||||
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGi-----Ti~~~~v~~~~~~~~g~~~~l~liDT   77 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGI-----TIKAQAVRLNYKAKDGETYVLNLIDT   77 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCC-----CeeeeEEEEEEEcCCCCEEEEEEEEC
Confidence            3479999999999999999984321 111000000000    0011122     12222222333   567799999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                      ||+++|...+..+++.+|++|+|||+++..+++....|...+.   .++|+++|+||+|+....  ..+...++.+.+++
T Consensus        78 PG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~---~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~  152 (595)
T TIGR01393        78 PGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE---NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGL  152 (595)
T ss_pred             CCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH---cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCC
Confidence            9999999889999999999999999999888887777765543   358999999999985422  12233455555565


Q ss_pred             ---cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         212 ---AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       212 ---~~~evSAktg~nI~elf~~L~~~i  235 (432)
                         .++++||++|.||+++|++|++.+
T Consensus       153 ~~~~vi~vSAktG~GI~~Lle~I~~~l  179 (595)
T TIGR01393       153 DASEAILASAKTGIGIEEILEAIVKRV  179 (595)
T ss_pred             CcceEEEeeccCCCCHHHHHHHHHHhC
Confidence               489999999999999999999876

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.

>cd01889 SelB_euk SelB subfamily

Probab=99.75  E-value=1.1e-17  Score=154.70  Aligned_cols=165  Identities=15%  Similarity=0.101  Sum_probs=100.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE------------CCeEEEEEE
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL------------DGKRVKLQL  128 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i------------~~~~v~l~i  128 (432)
                      ++|+++|++|+|||||+++|........  .+... .....+     .|++.....+.+            +++.+.+.+
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~--~~~~~-~e~~~g-----~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   72 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAA--FDKNP-QSQERG-----ITLDLGFSSFYVDKPKHLRELINPGEENLQITL   72 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhh--hccCH-HHHHcC-----CeeeecceEEEecccccccccccccccCceEEE
Confidence            5899999999999999999832110000  00000 000011     112222222222            234678999


Q ss_pred             EeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc--ccCHHHHHHHH
Q psy3450         129 WDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR--TVTTREAEMYA  206 (432)
Q Consensus       129 ~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r--~v~~ee~~~~a  206 (432)
                      |||||+..+..........+|++++|+|+++.........|..  ... .+.|+++|+||+|+....  +...++..+..
T Consensus        73 ~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~--~~~-~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l  149 (192)
T cd01889          73 VDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVI--GEI-LCKKLIVVLNKIDLIPEEERERKIEKMKKKL  149 (192)
T ss_pred             EECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHH--HHH-cCCCEEEEEECcccCCHHHHHHHHHHHHHHH
Confidence            9999986543322233467899999999988655444333321  122 257999999999986322  12223333221


Q ss_pred             H-------hcCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         207 I-------KNQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       207 ~-------~~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      .       ..+++++++||++|.|+++++++|..++.
T Consensus       150 ~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         150 QKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             HHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence            1       13578999999999999999999998873

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.75  E-value=2.2e-17  Score=173.51  Aligned_cols=156  Identities=17%  Similarity=0.194  Sum_probs=106.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc--
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR--  136 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~--  136 (432)
                      ...+|+|+|++|||||||+|+| .+..+..          .....|   .|.+.....+.+++.  .+.+|||+|++.  
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl-~~~~~~~----------v~~~~g---vT~d~~~~~~~~~~~--~~~l~DT~G~~~~~  100 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRI-LGRREAV----------VEDVPG---VTRDRVSYDAEWNGR--RFTVVDTGGWEPDA  100 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHH-hCcCccc----------ccCCCC---CCEeeEEEEEEECCc--EEEEEeCCCcCCcc
Confidence            3469999999999999999998 3322211          111112   123444455566664  478999999863  


Q ss_pred             ------cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         137 ------FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       137 ------~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                            +......+++.+|++|+|||+++..++.. ..|...++.  .++|+++|+||+|+...   ..+..+.+....+
T Consensus       101 ~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~--~~~piilV~NK~Dl~~~---~~~~~~~~~~g~~  174 (472)
T PRK03003        101 KGLQASVAEQAEVAMRTADAVLFVVDATVGATATD-EAVARVLRR--SGKPVILAANKVDDERG---EADAAALWSLGLG  174 (472)
T ss_pred             hhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH--cCCCEEEEEECccCCcc---chhhHHHHhcCCC
Confidence                  23334567899999999999999877653 345555543  45899999999998532   1122222222223


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                       ..+++||++|.|++++|+++++.+.+
T Consensus       175 -~~~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        175 -EPHPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             -CeEEEEcCCCCCcHHHHHHHHhhccc
Confidence             45799999999999999999988754

>cd01895 EngA2 EngA2 subfamily

Probab=99.74  E-value=8.8e-17  Score=143.64  Aligned_cols=156  Identities=22%  Similarity=0.214  Sum_probs=101.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .++|+++|++|+|||||++++..........           ..   .++.+.....+..++..  +.+|||+|..+...
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~-----------~~---~~~~~~~~~~~~~~~~~--~~iiDtpG~~~~~~   65 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSD-----------IA---GTTRDSIDVPFEYDGKK--YTLIDTAGIRRKGK   65 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccC-----------CC---CCccCceeeEEEECCee--EEEEECCCCccccc
Confidence            4789999999999999999983322111100           00   11123333445555544  68999999754311


Q ss_pred             ----------h-hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH-HHH
Q psy3450         140 ----------I-IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM-YAI  207 (432)
Q Consensus       140 ----------l-~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~-~a~  207 (432)
                                . ....++.+|++++|+|++++.+.... .++..+..  .+.|+++|+||+|+.+.+....++..+ +.+
T Consensus        66 ~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~~~~--~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~  142 (174)
T cd01895          66 VEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDL-RIAGLILE--EGKALVIVVNKWDLVEKDSKTMKEFKKEIRR  142 (174)
T ss_pred             hhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHH-HHHHHHHh--cCCCEEEEEeccccCCccHHHHHHHHHHHHh
Confidence                      1 11346789999999999998876654 33333333  358999999999996543222333222 223


Q ss_pred             hc----CCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         208 KN----QMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       208 ~~----~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ..    +.+++++||+++.|++++++.+.+.
T Consensus       143 ~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         143 KLPFLDYAPIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             hcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence            33    3689999999999999999998764

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.

>KOG4423|consensus

Probab=99.74  E-value=1.8e-19  Score=161.42  Aligned_cols=168  Identities=27%  Similarity=0.491  Sum_probs=140.8

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe-EEEEEEEeCCCCc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK-RVKLQLWDTSGQG  135 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~-~v~l~i~Dt~G~e  135 (432)
                      .++++|+.|+|+-+||||+++.++          ....+...+..++|     +++..+....+++ .+++++||.+||+
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ry----------v~~nfs~~yRAtIg-----vdfalkVl~wdd~t~vRlqLwdIagQe   86 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRY----------VHQNFSYHYRATIG-----VDFALKVLQWDDKTIVRLQLWDIAGQE   86 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHH----------HHHHHHHHHHHHHh-----HHHHHHHhccChHHHHHHHHhcchhhh
Confidence            578999999999999999999997          44455556667777     6777777777665 5789999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCCcccC-HHHHHHHHHhc
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVT-TREAEMYAIKN  209 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~r~v~-~ee~~~~a~~~  209 (432)
                      +|..|..-||+.+.+..+|||+++..+|+...+|.+++....     ..+|+++..||+|....-... .....++.+++
T Consensus        87 rfg~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~ken  166 (229)
T KOG4423|consen   87 RFGNMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKEN  166 (229)
T ss_pred             hhcceEEEEecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhcc
Confidence            999999999999999999999999999999999999886543     247899999999985432221 34566788888


Q ss_pred             CC-cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         210 QM-AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       210 ~~-~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      |+ .++|+|+|.+.|++|+-..|++.++-+.
T Consensus       167 gf~gwtets~Kenkni~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  167 GFEGWTETSAKENKNIPEAQRELVEKILVND  197 (229)
T ss_pred             CccceeeeccccccChhHHHHHHHHHHHhhc
Confidence            87 8999999999999999999999987654

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.72  E-value=2.2e-16  Score=162.70  Aligned_cols=156  Identities=17%  Similarity=0.160  Sum_probs=111.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCc-cccccceeEEEEEECCeEEEEEEEeCCCCcc----
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGK-YDDMLAYKTTTILLDGKRVKLQLWDTSGQGR----  136 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~-~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~----  136 (432)
                      .|+++|.|||||||||+++.. .+.               .++. ..+|.....-.+.+++ ...+.+||+||..+    
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~-ak~---------------kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~PGliega~~  222 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSN-AKP---------------KIANYHFTTLVPNLGVVETDD-GRSFVMADIPGLIEGASE  222 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHc-CCC---------------ccccCCcceeceEEEEEEEeC-CceEEEEECCCCcccccc
Confidence            799999999999999999822 111               0110 0122233333344431 34689999999743    


Q ss_pred             cchhhhhc---ccCceEEEEEEeCCCC---CChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         137 FCTIIRSY---SRGAQGILLVYDITNK---WSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       137 ~~~l~~~~---~~~ad~iIlV~Dvt~~---~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                      ...+...|   +++++++|+|+|+++.   ++++++..|..++..+.   .+.|++||+||+|+..    ..+..+.+.+
T Consensus       223 ~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~----~~e~l~~l~~  298 (424)
T PRK12297        223 GVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE----AEENLEEFKE  298 (424)
T ss_pred             cchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC----CHHHHHHHHH
Confidence            22344444   4569999999999865   67888888888888765   3689999999999843    2344566777


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ..+.+++++||+++.|+++++++|.+.+.+.
T Consensus       299 ~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        299 KLGPKVFPISALTGQGLDELLYAVAELLEET  329 (424)
T ss_pred             HhCCcEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            7778899999999999999999999887553

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.72  E-value=1.1e-16  Score=147.65  Aligned_cols=159  Identities=17%  Similarity=0.192  Sum_probs=101.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC--
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ--  134 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~--  134 (432)
                      .+..++|+++|++|||||||++++ .+..+         ...+.+..|.+   ...  .....   ..++.||||||.  
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l-~~~~~---------~~~~~~~~~~t---~~~--~~~~~---~~~l~l~DtpG~~~   82 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINAL-TNRKN---------LARTSKTPGRT---QLI--NFFEV---NDKLRLVDLPGYGY   82 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHH-hCCCC---------cccccCCCCce---eEE--EEEec---CCeEEEeCCCCCCC
Confidence            346789999999999999999998 22221         11122233211   111  11111   257899999994  


Q ss_pred             --------cccchhhhhcccC---ceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc--cCHHH
Q psy3450         135 --------GRFCTIIRSYSRG---AQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT--VTTRE  201 (432)
Q Consensus       135 --------e~~~~l~~~~~~~---ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~--v~~ee  201 (432)
                              +++..+...+++.   .+++++|+|.+++.+..+. .+...+..  .++|+++|+||+|+....+  ...++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~~--~~~~~iiv~nK~Dl~~~~~~~~~~~~  159 (196)
T PRK00454         83 AKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLKE--YGIPVLIVLTKADKLKKGERKKQLKK  159 (196)
T ss_pred             cCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHHH--cCCcEEEEEECcccCCHHHHHHHHHH
Confidence                    3344444555554   4688899998876544331 12222222  3589999999999864322  22233


Q ss_pred             HHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         202 AEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       202 ~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +.........+++++||+++.|++++++.|.+.+.
T Consensus       160 i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        160 VRKALKFGDDEVILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             HHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence            44444444679999999999999999999987763

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.72  E-value=6.1e-17  Score=145.03  Aligned_cols=148  Identities=22%  Similarity=0.261  Sum_probs=100.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc--
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC--  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~--  138 (432)
                      ++|+++|.||||||||+|+|.......            ....|   +|++.....+.+++  ..+.++|+||.....  
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v------------~n~pG---~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~   63 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKV------------GNWPG---TTVEKKEGIFKLGD--QQVELVDLPGIYSLSSK   63 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEE------------EESTT---SSSEEEEEEEEETT--EEEEEEE----SSSSSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCcee------------cCCCC---CCeeeeeEEEEecC--ceEEEEECCCcccCCCC
Confidence            689999999999999999983322111            11112   34677777777777  457999999964332  


Q ss_pred             ----hhhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         139 ----TIIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       139 ----~l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                          .+...++  .+.|++|+|.|+++.   +.-..+..++.+.  ++|+++|.||+|+..++.+.. +...+.+.++++
T Consensus        64 s~ee~v~~~~l~~~~~D~ii~VvDa~~l---~r~l~l~~ql~e~--g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~p  137 (156)
T PF02421_consen   64 SEEERVARDYLLSEKPDLIIVVVDATNL---ERNLYLTLQLLEL--GIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVP  137 (156)
T ss_dssp             SHHHHHHHHHHHHTSSSEEEEEEEGGGH---HHHHHHHHHHHHT--TSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-
T ss_pred             CcHHHHHHHHHhhcCCCEEEEECCCCCH---HHHHHHHHHHHHc--CCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCC
Confidence                2233444  689999999999874   3223344455544  489999999999865444332 356778889999


Q ss_pred             EEEEcCCCCCCHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTEL  231 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L  231 (432)
                      ++.+||+++.|++++++.|
T Consensus       138 vi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  138 VIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             EEEEBTTTTBTHHHHHHHH
T ss_pred             EEEEEeCCCcCHHHHHhhC
Confidence            9999999999999999875

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 ....

>cd04163 Era Era subfamily

Probab=99.71  E-value=2.3e-16  Score=139.46  Aligned_cols=156  Identities=19%  Similarity=0.178  Sum_probs=100.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      ..+|+++|.+|+|||||++++ .+..+.....          ...   ++.... ..+ .......+.+|||+|......
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l-~~~~~~~~~~----------~~~---~~~~~~-~~~-~~~~~~~~~liDtpG~~~~~~   66 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNAL-VGQKISIVSP----------KPQ---TTRNRI-RGI-YTDDDAQIIFVDTPGIHKPKK   66 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHH-hCCceEeccC----------CCC---ceeceE-EEE-EEcCCeEEEEEECCCCCcchH
Confidence            468999999999999999997 3332211100          000   000111 111 223346789999999764332


Q ss_pred             --------hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC-
Q psy3450         140 --------IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-  210 (432)
Q Consensus       140 --------l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-  210 (432)
                              .....+..+|++++|+|++++.+. ....+...+...  +.|+++|+||+|+........+....+....+ 
T Consensus        67 ~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~-~~~~~~~~~~~~--~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~  143 (168)
T cd04163          67 KLGERMVKAAWSALKDVDLVLFVVDASEPIGE-GDEFILELLKKS--KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPF  143 (168)
T ss_pred             HHHHHHHHHHHHHHHhCCEEEEEEECCCccCc-hHHHHHHHHHHh--CCCEEEEEEchhccccHHHHHHHHHHHHhccCC
Confidence                    223457889999999999987221 123334444433  47999999999996433333333444555453 


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      .+++++|++++.|++++++.|.+.
T Consensus       144 ~~~~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         144 AEIFPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             CceEEEEeccCCChHHHHHHHHhh
Confidence            689999999999999999999764

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.70  E-value=2.6e-16  Score=164.35  Aligned_cols=161  Identities=17%  Similarity=0.099  Sum_probs=110.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCc-cccccceeEEEEEECCeEEEEEEEeCCCCcc--
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGK-YDDMLAYKTTTILLDGKRVKLQLWDTSGQGR--  136 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~-~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~--  136 (432)
                      ..+|+|||.||||||||+|+|.. .+.               .++. ..+|++.....+.+++  .++.||||||..+  
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~-akp---------------kIadypfTTl~P~lGvv~~~~--~~f~laDtPGliega  220 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSA-AKP---------------KIADYPFTTLVPNLGVVQAGD--TRFTVADVPGLIPGA  220 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhc-CCc---------------cccccCcccccceEEEEEECC--eEEEEEECCCCcccc
Confidence            35799999999999999999821 111               1111 1233455555555655  5689999999632  


Q ss_pred             --cchhhh---hcccCceEEEEEEeCCCC----CChhhHHHHHHHHHhhC------------CCCcEEEEEECccCCCCc
Q psy3450         137 --FCTIIR---SYSRGAQGILLVYDITNK----WSFDGIDRWLKEVEEHA------------PGVPKVLVGNRLHLAFNR  195 (432)
Q Consensus       137 --~~~l~~---~~~~~ad~iIlV~Dvt~~----~Sf~~l~~~l~~i~~~~------------~~iPiILVgNK~DL~~~r  195 (432)
                        ...+..   .+++++|++|+|+|+++.    +.++++..|..++..+.            .+.|+|||+||+|+.+.+
T Consensus       221 s~g~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~  300 (500)
T PRK12296        221 SEGKGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAR  300 (500)
T ss_pred             chhhHHHHHHHHHHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhH
Confidence              122222   245789999999999863    45666666666665442            358999999999996543


Q ss_pred             ccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         196 TVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      .+ .+.........+++++++||+++.|+++++++|.+.+...+
T Consensus       301 el-~e~l~~~l~~~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~r  343 (500)
T PRK12296        301 EL-AEFVRPELEARGWPVFEVSAASREGLRELSFALAELVEEAR  343 (500)
T ss_pred             HH-HHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence            32 22223334455789999999999999999999999886543

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.69  E-value=2.6e-16  Score=143.98  Aligned_cols=147  Identities=18%  Similarity=0.253  Sum_probs=92.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc--
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG--  135 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e--  135 (432)
                      +..++|+++|++|+|||||+|++. +..+         .....++.|.   |.+.  ..+..++   .+.+|||||..  
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~-~~~~---------~~~~~~~~~~---t~~~--~~~~~~~---~~~liDtpG~~~~   77 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALT-NRKK---------LARTSKTPGR---TQLI--NFFEVND---GFRLVDLPGYGYA   77 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHh-CCCC---------cccccCCCCc---ceEE--EEEEeCC---cEEEEeCCCCccc
Confidence            566899999999999999999982 2221         1111222321   1111  1122232   58999999953  


Q ss_pred             --------ccchhhhhccc---CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc--ccCHHHH
Q psy3450         136 --------RFCTIIRSYSR---GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR--TVTTREA  202 (432)
Q Consensus       136 --------~~~~l~~~~~~---~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r--~v~~ee~  202 (432)
                              .+..+...|++   .++++++|+|.+++.+..+. .++..+..  .++|+++|+||+|+....  +...+++
T Consensus        78 ~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~--~~~pviiv~nK~D~~~~~~~~~~~~~i  154 (179)
T TIGR03598        78 KVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE--RGIPVLIVLTKADKLKKSELNKQLKKI  154 (179)
T ss_pred             cCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH--cCCCEEEEEECcccCCHHHHHHHHHHH
Confidence                    23334445554   35899999999887655554 23344433  258999999999986432  2223445


Q ss_pred             HHHHHhcC--CcEEEEcCCCCCCHH
Q psy3450         203 EMYAIKNQ--MAFFEVSPLCDFNIR  225 (432)
Q Consensus       203 ~~~a~~~~--~~~~evSAktg~nI~  225 (432)
                      ++..+..+  ..++++||++|+|++
T Consensus       155 ~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       155 KKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             HHHHhhccCCCceEEEECCCCCCCC
Confidence            55555543  489999999999974

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.69  E-value=4e-16  Score=162.27  Aligned_cols=148  Identities=18%  Similarity=0.147  Sum_probs=101.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc----
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR----  136 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~----  136 (432)
                      .+|+++|.+|||||||+|+| .+.+....          ....|   .+.+.....+.+++  ..+.+|||+|++.    
T Consensus         2 ~~I~ivG~~~vGKStL~n~l-~~~~~~~v----------~~~~~---~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~   65 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRL-TGKRDAIV----------ADTPG---VTRDRIYGEAEWLG--REFILIDTGGIEPDDDG   65 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHH-hCCCceee----------CCCCC---CcccceEEEEEECC--cEEEEEECCCCCCcchh
Confidence            58999999999999999997 33222100          01111   22355555666776  6789999999986    


Q ss_pred             ----cchhhhhcccCceEEEEEEeCCCCCChhh--HHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         137 ----FCTIIRSYSRGAQGILLVYDITNKWSFDG--IDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       137 ----~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~--l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                          +......+++.+|++|+|+|+++..+..+  +..|+..   .  +.|+++|+||+|+.+ .   .+...++ ...+
T Consensus        66 ~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~---~--~~piilv~NK~D~~~-~---~~~~~~~-~~lg  135 (435)
T PRK00093         66 FEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRK---S--NKPVILVVNKVDGPD-E---EADAYEF-YSLG  135 (435)
T ss_pred             HHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHH---c--CCcEEEEEECccCcc-c---hhhHHHH-HhcC
Confidence                22233456789999999999988654432  2344432   2  589999999999743 1   1222222 3456


Q ss_pred             C-cEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         211 M-AFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       211 ~-~~~evSAktg~nI~elf~~L~~~  234 (432)
                      + .++++||++|.|++++|+.+...
T Consensus       136 ~~~~~~iSa~~g~gv~~l~~~I~~~  160 (435)
T PRK00093        136 LGEPYPISAEHGRGIGDLLDAILEE  160 (435)
T ss_pred             CCCCEEEEeeCCCCHHHHHHHHHhh
Confidence            5 48999999999999999999874

>KOG1423|consensus

Probab=99.69  E-value=9.9e-17  Score=154.27  Aligned_cols=206  Identities=18%  Similarity=0.157  Sum_probs=136.6

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      .+....+.|+|||.||||||||.|.+ ++.+.........+++....++               +.....++.|+||||.
T Consensus        67 ~e~~k~L~vavIG~PNvGKStLtN~m-ig~kv~~vS~K~~TTr~~ilgi---------------~ts~eTQlvf~DTPGl  130 (379)
T KOG1423|consen   67 EEAQKSLYVAVIGAPNVGKSTLTNQM-IGQKVSAVSRKVHTTRHRILGI---------------ITSGETQLVFYDTPGL  130 (379)
T ss_pred             hhcceEEEEEEEcCCCcchhhhhhHh-hCCccccccccccceeeeeeEE---------------EecCceEEEEecCCcc
Confidence            44567899999999999999999997 5544433333322222211111               2334578999999995


Q ss_pred             cc------cchh------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH---
Q psy3450         135 GR------FCTI------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT---  199 (432)
Q Consensus       135 e~------~~~l------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~---  199 (432)
                      -.      +..+      -...+..||++++|+|+++....-. ...+..+..+ .++|-++|.||.|...++.+..   
T Consensus       131 vs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~~y-s~ips~lvmnkid~~k~k~~Ll~l~  208 (379)
T KOG1423|consen  131 VSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLEEY-SKIPSILVMNKIDKLKQKRLLLNLK  208 (379)
T ss_pred             cccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHHHH-hcCCceeeccchhcchhhhHHhhhH
Confidence            21      1111      1134578999999999997432222 2233333333 4589999999999854321111   


Q ss_pred             -------------HHHHHHHHhc---------CC----cEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCC
Q psy3450         200 -------------REAEMYAIKN---------QM----AFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRK  253 (432)
Q Consensus       200 -------------ee~~~~a~~~---------~~----~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~  253 (432)
                                   +-.+++...-         |.    .+|.+||++|+||+++-++|..++              +.+.
T Consensus       209 ~~Lt~g~l~~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa--------------~~gp  274 (379)
T KOG1423|consen  209 DLLTNGELAKLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQA--------------PPGP  274 (379)
T ss_pred             HhccccccchhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcC--------------CCCC
Confidence                         1111111111         11    489999999999999999999887              5566


Q ss_pred             CCcCCCCchhHHHHHHHhcccccccccCCCceeEEEEEEeeccccCCccccccccccccchhh
Q psy3450         254 PLINFESFTELSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSV  316 (432)
Q Consensus       254 ~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (432)
                      +.++.+..++.+.+++                        ..|++|+++.--+-+|.||..-+
T Consensus       275 W~y~a~i~T~~s~e~l------------------------~~e~VReklLd~~pqEVPY~lq~  313 (379)
T KOG1423|consen  275 WKYPADIVTEESPEFL------------------------CSESVREKLLDHLPQEVPYNLQV  313 (379)
T ss_pred             CCCCcccccccCHHHH------------------------HHHHHHHHHHhhCccccCcceEE
Confidence            6677777777777777                        56899999999999999998766

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.68  E-value=6.2e-16  Score=165.54  Aligned_cols=153  Identities=14%  Similarity=0.164  Sum_probs=104.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ...+|+++|+.++|||||+++| .+..+....         .+++     |.+.....+.+++.. .+.||||||++.|.
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l-~~~~v~~~e---------~~GI-----T~~ig~~~v~~~~~~-~i~~iDTPGhe~F~  149 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSI-RKTKVAQGE---------AGGI-----TQHIGAYHVENEDGK-MITFLDTPGHEAFT  149 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH-HhCCccccc---------CCce-----eecceEEEEEECCCc-EEEEEECCCCcchh
Confidence            3468999999999999999997 333332211         1111     123333445554432 67999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC--------
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ--------  210 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~--------  210 (432)
                      .++...+..+|++|+|||+++...-+.... +.....  .++|+++++||+|+...   ..++....+...+        
T Consensus       150 ~~r~rga~~aDiaILVVda~dgv~~qT~e~-i~~~~~--~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~  223 (587)
T TIGR00487       150 SMRARGAKVTDIVVLVVAADDGVMPQTIEA-ISHAKA--ANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGG  223 (587)
T ss_pred             hHHHhhhccCCEEEEEEECCCCCCHhHHHH-HHHHHH--cCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCC
Confidence            999889999999999999987533222222 222222  46899999999998532   2333333333222        


Q ss_pred             -CcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         211 -MAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       211 -~~~~evSAktg~nI~elf~~L~~  233 (432)
                       .+++++||++|.|++++|+++..
T Consensus       224 ~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       224 DTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             CceEEEEECCCCCChHHHHHhhhh
Confidence             47999999999999999999874

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.68  E-value=3.2e-16  Score=168.32  Aligned_cols=146  Identities=16%  Similarity=0.166  Sum_probs=105.2

Q ss_pred             CcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh------
Q psy3450          67 GDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI------  140 (432)
Q Consensus        67 G~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l------  140 (432)
                      |++|||||||+|++ .+..+         .....+     ..|++.....+.+++.  ++++|||||++++...      
T Consensus         1 G~pNvGKSSL~N~L-tg~~~---------~v~n~p-----G~Tv~~~~~~i~~~~~--~i~lvDtPG~~~~~~~s~~e~v   63 (591)
T TIGR00437         1 GNPNVGKSTLFNAL-TGANQ---------TVGNWP-----GVTVEKKEGKLGFQGE--DIEIVDLPGIYSLTTFSLEEEV   63 (591)
T ss_pred             CCCCCCHHHHHHHH-hCCCC---------eecCCC-----CeEEEEEEEEEEECCe--EEEEEECCCccccCccchHHHH
Confidence            89999999999998 22221         111111     1335666666777664  4699999999877543      


Q ss_pred             hhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         141 IRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       141 ~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      ...++  +++|++++|+|.++.+.   ...+..++.+  .++|+++|+||+|+.+++.+. .+.+.+.+..+++++++||
T Consensus        64 ~~~~l~~~~aDvvI~VvDat~ler---~l~l~~ql~~--~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA  137 (591)
T TIGR00437        64 ARDYLLNEKPDLVVNVVDASNLER---NLYLTLQLLE--LGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSA  137 (591)
T ss_pred             HHHHHhhcCCCEEEEEecCCcchh---hHHHHHHHHh--cCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEEC
Confidence            33443  47899999999987432   2333344433  368999999999996555544 4567788889999999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      ++|.|++++++.+.+..
T Consensus       138 ~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437       138 TEGRGIERLKDAIRKAI  154 (591)
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998764

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.

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.68  E-value=5.7e-16  Score=145.01  Aligned_cols=111  Identities=13%  Similarity=0.155  Sum_probs=76.7

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTRE  201 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~ee  201 (432)
                      .++.||||||+++|.......+..+|++++|+|++++.........+..+... ...|++||+||+|+..+...  ..++
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~-~~~~iiivvNK~Dl~~~~~~~~~~~~  161 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM-GLKHIIIVQNKIDLVKEEQALENYEQ  161 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc-CCCcEEEEEEchhccCHHHHHHHHHH
Confidence            57899999999988776666778899999999998742111111122222222 22479999999999643211  1233


Q ss_pred             HHHHHHhc---CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         202 AEMYAIKN---QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       202 ~~~~a~~~---~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++++.+..   +++++++||++|.|++++|++|.+.+
T Consensus       162 i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         162 IKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            44444432   56899999999999999999998766

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

>cd00880 Era_like Era (E

Probab=99.68  E-value=6.8e-16  Score=134.57  Aligned_cols=152  Identities=20%  Similarity=0.132  Sum_probs=99.5

Q ss_pred             EeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh----
Q psy3450          65 LVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI----  140 (432)
Q Consensus        65 vvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l----  140 (432)
                      ++|.+|+|||||+++++........           ...   ..+..........+. ...+.+|||+|...+...    
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~-----------~~~---~~~~~~~~~~~~~~~-~~~~~~~Dt~g~~~~~~~~~~~   65 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVS-----------PVP---GTTTDPVEYVWELGP-LGPVVLIDTPGIDEAGGLGRER   65 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccC-----------CCC---CcEECCeEEEEEecC-CCcEEEEECCCCCccccchhhH
Confidence            5899999999999998332211100           000   011122223333332 457899999998765433    


Q ss_pred             ---hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHH---HHHHHHHhcCCcEE
Q psy3450         141 ---IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTR---EAEMYAIKNQMAFF  214 (432)
Q Consensus       141 ---~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~e---e~~~~a~~~~~~~~  214 (432)
                         ...+++.+|++++|+|.++..+..... |......  .+.|+++|+||+|+.........   .........+.+++
T Consensus        66 ~~~~~~~~~~~d~il~v~~~~~~~~~~~~~-~~~~~~~--~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (163)
T cd00880          66 EELARRVLERADLILFVVDADLRADEEEEK-LLELLRE--RGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVI  142 (163)
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCCCCHHHHH-HHHHHHh--cCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceE
Confidence               334778999999999999987776654 3443333  46899999999998654322211   11122233457999


Q ss_pred             EEcCCCCCCHHHHHHHHHHH
Q psy3450         215 EVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~  234 (432)
                      ++||+++.|++++++++.+.
T Consensus       143 ~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         143 AVSALTGEGIDELREALIEA  162 (163)
T ss_pred             EEeeeccCCHHHHHHHHHhh
Confidence            99999999999999999865

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

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.67  E-value=8.5e-16  Score=165.26  Aligned_cols=168  Identities=17%  Similarity=0.174  Sum_probs=114.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCC----cCccccCCCccccccceeEEEEEE---CCeEEEEEEEe
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSS----ESPFCSGSGKYDDMLAYKTTTILL---DGKRVKLQLWD  130 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~----~~~~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~D  130 (432)
                      ..-+|+++|..++|||||+.+|... +.+.........    ......++     ++......+.+   +++.+.++|||
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGi-----Ti~~~~v~~~~~~~dg~~~~lnLiD   80 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGI-----TIKAQAVRLNYKAKDGETYILNLID   80 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCC-----cccccEEEEEEEccCCCcEEEEEEE
Confidence            3458999999999999999998331 222110000000    00011111     12222222322   56678999999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      |||+++|...+..+++.+|++|+|+|+++....+....|.....   .++|+++|+||+|+...+  ..+...++.+.++
T Consensus        81 TPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~---~~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg  155 (600)
T PRK05433         81 TPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE---NDLEIIPVLNKIDLPAAD--PERVKQEIEDVIG  155 (600)
T ss_pred             CCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH---CCCCEEEEEECCCCCccc--HHHHHHHHHHHhC
Confidence            99999999888999999999999999999877776666655432   358999999999985422  1222234444455


Q ss_pred             C---cEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         211 M---AFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       211 ~---~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +   .++++||++|.|+++++++|.+.+.
T Consensus       156 ~~~~~vi~iSAktG~GI~~Ll~~I~~~lp  184 (600)
T PRK05433        156 IDASDAVLVSAKTGIGIEEVLEAIVERIP  184 (600)
T ss_pred             CCcceEEEEecCCCCCHHHHHHHHHHhCc
Confidence            5   3899999999999999999998763

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.67  E-value=1e-15  Score=158.76  Aligned_cols=152  Identities=19%  Similarity=0.171  Sum_probs=103.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc------
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG------  135 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e------  135 (432)
                      ||+++|++|||||||+|+| .+.+...          .....|   .|.+.....+.+++.  .+.+|||||..      
T Consensus         1 ~i~ivG~~nvGKStL~n~l-~~~~~~~----------v~~~~g---~t~d~~~~~~~~~~~--~~~liDTpG~~~~~~~~   64 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRL-TGKRDAI----------VSDTPG---VTRDRKYGDAEWGGR--EFILIDTGGIEEDDDGL   64 (429)
T ss_pred             CEEEECCCCCCHHHHHHHH-hCCCcce----------ecCCCC---cccCceEEEEEECCe--EEEEEECCCCCCcchhH
Confidence            5899999999999999998 3222111          111112   123445555666664  47999999963      


Q ss_pred             --ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-c
Q psy3450         136 --RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-A  212 (432)
Q Consensus       136 --~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~  212 (432)
                        .+......+++.+|++++|+|..+..+..+ ..+...+++  .+.|+++|+||+|+......    ..+ ...+++ +
T Consensus        65 ~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d-~~i~~~l~~--~~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~  136 (429)
T TIGR03594        65 DKQIREQAEIAIEEADVILFVVDGREGLTPED-EEIAKWLRK--SGKPVILVANKIDGKKEDAV----AAE-FYSLGFGE  136 (429)
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHH-HHHHHHHHH--hCCCEEEEEECccCCccccc----HHH-HHhcCCCC
Confidence              333445567899999999999988654443 223333333  25899999999998653321    112 335666 7


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++||++|.|++++++++.+.+..
T Consensus       137 ~~~vSa~~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       137 PIPISAEHGRGIGDLLDAILELLPE  161 (429)
T ss_pred             eEEEeCCcCCChHHHHHHHHHhcCc
Confidence            9999999999999999999987744

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.

>KOG0076|consensus

Probab=99.66  E-value=1.1e-16  Score=142.31  Aligned_cols=165  Identities=23%  Similarity=0.350  Sum_probs=120.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+.|+|+|..++|||||+.+.  ...|...+ .+-....       ..+|+-....++.++  ...+.|||.+||+..++
T Consensus        17 ~y~vlIlgldnAGKttfLe~~--Kt~~~~~~-~~l~~~k-------i~~tvgLnig~i~v~--~~~l~fwdlgGQe~lrS   84 (197)
T KOG0076|consen   17 DYSVLILGLDNAGKTTFLEAL--KTDFSKAY-GGLNPSK-------ITPTVGLNIGTIEVC--NAPLSFWDLGGQESLRS   84 (197)
T ss_pred             hhhheeeccccCCchhHHHHH--HHHHHhhh-cCCCHHH-------eecccceeecceeec--cceeEEEEcCChHHHHH
Confidence            367999999999999999975  22222211 1111111       122234445556666  35689999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHH---HHhc---CC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMY---AIKN---QM  211 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~---a~~~---~~  211 (432)
                      +|..||..++++|+++|++|++-|++...-++.+...-  .++|+++.+||.|+.+.  ...+++...   ++..   ..
T Consensus        85 lw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~--~~~~El~~~~~~~e~~~~rd~  162 (197)
T KOG0076|consen   85 LWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNA--MEAAELDGVFGLAELIPRRDN  162 (197)
T ss_pred             HHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhh--hhHHHHHHHhhhhhhcCCccC
Confidence            99999999999999999999999998866666554332  68999999999998542  333333322   3332   36


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++..|||.+|+||+|-.+|+++.+.++
T Consensus       163 ~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  163 PFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             ccccchhhhcccHHHHHHHHHHHHhhc
Confidence            899999999999999999999988654

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.66  E-value=1.5e-15  Score=165.29  Aligned_cols=158  Identities=15%  Similarity=0.154  Sum_probs=107.2

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ...+|+|+|..++|||||+++| ....+...         ...++.   ..+..+...+..++....+.||||||++.|.
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L-~~~~~~~~---------e~~GiT---q~i~~~~v~~~~~~~~~kItfiDTPGhe~F~  309 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKI-RKTQIAQK---------EAGGIT---QKIGAYEVEFEYKDENQKIVFLDTPGHEAFS  309 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHH-HhccCccc---------cCCccc---cccceEEEEEEecCCceEEEEEECCcHHHHH
Confidence            4468999999999999999997 33333211         111110   0112223333444556889999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHH-------HHhcC-
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMY-------AIKNQ-  210 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~-------a~~~~-  210 (432)
                      .++..+++.+|++|||+|+++....+....| ..+..  .++|+|||+||+|+....   .++....       ...++ 
T Consensus       310 ~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I-~~~k~--~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~  383 (742)
T CHL00189        310 SMRSRGANVTDIAILIIAADDGVKPQTIEAI-NYIQA--ANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGG  383 (742)
T ss_pred             HHHHHHHHHCCEEEEEEECcCCCChhhHHHH-HHHHh--cCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCC
Confidence            9999999999999999999875333322222 22222  468999999999986421   2222221       22233 


Q ss_pred             -CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         211 -MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       211 -~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                       ++++++||++|.|++++|+.|....
T Consensus       384 ~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        384 DTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             CceEEEEECCCCCCHHHHHHhhhhhh
Confidence             6899999999999999999988754

>KOG0071|consensus

Probab=99.66  E-value=1.4e-15  Score=130.75  Aligned_cols=154  Identities=19%  Similarity=0.300  Sum_probs=119.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .++|+++|-.++||||++..|..+..           ....|+.       -|..+++.+.+  +++++||.+|+++.+.
T Consensus        17 E~~ilmlGLd~aGKTtiLyKLkl~~~-----------~~~ipTv-------GFnvetVtykN--~kfNvwdvGGqd~iRp   76 (180)
T KOG0071|consen   17 EMRILMLGLDAAGKTTILYKLKLGQS-----------VTTIPTV-------GFNVETVTYKN--VKFNVWDVGGQDKIRP   76 (180)
T ss_pred             cceEEEEecccCCceehhhHHhcCCC-----------ccccccc-------ceeEEEEEeee--eEEeeeeccCchhhhH
Confidence            68999999999999999999822221           1233444       46666666654  7789999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh-----cCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-----NQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-----~~~~  212 (432)
                      +|+.||.+..++|||.|..+.+..++.+.-+..+....  .+.|++|.+||.|+++.  ...+|+.++.+-     ...-
T Consensus        77 lWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A--~~pqei~d~leLe~~r~~~W~  154 (180)
T KOG0071|consen   77 LWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDA--MKPQEIQDKLELERIRDRNWY  154 (180)
T ss_pred             HHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccc--cCHHHHHHHhccccccCCccE
Confidence            99999999999999999999888887755444443332  57899999999999754  455666655432     2345


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ...++|.+|.++.|-|.+|...+
T Consensus       155 vqp~~a~~gdgL~eglswlsnn~  177 (180)
T KOG0071|consen  155 VQPSCALSGDGLKEGLSWLSNNL  177 (180)
T ss_pred             eeccccccchhHHHHHHHHHhhc
Confidence            77899999999999999998765

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.65  E-value=3.3e-15  Score=143.00  Aligned_cols=150  Identities=24%  Similarity=0.205  Sum_probs=98.6

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc---
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC---  138 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~---  138 (432)
                      +|+++|.+|+|||||+++|.........               ...+|.+.....+.+++  .++++|||||+.+..   
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~---------------~~~tT~~~~~g~~~~~~--~~i~l~DtpG~~~~~~~~   64 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAA---------------YEFTTLTCVPGVLEYKG--AKIQLLDLPGIIEGAADG   64 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccC---------------CCCccccceEEEEEECC--eEEEEEECCCcccccccc
Confidence            7899999999999999998222111000               01122234444555665  568999999975432   


Q ss_pred             -h---hhhhcccCceEEEEEEeCCCCCC-hhhHHHHHH------------------------------------------
Q psy3450         139 -T---IIRSYSRGAQGILLVYDITNKWS-FDGIDRWLK------------------------------------------  171 (432)
Q Consensus       139 -~---l~~~~~~~ad~iIlV~Dvt~~~S-f~~l~~~l~------------------------------------------  171 (432)
                       .   ....+++++|++++|+|+++++. .+.+...++                                          
T Consensus        65 ~~~~~~~l~~~~~ad~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~  144 (233)
T cd01896          65 KGRGRQVIAVARTADLILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAI  144 (233)
T ss_pred             hhHHHHHHHhhccCCEEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHH
Confidence             1   22346899999999999987652 222222221                                          


Q ss_pred             --HH----------------------HhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         172 --EV----------------------EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       172 --~i----------------------~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                        ++                      ......+|+++|+||+|+.     ..+++..+++.  ..++++||++|.|++++
T Consensus       145 l~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~-----~~~~~~~~~~~--~~~~~~SA~~g~gi~~l  217 (233)
T cd01896         145 LREYKIHNADVLIREDITVDDLIDVIEGNRVYIPCLYVYNKIDLI-----SIEELDLLARQ--PNSVVISAEKGLNLDEL  217 (233)
T ss_pred             HHHhCeeeEEEEEccCCCHHHHHHHHhCCceEeeEEEEEECccCC-----CHHHHHHHhcC--CCEEEEcCCCCCCHHHH
Confidence              11                      0011236999999999984     34555555543  36899999999999999


Q ss_pred             HHHHHHHH
Q psy3450         228 FTELSRRA  235 (432)
Q Consensus       228 f~~L~~~i  235 (432)
                      |+.+.+.+
T Consensus       218 ~~~i~~~L  225 (233)
T cd01896         218 KERIWDKL  225 (233)
T ss_pred             HHHHHHHh
Confidence            99999866

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.65  E-value=1.6e-15  Score=162.85  Aligned_cols=160  Identities=18%  Similarity=0.154  Sum_probs=110.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +.|+++|..++|||||+++|. +...      ..+...+..++     |++.....+..++  ..+.|||+||+++|...
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLt-g~~~------d~~~eE~~rGi-----Tid~~~~~~~~~~--~~v~~iDtPGhe~f~~~   66 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALT-GIAA------DRLPEEKKRGM-----TIDLGFAYFPLPD--YRLGFIDVPGHEKFISN   66 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHh-CccC------cCChhHhcCCc-----eEEeEEEEEEeCC--EEEEEEECCCHHHHHHH
Confidence            358999999999999999982 2110      01111111222     2455555566666  67899999999999877


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCccc--CHHHHHHHHHhc----CCcE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTV--TTREAEMYAIKN----QMAF  213 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v--~~ee~~~~a~~~----~~~~  213 (432)
                      ...++.++|++|+|+|+++....+ ..+.+..+..  .++| +++|+||+|+.++..+  ..+++.++++..    ++++
T Consensus        67 ~~~g~~~aD~aILVVDa~~G~~~q-T~ehl~il~~--lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~i  143 (581)
T TIGR00475        67 AIAGGGGIDAALLVVDADEGVMTQ-TGEHLAVLDL--LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKI  143 (581)
T ss_pred             HHhhhccCCEEEEEEECCCCCcHH-HHHHHHHHHH--cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcE
Confidence            778889999999999998842211 1222322332  2477 9999999999754322  234455555554    4789


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++||++|.|++++++.+...+..
T Consensus       144 i~vSA~tG~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       144 FKTSAKTGQGIGELKKELKNLLES  167 (581)
T ss_pred             EEEeCCCCCCchhHHHHHHHHHHh
Confidence            999999999999999998876643

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.64  E-value=4.1e-15  Score=163.63  Aligned_cols=153  Identities=18%  Similarity=0.174  Sum_probs=108.9

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .++|+++|.+|||||||+|++. +.+.         .  .....|   +|++.....+..  ...++.+|||||...+..
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Lt-g~~~---------~--vgn~pG---vTve~k~g~~~~--~~~~i~lvDtPG~ysl~~   65 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLT-GARQ---------R--VGNWAG---VTVERKEGQFST--TDHQVTLVDLPGTYSLTT   65 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHh-CCCC---------c--cCCCCC---ceEeeEEEEEEc--CceEEEEEECCCcccccc
Confidence            3689999999999999999982 2111         0  111122   233444444433  446689999999877643


Q ss_pred             h----------hhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         140 I----------IRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       140 l----------~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                      .          ...++  .++|++++|+|.++.+.   ...|..++.+.  ++|+++|.||+|+.+++.+ ..+.+++.+
T Consensus        66 ~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler---~l~l~~ql~e~--giPvIvVlNK~Dl~~~~~i-~id~~~L~~  139 (772)
T PRK09554         66 ISSQTSLDEQIACHYILSGDADLLINVVDASNLER---NLYLTLQLLEL--GIPCIVALNMLDIAEKQNI-RIDIDALSA  139 (772)
T ss_pred             ccccccHHHHHHHHHHhccCCCEEEEEecCCcchh---hHHHHHHHHHc--CCCEEEEEEchhhhhccCc-HHHHHHHHH
Confidence            2          22333  48999999999988643   23355555543  5899999999998755554 355677888


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .++++++++||++|.|++++++.+.+..
T Consensus       140 ~LG~pVvpiSA~~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        140 RLGCPVIPLVSTRGRGIEALKLAIDRHQ  167 (772)
T ss_pred             HhCCCEEEEEeecCCCHHHHHHHHHHhh
Confidence            8999999999999999999999988754

>KOG0074|consensus

Probab=99.64  E-value=1e-15  Score=131.70  Aligned_cols=156  Identities=21%  Similarity=0.319  Sum_probs=119.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||.++|-.++|||||+.+|           .+...+...++.       -|..+.+..++ .+++++||.+|+...
T Consensus        15 ~rEirilllGldnAGKTT~LKqL-----------~sED~~hltpT~-------GFn~k~v~~~g-~f~LnvwDiGGqr~I   75 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQL-----------KSEDPRHLTPTN-------GFNTKKVEYDG-TFHLNVWDIGGQRGI   75 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHH-----------ccCChhhccccC-------CcceEEEeecC-cEEEEEEecCCcccc
Confidence            45699999999999999999996           333344455666       47778887777 688999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHh-hC-CCCcEEEEEECccCCCCcccCHHHHHHHH-----HhcC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE-HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKNQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~-~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~~  210 (432)
                      +..|..||.+.|++|+|.|.+|..-|+++..-+-++.+ .. ..+|++|..||.|+....  ..++...-+     +...
T Consensus        76 RpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa--~~eeia~klnl~~lrdRs  153 (185)
T KOG0074|consen   76 RPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAA--KVEEIALKLNLAGLRDRS  153 (185)
T ss_pred             chhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhc--chHHHHHhcchhhhhhce
Confidence            99999999999999999999999999988554444443 32 579999999999985322  222221111     1122


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ..+-+|||.++.++.+-.+++...
T Consensus       154 whIq~csals~eg~~dg~~wv~sn  177 (185)
T KOG0074|consen  154 WHIQECSALSLEGSTDGSDWVQSN  177 (185)
T ss_pred             EEeeeCccccccCccCcchhhhcC
Confidence            468899999999999988888654

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.64  E-value=3.9e-15  Score=163.72  Aligned_cols=157  Identities=17%  Similarity=0.179  Sum_probs=103.1

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .....+|+++|++|||||||+|+| .+.+...          .....|.   |.+.......+++  ..+.+|||+|.+.
T Consensus       272 ~~~~~~V~IvG~~nvGKSSL~n~l-~~~~~~i----------v~~~pGv---T~d~~~~~~~~~~--~~~~liDT~G~~~  335 (712)
T PRK09518        272 PKAVGVVAIVGRPNVGKSTLVNRI-LGRREAV----------VEDTPGV---TRDRVSYDAEWAG--TDFKLVDTGGWEA  335 (712)
T ss_pred             cccCcEEEEECCCCCCHHHHHHHH-hCCCcee----------ecCCCCe---eEEEEEEEEEECC--EEEEEEeCCCcCC
Confidence            345578999999999999999998 3222211          1112221   1233333444555  4578999999763


Q ss_pred             --------cchhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         137 --------FCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       137 --------~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                              +......+++.+|++|+|+|+++..  ... ..|...++.  .+.|+++|+||+|+....   .+....+..
T Consensus       336 ~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~--~~~d~~i~~~Lr~--~~~pvIlV~NK~D~~~~~---~~~~~~~~l  408 (712)
T PRK09518        336 DVEGIDSAIASQAQIAVSLADAVVFVVDGQVGL--TSTDERIVRMLRR--AGKPVVLAVNKIDDQASE---YDAAEFWKL  408 (712)
T ss_pred             CCccHHHHHHHHHHHHHHhCCEEEEEEECCCCC--CHHHHHHHHHHHh--cCCCEEEEEECcccccch---hhHHHHHHc
Confidence                    2223345678999999999998643  233 345555554  468999999999985321   111222222


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ..+ ..+++||++|.||+++|++|++.+..
T Consensus       409 g~~-~~~~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        409 GLG-EPYPISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             CCC-CeEEEECCCCCCchHHHHHHHHhccc
Confidence            222 46799999999999999999998754

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.64  E-value=1.3e-15  Score=142.69  Aligned_cols=116  Identities=21%  Similarity=0.319  Sum_probs=83.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      +|+++|++|||||+|+++| ....+..         .+....      ...........+....+.+||+||+++++..+
T Consensus         2 ~vll~G~~~sGKTsL~~~l-~~~~~~~---------t~~s~~------~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~   65 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKL-TTGKYRS---------TVTSIE------PNVATFILNSEGKGKKFRLVDVPGHPKLRDKL   65 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHH-hcCCCCC---------ccCcEe------ecceEEEeecCCCCceEEEEECCCCHHHHHHH
Confidence            5899999999999999998 3333221         111111      01111111112345678999999999998888


Q ss_pred             hhcccCc-eEEEEEEeCCCC-CChhhHHHHHHHHHh----hCCCCcEEEEEECccCCC
Q psy3450         142 RSYSRGA-QGILLVYDITNK-WSFDGIDRWLKEVEE----HAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       142 ~~~~~~a-d~iIlV~Dvt~~-~Sf~~l~~~l~~i~~----~~~~iPiILVgNK~DL~~  193 (432)
                      ..+++.+ +++|+|+|.++. .++.++..|+..+..    ..+++|++||+||+|+..
T Consensus        66 ~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          66 LETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             HHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            8899998 999999999997 678887777665532    225799999999999854

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

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.63  E-value=2.9e-15  Score=155.51  Aligned_cols=169  Identities=12%  Similarity=0.061  Sum_probs=102.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccc----------cCCCCc------CccccCCCccccccceeEEEEEECC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFW----------LDGSSE------SPFCSGSGKYDDMLAYKTTTILLDG  121 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~----------~~~~~~------~~~~~~ig~~~~tid~~~~~i~i~~  121 (432)
                      ...++|+++|.+++|||||+++|+.........          ..+...      ....+..-....|++.....+..  
T Consensus         4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~--   81 (425)
T PRK12317          4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFET--   81 (425)
T ss_pred             CCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEec--
Confidence            356899999999999999999984322111000          000000      00000000112334554444444  


Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCcc----
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRT----  196 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~----  196 (432)
                      +.+++.||||||+++|.......++.+|++|+|+|+++..++... ..++..+... ...|+++|+||+|+.+...    
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~~~iivviNK~Dl~~~~~~~~~  160 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-GINQLIVAINKMDAVNYDEKRYE  160 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CCCeEEEEEEccccccccHHHHH
Confidence            456789999999988865444557899999999999874233222 2233333322 2246999999999964211    


Q ss_pred             cCHHHHHHHHHhcC-----CcEEEEcCCCCCCHHHHHH
Q psy3450         197 VTTREAEMYAIKNQ-----MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       197 v~~ee~~~~a~~~~-----~~~~evSAktg~nI~elf~  229 (432)
                      ...+++.++++..+     ++++++||++|.|+++.++
T Consensus       161 ~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        161 EVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             HHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence            12245555665554     4799999999999998653

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.62  E-value=4e-15  Score=154.50  Aligned_cols=169  Identities=11%  Similarity=0.055  Sum_probs=104.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcccc---------cCCCC--c----CccccCCCccccccceeEEEEEECC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW---------LDGSS--E----SPFCSGSGKYDDMLAYKTTTILLDG  121 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~---------~~~~~--~----~~~~~~ig~~~~tid~~~~~i~i~~  121 (432)
                      ...++|+++|..++|||||+++|+.. +.+....         ..+..  .    ....+.......|++.....+..  
T Consensus         5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~--   82 (426)
T TIGR00483         5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET--   82 (426)
T ss_pred             CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc--
Confidence            45689999999999999999998432 1111100         00000  0    00000000111234554444443  


Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhH--HHHHHHHHhhCCCCcEEEEEECccCCCCcc---
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI--DRWLKEVEEHAPGVPKVLVGNRLHLAFNRT---  196 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l--~~~l~~i~~~~~~iPiILVgNK~DL~~~r~---  196 (432)
                      ..+.+.||||||+++|.......++.+|++|+|+|+++.+++...  ..++. +.......|++||+||+|+.+..+   
T Consensus        83 ~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~-~~~~~~~~~iIVviNK~Dl~~~~~~~~  161 (426)
T TIGR00483        83 DKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAF-LARTLGINQLIVAINKMDSVNYDEEEF  161 (426)
T ss_pred             CCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHH-HHHHcCCCeEEEEEEChhccCccHHHH
Confidence            457789999999998866555667899999999999988644221  12222 222223357999999999963211   


Q ss_pred             -cCHHHHHHHHHhcC-----CcEEEEcCCCCCCHHHHHH
Q psy3450         197 -VTTREAEMYAIKNQ-----MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       197 -v~~ee~~~~a~~~~-----~~~~evSAktg~nI~elf~  229 (432)
                       ...+++.++++..+     ++++++||++|.|+++.+.
T Consensus       162 ~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~  200 (426)
T TIGR00483       162 EAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSE  200 (426)
T ss_pred             HHHHHHHHHHHHHcCCCcccceEEEeecccccccccccc
Confidence             12345666776665     5799999999999987553

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.62  E-value=8.4e-15  Score=160.68  Aligned_cols=153  Identities=16%  Similarity=0.172  Sum_probs=104.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ....|+|+|..++|||||+++| ....+....         ..++     |.+.....+.+++  ..+.||||||++.|.
T Consensus       289 R~pvV~ImGhvd~GKTSLl~~L-r~~~v~~~e---------~~GI-----T~~iga~~v~~~~--~~ItfiDTPGhe~F~  351 (787)
T PRK05306        289 RPPVVTIMGHVDHGKTSLLDAI-RKTNVAAGE---------AGGI-----TQHIGAYQVETNG--GKITFLDTPGHEAFT  351 (787)
T ss_pred             CCCEEEEECCCCCCHHHHHHHH-HhCCccccc---------cCce-----eeeccEEEEEECC--EEEEEEECCCCccch
Confidence            4468999999999999999997 333332110         0111     1122233445555  568999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH-------HHHHhcC-
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE-------MYAIKNQ-  210 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~-------~~a~~~~-  210 (432)
                      .++...++.+|++|||||+++...-+....| ..+..  .++|+|||+||+|+....   .+...       .+++.++ 
T Consensus       352 ~m~~rga~~aDiaILVVdAddGv~~qT~e~i-~~a~~--~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~  425 (787)
T PRK05306        352 AMRARGAQVTDIVVLVVAADDGVMPQTIEAI-NHAKA--AGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGG  425 (787)
T ss_pred             hHHHhhhhhCCEEEEEEECCCCCCHhHHHHH-HHHHh--cCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCC
Confidence            9998899999999999999875322222222 22222  468999999999995421   12111       1223333 


Q ss_pred             -CcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         211 -MAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       211 -~~~~evSAktg~nI~elf~~L~~~  234 (432)
                       ++++++||++|.||+++|++|...
T Consensus       426 ~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        426 DTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             CceEEEEeCCCCCCchHHHHhhhhh
Confidence             689999999999999999998753

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.62  E-value=4.1e-15  Score=131.88  Aligned_cols=150  Identities=19%  Similarity=0.279  Sum_probs=92.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc-----
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR-----  136 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~-----  136 (432)
                      +|+++|++|+|||||++.+ .++.         .........+.     ......+..++   .+.+|||+|...     
T Consensus         1 ~i~l~G~~g~GKTtL~~~l-~~~~---------~~~~~~~~~~~-----t~~~~~~~~~~---~~~~~D~~g~~~~~~~~   62 (170)
T cd01876           1 EIAFAGRSNVGKSSLINAL-TNRK---------KLARTSKTPGK-----TQLINFFNVND---KFRLVDLPGYGYAKVSK   62 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHH-hcCC---------ceeeecCCCCc-----ceeEEEEEccC---eEEEecCCCccccccCH
Confidence            4799999999999999998 2111         11112222221     11122223333   789999999432     


Q ss_pred             -----cchhhhhccc---CceEEEEEEeCCCCCChh--hHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHHHHHH
Q psy3450         137 -----FCTIIRSYSR---GAQGILLVYDITNKWSFD--GIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTREAEM  204 (432)
Q Consensus       137 -----~~~l~~~~~~---~ad~iIlV~Dvt~~~Sf~--~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~ee~~~  204 (432)
                           +......|+.   ..+++++++|.++..+..  .+.+|+...     +.|+++|+||+|+....+.  .......
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~-----~~~vi~v~nK~D~~~~~~~~~~~~~~~~  137 (170)
T cd01876          63 EVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL-----GIPFLVVLTKADKLKKSELAKALKEIKK  137 (170)
T ss_pred             HHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc-----CCCEEEEEEchhcCChHHHHHHHHHHHH
Confidence                 3344445554   457889999988764322  234444432     3799999999998532211  1122222


Q ss_pred             HHH--hcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         205 YAI--KNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       205 ~a~--~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ..+  ....+++++||+++.++++++++|.+.
T Consensus       138 ~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         138 ELKLFEIDPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             HHHhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence            232  234589999999999999999999875

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.62  E-value=3.4e-15  Score=140.23  Aligned_cols=162  Identities=16%  Similarity=0.064  Sum_probs=96.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCccccc----------------CCCCcCccccCCCccccccceeEEEEEECCeEEE
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWL----------------DGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVK  125 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~----------------~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~  125 (432)
                      +|+++|.+|+|||||+++|+..........                .........+.......|++.....+..++  .+
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~--~~   78 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPK--RK   78 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCC--ce
Confidence            589999999999999999843322211000                000000000000011123344444444444  46


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc----CHHH
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV----TTRE  201 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v----~~ee  201 (432)
                      +.||||||+++|.......++.+|++|+|+|+++...-+ ...+...+... ...++|+|+||+|+......    ..++
T Consensus        79 ~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~-~~~~~~~~~~~-~~~~iIvviNK~D~~~~~~~~~~~i~~~  156 (208)
T cd04166          79 FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQ-TRRHSYILSLL-GIRHVVVAVNKMDLVDYSEEVFEEIVAD  156 (208)
T ss_pred             EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHh-HHHHHHHHHHc-CCCcEEEEEEchhcccCCHHHHHHHHHH
Confidence            789999999888665566789999999999998764222 22222222222 22457889999998642211    1234


Q ss_pred             HHHHHHhcCC---cEEEEcCCCCCCHHHH
Q psy3450         202 AEMYAIKNQM---AFFEVSPLCDFNIRES  227 (432)
Q Consensus       202 ~~~~a~~~~~---~~~evSAktg~nI~el  227 (432)
                      ...+++.++.   +++++||++|.|+++.
T Consensus       157 ~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         157 YLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            4555566663   5899999999998743

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.61  E-value=1.3e-14  Score=147.59  Aligned_cols=156  Identities=18%  Similarity=0.207  Sum_probs=109.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ..-+|++++|.||||||||+|.|...++-.           .+.-.|   ||.|.....+.++|  +.+.+.||+|..+-
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~AI-----------VTdI~G---TTRDviee~i~i~G--~pv~l~DTAGiRet  278 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDRAI-----------VTDIAG---TTRDVIEEDINLNG--IPVRLVDTAGIRET  278 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCceE-----------ecCCCC---CccceEEEEEEECC--EEEEEEecCCcccC
Confidence            345899999999999999999984433332           223334   34477778888999  56799999998644


Q ss_pred             chhh--------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhc
Q psy3450         138 CTII--------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN  209 (432)
Q Consensus       138 ~~l~--------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~  209 (432)
                      ....        ...+++||.+++|+|.+.+.+-.+. ..+.   ....+.|+++|.||.||..+.....     .....
T Consensus       279 ~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~-~~~~---~~~~~~~~i~v~NK~DL~~~~~~~~-----~~~~~  349 (454)
T COG0486         279 DDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDL-ALIE---LLPKKKPIIVVLNKADLVSKIELES-----EKLAN  349 (454)
T ss_pred             ccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhH-HHHH---hcccCCCEEEEEechhcccccccch-----hhccC
Confidence            3322        2457899999999999986332222 1122   2335689999999999965433111     11122


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +.+++.+||++|.|++++.+.|.+.+...
T Consensus       350 ~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         350 GDAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             CCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence            34789999999999999999999888554

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.60  E-value=5.1e-15  Score=158.37  Aligned_cols=162  Identities=17%  Similarity=0.133  Sum_probs=99.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEE-------EEEECCeEEEEEEEeCCCC
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT-------TILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~-------~i~i~~~~v~l~i~Dt~G~  134 (432)
                      -|+++|++++|||||+++| .+..+.... .    ...+..+|.+.-..+....       ...++.....+.||||||+
T Consensus         6 iV~IiG~~d~GKTSLln~l-~~~~v~~~e-~----ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~   79 (590)
T TIGR00491         6 IVSVLGHVDHGKTTLLDKI-RGSAVAKRE-A----GGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGH   79 (590)
T ss_pred             EEEEECCCCCCHHHHHHHH-hcccccccc-C----CceecccCeeEeeeccccccccccccccccccccCcEEEEECCCc
Confidence            4899999999999999997 433332111 0    1112223311100010000       0111111124899999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCC---CChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc------------CH
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNK---WSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV------------TT  199 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~---~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v------------~~  199 (432)
                      +.|..++..+++.+|++|+|||+++.   .+++.+.    .++.  .++|+++|+||+|+......            ..
T Consensus        80 e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~----~l~~--~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~  153 (590)
T TIGR00491        80 EAFTNLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM--YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQE  153 (590)
T ss_pred             HhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH----HHHH--cCCCEEEEEECCCccchhhhccCchHHHHHHhhh
Confidence            99999999999999999999999974   4444332    2222  36899999999999532100            00


Q ss_pred             HH------------HHHHHH------------hc--CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         200 RE------------AEMYAI------------KN--QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       200 ee------------~~~~a~------------~~--~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +.            ...+++            .+  ..+++++||++|.|++++++++....
T Consensus       154 ~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       154 IQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence            00            001111            11  25899999999999999999887544

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.60  E-value=6.3e-15  Score=136.03  Aligned_cols=167  Identities=19%  Similarity=0.188  Sum_probs=106.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCccc----------ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEE
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRF----------WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQL  128 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~----------~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i  128 (432)
                      ...+|+++|..++|||||+.+|.........          ......+...       ..+++.....+..+.....+.|
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~-------~~ti~~~~~~~~~~~~~~~i~~   74 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERER-------GITIDLSFISFEKNENNRKITL   74 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHC-------TSSSSSEEEEEEBTESSEEEEE
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhc-------ccccccccccccccccccceee
Confidence            3578999999999999999998322211000          0000000011       1123444444441234467899


Q ss_pred             EeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc-cCHHHHH-HHH
Q psy3450         129 WDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT-VTTREAE-MYA  206 (432)
Q Consensus       129 ~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~-v~~ee~~-~~a  206 (432)
                      +||||+.+|.......++.+|++|+|+|+.+..... ..+.+..+...  ++|+++|.||+|+...+. ...++.. .+.
T Consensus        75 iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~-~~~~l~~~~~~--~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~  151 (188)
T PF00009_consen   75 IDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQ-TEEHLKILREL--GIPIIVVLNKMDLIEKELEEIIEEIKEKLL  151 (188)
T ss_dssp             EEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHH-HHHHHHHHHHT--T-SEEEEEETCTSSHHHHHHHHHHHHHHHH
T ss_pred             cccccccceeecccceecccccceeeeecccccccc-ccccccccccc--ccceEEeeeeccchhhhHHHHHHHHHHHhc
Confidence            999999998777777789999999999998764433 23444444443  478999999999862111 0111222 333


Q ss_pred             HhcC------CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         207 IKNQ------MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       207 ~~~~------~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +..+      ++++.+||++|.|++++++.|.+.+
T Consensus       152 ~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  152 KEYGENGEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             HHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             cccccCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence            3332      4799999999999999999998765

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 ....

>KOG0072|consensus

Probab=99.59  E-value=1.7e-15  Score=130.71  Aligned_cols=158  Identities=18%  Similarity=0.231  Sum_probs=113.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +...+++++|-.|+|||+++.++          .-+... ...|++|       +...++..  ++.++++||..|+...
T Consensus        16 e~e~rililgldGaGkttIlyrl----------qvgevv-ttkPtig-------fnve~v~y--KNLk~~vwdLggqtSi   75 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRL----------QVGEVV-TTKPTIG-------FNVETVPY--KNLKFQVWDLGGQTSI   75 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEc----------ccCccc-ccCCCCC-------cCcccccc--ccccceeeEccCcccc
Confidence            35679999999999999999987          222211 2345554       33343333  5688999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHH-----HHHHhcC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAE-----MYAIKNQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~-----~~a~~~~  210 (432)
                      +..|+.||.+.|++|+|+|.+|.+...-.. +++..+.+.. .+..+++++||.|... + ....|+.     .-.+..-
T Consensus        76 rPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~-~-~t~~E~~~~L~l~~Lk~r~  153 (182)
T KOG0072|consen   76 RPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSG-A-LTRSEVLKMLGLQKLKDRI  153 (182)
T ss_pred             cHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchh-h-hhHHHHHHHhChHHHhhhe
Confidence            999999999999999999999987655543 3333333322 4577899999999743 2 2222221     1122233


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +.+|++||.+|+|+++.++||.+.+..
T Consensus       154 ~~Iv~tSA~kg~Gld~~~DWL~~~l~~  180 (182)
T KOG0072|consen  154 WQIVKTSAVKGEGLDPAMDWLQRPLKS  180 (182)
T ss_pred             eEEEeeccccccCCcHHHHHHHHHHhc
Confidence            689999999999999999999998854

>cd04167 Snu114p Snu114p subfamily

Probab=99.58  E-value=1.6e-14  Score=136.02  Aligned_cols=123  Identities=20%  Similarity=0.264  Sum_probs=80.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccC---------CCCcCccccCCCccccccceeEEEEEE---CCeEEEEEEE
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLD---------GSSESPFCSGSGKYDDMLAYKTTTILL---DGKRVKLQLW  129 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~---------~~~~~~~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~  129 (432)
                      +|+++|..++|||||+++|...........+         .........++     ++......+.+   ++..+.+.+|
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~gi-----ti~~~~~~~~~~~~~~~~~~i~ii   76 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGI-----SIKSSPISLVLPDSKGKSYLFNII   76 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCc-----cccccceeEEEEcCCCCEEEEEEE
Confidence            5899999999999999998332211110000         00000000111     12222222222   3567899999


Q ss_pred             eCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         130 DTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       130 Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      ||||+++|......+++.+|++|+|+|+++..++.. ..|+..+..  .++|+++|+||+|+.
T Consensus        77 DtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~--~~~p~iiviNK~D~~  136 (213)
T cd04167          77 DTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL--EGLPIVLVINKIDRL  136 (213)
T ss_pred             ECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH--cCCCEEEEEECcccC
Confidence            999999998888888999999999999998776643 445554433  348999999999974

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.57  E-value=7.2e-14  Score=125.95  Aligned_cols=166  Identities=22%  Similarity=0.289  Sum_probs=118.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ...||+|+|+.++||||++.++ ................    +-+...+|+....-.+.+++ ...+.++|||||++|.
T Consensus         9 ~~~KIvv~G~~~agKtTfv~~~-s~k~~v~t~~~~~~~s----~k~kr~tTva~D~g~~~~~~-~~~v~LfgtPGq~RF~   82 (187)
T COG2229           9 IETKIVVIGPVGAGKTTFVRAL-SDKPLVITEADASSVS----GKGKRPTTVAMDFGSIELDE-DTGVHLFGTPGQERFK   82 (187)
T ss_pred             cceeEEEEcccccchhhHHHHh-hccccceeeccccccc----cccccceeEeecccceEEcC-cceEEEecCCCcHHHH
Confidence            4579999999999999999997 2222111101110100    01111233333333444444 3457999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhc--CCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN--QMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~--~~~~~ev  216 (432)
                      -+|..+.+++++.|+++|.+++..| +....++.+....+ +|++|+.||.||.+.  .+.+++.++.+..  ..+.+++
T Consensus        83 fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~~-ip~vVa~NK~DL~~a--~ppe~i~e~l~~~~~~~~vi~~  158 (187)
T COG2229          83 FMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRNP-IPVVVAINKQDLFDA--LPPEKIREALKLELLSVPVIEI  158 (187)
T ss_pred             HHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhccC-CCEEEEeeccccCCC--CCHHHHHHHHHhccCCCceeee
Confidence            9999999999999999999999988 55566666655544 999999999999653  4556666655544  7899999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELSRR  234 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~  234 (432)
                      +|..+.+..+.++.+...
T Consensus       159 ~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         159 DATEGEGARDQLDVLLLK  176 (187)
T ss_pred             ecccchhHHHHHHHHHhh
Confidence            999999999998888765

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.55  E-value=3.9e-14  Score=152.13  Aligned_cols=169  Identities=17%  Similarity=0.167  Sum_probs=111.3

Q ss_pred             EEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +|+++|..++|||||+++|+.. +.+..............+..-....|+......+..+  .++++||||||+++|...
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~--~~kinlIDTPGh~DF~~e   80 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYN--GTKINIVDTPGHADFGGE   80 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEEC--CEEEEEEECCCHHHHHHH
Confidence            6899999999999999998432 3332211000000000000000011233333344444  478899999999999888


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc-CHHHHHHHHH-------hcCCc
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV-TTREAEMYAI-------KNQMA  212 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v-~~ee~~~~a~-------~~~~~  212 (432)
                      ...+++.+|++|||+|+++.. ......|+..+...  ++|+|+|+||+|+...+.. ..++..++..       +..++
T Consensus        81 v~~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~~--~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~p  157 (594)
T TIGR01394        81 VERVLGMVDGVLLLVDASEGP-MPQTRFVLKKALEL--GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFP  157 (594)
T ss_pred             HHHHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHHC--CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCc
Confidence            889999999999999998743 44556777776654  5899999999998653321 1233333332       23578


Q ss_pred             EEEEcCCCCC----------CHHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDF----------NIRESFTELSRRA  235 (432)
Q Consensus       213 ~~evSAktg~----------nI~elf~~L~~~i  235 (432)
                      ++.+||++|.          |++.+|+.+++.+
T Consensus       158 vl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~l  190 (594)
T TIGR01394       158 IVYASGRAGWASLDLDDPSDNMAPLFDAIVRHV  190 (594)
T ss_pred             EEechhhcCcccccCcccccCHHHHHHHHHHhC
Confidence            9999999996          7999999998876

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.54  E-value=4e-14  Score=146.17  Aligned_cols=112  Identities=17%  Similarity=0.160  Sum_probs=79.0

Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc--cCHH
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT--VTTR  200 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~--v~~e  200 (432)
                      ...+.+|||||+++|...+...+..+|++|+|+|+++........+.+..+... ...|+++|+||+|+.+...  ...+
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~-gi~~iIVvvNK~Dl~~~~~~~~~~~  157 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII-GIKNIVIVQNKIDLVSKEKALENYE  157 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc-CCCeEEEEEEccccCCHHHHHHHHH
Confidence            357899999999998776667778899999999998653112223333333322 2247899999999965322  1234


Q ss_pred             HHHHHHHhc---CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         201 EAEMYAIKN---QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       201 e~~~~a~~~---~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++.++.+..   +++++++||++|.|+++++++|...+
T Consensus       158 ~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       158 EIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             HHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            444444433   56899999999999999999998765

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.54  E-value=8.2e-14  Score=122.52  Aligned_cols=135  Identities=23%  Similarity=0.239  Sum_probs=93.3

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc----cc
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG----RF  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e----~~  137 (432)
                      ||++||+.|+|||||+++|          ........              ++..+.+.+     .++||||.-    .|
T Consensus         3 rimliG~~g~GKTTL~q~L----------~~~~~~~~--------------KTq~i~~~~-----~~IDTPGEyiE~~~~   53 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQAL----------NGEEIRYK--------------KTQAIEYYD-----NTIDTPGEYIENPRF   53 (143)
T ss_pred             eEEEECCCCCCHHHHHHHH----------cCCCCCcC--------------ccceeEecc-----cEEECChhheeCHHH
Confidence            7999999999999999998          22211111              111222233     568999953    12


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-cEEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-AFFEV  216 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~~~ev  216 (432)
                      ....-....+||++++|.|.+++.+.-.     ..+.... +.|+|-|.||+|+.. .....+.++++.+..|+ .+|++
T Consensus        54 y~aLi~ta~dad~V~ll~dat~~~~~~p-----P~fa~~f-~~pvIGVITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~v  126 (143)
T PF10662_consen   54 YHALIVTAQDADVVLLLQDATEPRSVFP-----PGFASMF-NKPVIGVITKIDLPS-DDANIERAKKWLKNAGVKEIFEV  126 (143)
T ss_pred             HHHHHHHHhhCCEEEEEecCCCCCccCC-----chhhccc-CCCEEEEEECccCcc-chhhHHHHHHHHHHcCCCCeEEE
Confidence            2222234478999999999998754221     1122222 379999999999973 23456778888888887 78999


Q ss_pred             cCCCCCCHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELS  232 (432)
Q Consensus       217 SAktg~nI~elf~~L~  232 (432)
                      |+.+|+||+++.++|-
T Consensus       127 S~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  127 SAVTGEGIEELKDYLE  142 (143)
T ss_pred             ECCCCcCHHHHHHHHh
Confidence            9999999999999874

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

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.53  E-value=6.4e-14  Score=144.78  Aligned_cols=174  Identities=16%  Similarity=0.145  Sum_probs=100.6

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCcccccc---------ceeEEEEEEC--C----
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML---------AYKTTTILLD--G----  121 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~ti---------d~~~~~i~i~--~----  121 (432)
                      ..+.++|+++|..++|||||+.+| .+. +... .....++..+...+......         +.+.+....+  +    
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L-~~~-~~d~-~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQAL-TGV-WTDR-HSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETE   82 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHh-hCe-eccc-CHhHHhcCcEEEecccccccccccccCccccccccccccccccccc
Confidence            455689999999999999999987 221 1100 00000011111111000000         0111111111  1    


Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--C
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--T  198 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~  198 (432)
                      ...++.||||||+++|..........+|++++|+|++++. .-+... .+..+... ...|+++|+||+|+.++...  .
T Consensus        83 ~~~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~-~l~~l~~~-~i~~iiVVlNK~Dl~~~~~~~~~  160 (411)
T PRK04000         83 LLRRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKE-HLMALDII-GIKNIVIVQNKIDLVSKERALEN  160 (411)
T ss_pred             cccEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHH-HHHHHHHc-CCCcEEEEEEeeccccchhHHHH
Confidence            1357899999999887554334445679999999999653 122112 22222222 22468999999999653221  1


Q ss_pred             HHHHHHHHHhc---CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         199 TREAEMYAIKN---QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       199 ~ee~~~~a~~~---~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+++..+++..   +.+++++||++|.|++++++.|...+
T Consensus       161 ~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        161 YEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            23444454432   46899999999999999999998765

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.53  E-value=1.5e-13  Score=139.61  Aligned_cols=151  Identities=18%  Similarity=0.106  Sum_probs=100.6

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc--
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC--  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~--  138 (432)
                      ..|+++|.||||||||.||| .+.+....          ....|.+   -|.......+.+..  +.++||+|.+...  
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL-~g~r~AIV----------~D~pGvT---RDr~y~~~~~~~~~--f~lIDTgGl~~~~~~   67 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRL-TGRRIAIV----------SDTPGVT---RDRIYGDAEWLGRE--FILIDTGGLDDGDED   67 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHH-hCCeeeEe----------ecCCCCc---cCCccceeEEcCce--EEEEECCCCCcCCch
Confidence            46999999999999999997 44443322          1222322   24444455566655  7999999987432  


Q ss_pred             h----h---hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         139 T----I---IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       139 ~----l---~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                      .    +   ....+..||++|||+|....-+-++ ....+.++  ..+.|++||.||+|-..    .++.+.+| -.+|+
T Consensus        68 ~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D-~~ia~~Lr--~~~kpviLvvNK~D~~~----~e~~~~ef-yslG~  139 (444)
T COG1160          68 ELQELIREQALIAIEEADVILFVVDGREGITPAD-EEIAKILR--RSKKPVILVVNKIDNLK----AEELAYEF-YSLGF  139 (444)
T ss_pred             HHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHH-HHHHHHHH--hcCCCEEEEEEcccCch----hhhhHHHH-HhcCC
Confidence            1    1   2235689999999999877433222 12222223  24589999999999642    11222223 24555


Q ss_pred             -cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         212 -AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       212 -~~~evSAktg~nI~elf~~L~~~i  235 (432)
                       .++.+||..|.|+.++.+++++.+
T Consensus       140 g~~~~ISA~Hg~Gi~dLld~v~~~l  164 (444)
T COG1160         140 GEPVPISAEHGRGIGDLLDAVLELL  164 (444)
T ss_pred             CCceEeehhhccCHHHHHHHHHhhc
Confidence             789999999999999999999987

>PRK10218 GTP-binding protein; Provisional

Probab=99.52  E-value=1.9e-13  Score=146.89  Aligned_cols=169  Identities=13%  Similarity=0.120  Sum_probs=111.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCcc---ccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESPF---CSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~~---~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ..-+|+++|..++|||||+++|... +.|.............   ....|     +.+..+...++.+.+++++|||||+
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erG-----iTi~~~~~~i~~~~~~inliDTPG~   78 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERG-----ITILAKNTAIKWNDYRINIVDTPGH   78 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCc-----eEEEEEEEEEecCCEEEEEEECCCc
Confidence            3568999999999999999998431 3332211100000000   01111     3444444555556688999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc-cCHHHHHHHHH------
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT-VTTREAEMYAI------  207 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~-v~~ee~~~~a~------  207 (432)
                      .+|...+..+++.+|++|+|+|+++....+ ...++..+..  .++|+++|.||+|+...+. ...+++.++..      
T Consensus        79 ~df~~~v~~~l~~aDg~ILVVDa~~G~~~q-t~~~l~~a~~--~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~  155 (607)
T PRK10218         79 ADFGGEVERVMSMVDSVLLVVDAFDGPMPQ-TRFVTKKAFA--YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATD  155 (607)
T ss_pred             chhHHHHHHHHHhCCEEEEEEecccCccHH-HHHHHHHHHH--cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccc
Confidence            999999999999999999999998754333 2344444433  3589999999999864321 11223333322      


Q ss_pred             -hcCCcEEEEcCCCCC----------CHHHHHHHHHHHH
Q psy3450         208 -KNQMAFFEVSPLCDF----------NIRESFTELSRRA  235 (432)
Q Consensus       208 -~~~~~~~evSAktg~----------nI~elf~~L~~~i  235 (432)
                       +..++++.+||++|.          ++..+++.+++.+
T Consensus       156 ~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~i  194 (607)
T PRK10218        156 EQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHV  194 (607)
T ss_pred             cccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhC
Confidence             234789999999998          5788888877766

>COG2262 HflX GTPases [General function prediction only]

Probab=99.52  E-value=3.1e-13  Score=135.59  Aligned_cols=199  Identities=16%  Similarity=0.112  Sum_probs=130.1

Q ss_pred             EecCCCcccce----------echhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCccccc
Q psy3450          22 VGDSDVGKQEI----------LSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWL   91 (432)
Q Consensus        22 iGd~gvGKssl----------l~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~   91 (432)
                      +|..|.|.+.+          +.+...+|... ...+..............|.++|-.|+|||||+|++.....+..   
T Consensus       145 iG~rGpGE~~lE~drR~ir~rI~~i~~eLe~v-~~~R~~~R~~R~~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~---  220 (411)
T COG2262         145 IGFRGPGETQLETDRRRIRRRIAKLKRELENV-EKAREPRRKKRSRSGIPLVALVGYTNAGKSTLFNALTGADVYVA---  220 (411)
T ss_pred             CCCCCCCchHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhhhcccCCCeEEEEeeccccHHHHHHHHhccCeecc---
Confidence            57778888777          22333333332 34444445555556677999999999999999999833222221   


Q ss_pred             CCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc--cchhhhh------cccCceEEEEEEeCCCCCCh
Q psy3450          92 DGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR--FCTIIRS------YSRGAQGILLVYDITNKWSF  163 (432)
Q Consensus        92 ~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~--~~~l~~~------~~~~ad~iIlV~Dvt~~~Sf  163 (432)
                                  .....|.+...+.+.+.+ ...+.+-||.|--+  -..+...      -...+|++++|+|++++...
T Consensus       221 ------------d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aDlllhVVDaSdp~~~  287 (411)
T COG2262         221 ------------DQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEADLLLHVVDASDPEIL  287 (411)
T ss_pred             ------------ccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHHHHhhcCCEEEEEeecCChhHH
Confidence                        112234566677777775 23468899999421  1122222      23689999999999999766


Q ss_pred             hhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCc
Q psy3450         164 DGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNGME  242 (432)
Q Consensus       164 ~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~  242 (432)
                      +.+..-.+.+.+.. .++|+|+|.||+|+..+..     ....+....-..+.+||++|.|++.+++.|.+.+.......
T Consensus       288 ~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~-----~~~~~~~~~~~~v~iSA~~~~gl~~L~~~i~~~l~~~~~~~  362 (411)
T COG2262         288 EKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE-----ILAELERGSPNPVFISAKTGEGLDLLRERIIELLSGLRTEV  362 (411)
T ss_pred             HHHHHHHHHHHHcCCCCCCEEEEEecccccCchh-----hhhhhhhcCCCeEEEEeccCcCHHHHHHHHHHHhhhcccce
Confidence            66665555555543 5689999999999754322     11112111115889999999999999999999886544333

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.52  E-value=3.3e-13  Score=125.73  Aligned_cols=155  Identities=14%  Similarity=0.117  Sum_probs=94.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCC------CcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESR------FPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~------~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .++|+++|..++|||||+++|+....      ......-.........+     .+++.  ..+.+..+..++.|+||||
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg-----~Ti~~--~~~~~~~~~~~i~~iDtPG   74 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARG-----ITINT--AHVEYETANRHYAHVDCPG   74 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcC-----ccEEe--eeeEecCCCeEEEEEECcC
Confidence            47899999999999999999843210      00000000000001111     12232  2333444456789999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCccc---CHHHHHHHHHhc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTV---TTREAEMYAIKN  209 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v---~~ee~~~~a~~~  209 (432)
                      ...|.......+..+|++++|+|+.....-+ ..+.+..+...  ++| +|+|.||+|+..+.+.   ..+++..+..+.
T Consensus        75 ~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~-~~~~~~~~~~~--~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~  151 (195)
T cd01884          75 HADYIKNMITGAAQMDGAILVVSATDGPMPQ-TREHLLLARQV--GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKY  151 (195)
T ss_pred             HHHHHHHHHHHhhhCCEEEEEEECCCCCcHH-HHHHHHHHHHc--CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHh
Confidence            9887666666778999999999988653222 23344444443  356 7899999998532221   123455555544


Q ss_pred             C-----CcEEEEcCCCCCCH
Q psy3450         210 Q-----MAFFEVSPLCDFNI  224 (432)
Q Consensus       210 ~-----~~~~evSAktg~nI  224 (432)
                      +     ++++.+||++|.|+
T Consensus       152 g~~~~~v~iipiSa~~g~n~  171 (195)
T cd01884         152 GFDGDNTPIVRGSALKALEG  171 (195)
T ss_pred             cccccCCeEEEeeCccccCC
Confidence            3     68999999999985

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.

>cd03742 SOCS_Rab40 SOCS (suppressors of cytokine signaling) box of Rab40-like proteins

Probab=99.51  E-value=5.9e-15  Score=101.78  Aligned_cols=41  Identities=68%  Similarity=1.100  Sum_probs=39.3

Q ss_pred             hhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhhccc
Q psy3450         316 VISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTS  356 (432)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  356 (432)
                      |.|||++||++|+.||+..+||+||||..||++||+|+|++
T Consensus         3 ~~SLQ~LCR~~I~~~t~~~~I~~LPLP~~Lk~yLkey~~~~   43 (43)
T cd03742           3 VLSLQDLCCRAIVSCTPVYLIDKLPLPVSIKSHLKSFAMAN   43 (43)
T ss_pred             cccHHHHHHHHHHHhCCcchhhhCCCCHHHHHHHHhccccC
Confidence            57999999999999999999999999999999999999974

Rab40 is part of the Rab family of small GTP-binding proteins that form the largest family within the Ras superfamily. Rab proteins regulate vesicular trafficking pathways, behaving as membrane-associated molecular switches. Rab40 is characterized by a SOCS box c-terminal to the GTPase domain. The SOCS boxes interact with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.51  E-value=4.1e-13  Score=128.85  Aligned_cols=126  Identities=15%  Similarity=0.162  Sum_probs=80.6

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCccc---ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRF---WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~---~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +|+++|..|+|||||++++.........   ...+.....+.+.......++......+..  +..++.+|||||+.+|.
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~--~~~~i~liDTPG~~~f~   78 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQW--EDTKVNLIDTPGHMDFI   78 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEE--CCEEEEEEeCCCccchH
Confidence            4789999999999999998432211100   000000000000000001122333333333  45778999999999998


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      ..+..+++.+|++|+|+|+++.... ....|+..+...  ++|+++++||+|+.
T Consensus        79 ~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~--~~P~iivvNK~D~~  129 (237)
T cd04168          79 AEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL--NIPTIIFVNKIDRA  129 (237)
T ss_pred             HHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc--CCCEEEEEECcccc
Confidence            8888899999999999999987543 335566655543  58999999999985

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.49  E-value=2.2e-13  Score=146.30  Aligned_cols=160  Identities=18%  Similarity=0.186  Sum_probs=97.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeE-----E-----EEEEEe
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKR-----V-----KLQLWD  130 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~-----v-----~l~i~D  130 (432)
                      ..|+++|.+++|||||+++| .+..+... ..+    ..+..+|.+.-..+....   ..+..     .     .+.|||
T Consensus         7 p~V~i~Gh~~~GKTSLl~~l-~~~~v~~~-~~g----~itq~ig~~~~~~~~~~~---~~~~~~~~~~~~~~~~~i~~iD   77 (586)
T PRK04004          7 PIVVVLGHVDHGKTTLLDKI-RGTAVAAK-EAG----GITQHIGATEVPIDVIEK---IAGPLKKPLPIKLKIPGLLFID   77 (586)
T ss_pred             cEEEEECCCCCCHHHHHHHH-hCcccccC-CCC----ceEEeeceeecccccccc---ccceeccccccccccCCEEEEE
Confidence            36999999999999999997 32222111 111    111122211000000000   00111     1     268999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCC---CCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc----C-----
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITN---KWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV----T-----  198 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~---~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v----~-----  198 (432)
                      |||++.|..++...++.+|++|+|+|+++   +.+++.+.    .+..  .++|+++++||+|+......    .     
T Consensus        78 TPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~----~~~~--~~vpiIvviNK~D~~~~~~~~~~~~~~e~~  151 (586)
T PRK04004         78 TPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAIN----ILKR--RKTPFVVAANKIDRIPGWKSTEDAPFLESI  151 (586)
T ss_pred             CCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHH----HHHH--cCCCEEEEEECcCCchhhhhhcCchHHHHH
Confidence            99999999988888899999999999997   44554443    2222  36899999999998521110    0     


Q ss_pred             -------HH-------HHHHHHHhc---------------CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         199 -------TR-------EAEMYAIKN---------------QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       199 -------~e-------e~~~~a~~~---------------~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                             .+       +...+..+.               ..+++++||++|.|++++++.+....
T Consensus       152 ~~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        152 EKQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence                   00       011111111               25799999999999999998886543

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.49  E-value=3.4e-13  Score=145.53  Aligned_cols=158  Identities=13%  Similarity=0.072  Sum_probs=100.2

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      -|.++|..++|||||+++|. +...      .........+     .|++.....+...+ ...+.||||||+++|....
T Consensus         2 ii~~~GhvdhGKTtLi~aLt-g~~~------dr~~eE~~rG-----iTI~l~~~~~~~~~-g~~i~~IDtPGhe~fi~~m   68 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAIT-GVNA------DRLPEEKKRG-----MTIDLGYAYWPQPD-GRVLGFIDVPGHEKFLSNM   68 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHh-CCCC------ccchhcccCC-----ceEEeeeEEEecCC-CcEEEEEECCCHHHHHHHH
Confidence            47899999999999999982 1110      0011111111     12333333333322 2347999999999986665


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCccc--CHHHHHHHHHhcC---CcEEE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTV--TTREAEMYAIKNQ---MAFFE  215 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v--~~ee~~~~a~~~~---~~~~e  215 (432)
                      ...+.++|++++|+|+++...- ...+.+..+...  ++| ++||+||+|+.++...  ..+++.++....+   .++++
T Consensus        69 ~~g~~~~D~~lLVVda~eg~~~-qT~ehl~il~~l--gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~  145 (614)
T PRK10512         69 LAGVGGIDHALLVVACDDGVMA-QTREHLAILQLT--GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFV  145 (614)
T ss_pred             HHHhhcCCEEEEEEECCCCCcH-HHHHHHHHHHHc--CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEE
Confidence            6668899999999999874221 112223333322  345 5799999999653222  1234455555444   68999


Q ss_pred             EcCCCCCCHHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i  235 (432)
                      +||++|.|++++++.|.+..
T Consensus       146 VSA~tG~gI~~L~~~L~~~~  165 (614)
T PRK10512        146 TAATEGRGIDALREHLLQLP  165 (614)
T ss_pred             EeCCCCCCCHHHHHHHHHhh
Confidence            99999999999999998654

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.48  E-value=1.8e-13  Score=129.71  Aligned_cols=161  Identities=13%  Similarity=0.108  Sum_probs=93.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcC-CCCccccc---------CCCC------cCccccCCCccccccceeEEEEEECCeEEE
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLE-SRFPRFWL---------DGSS------ESPFCSGSGKYDDMLAYKTTTILLDGKRVK  125 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~-~~~~~~~~---------~~~~------~~~~~~~ig~~~~tid~~~~~i~i~~~~v~  125 (432)
                      .|+++|..++|||||+.+|+.. +.......         .+..      .............|++.....+..++  ..
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~--~~   78 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEK--YR   78 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCC--eE
Confidence            4799999999999999998322 11110000         0000      00000111111233444445555554  67


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCC---hh---hHHHHHHHHHhhCCCCcEEEEEECccCCCC--ccc
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS---FD---GIDRWLKEVEEHAPGVPKVLVGNRLHLAFN--RTV  197 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~S---f~---~l~~~l~~i~~~~~~iPiILVgNK~DL~~~--r~v  197 (432)
                      +.+|||||+..|.......++.+|++|+|+|+++...   |.   .....+.... .....|+++|+||+|+...  ...
T Consensus        79 i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~iiivvNK~Dl~~~~~~~~  157 (219)
T cd01883          79 FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLAR-TLGVKQLIVAVNKMDDVTVNWSEE  157 (219)
T ss_pred             EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHH-HcCCCeEEEEEEccccccccccHH
Confidence            8999999998776655566788999999999988421   11   1222222222 2233689999999999621  111


Q ss_pred             C----HHHHHHHHHhcC-----CcEEEEcCCCCCCHH
Q psy3450         198 T----TREAEMYAIKNQ-----MAFFEVSPLCDFNIR  225 (432)
Q Consensus       198 ~----~ee~~~~a~~~~-----~~~~evSAktg~nI~  225 (432)
                      .    .+++..+.+..+     ++++++||++|.|++
T Consensus       158 ~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         158 RYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            1    122233344433     579999999999987

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

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.47  E-value=8.7e-13  Score=122.87  Aligned_cols=159  Identities=16%  Similarity=0.179  Sum_probs=93.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|+|||||+|.++... ++..         .....+...++...  ..+.. +....+.+|||+|......
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~-~~~~---------~~~~~~~~~~t~~~--~~~~~-~~~~~l~l~DtpG~~~~~~   67 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVG-HEEE---------GAAPTGVVETTMKR--TPYPH-PKFPNVTLWDLPGIGSTAF   67 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccC-CCCC---------CccccCccccccCc--eeeec-CCCCCceEEeCCCCCcccC
Confidence            3799999999999999999983322 1110         00111100011111  11111 1123689999999864322


Q ss_pred             hhhhc-----ccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCcc-----------cCHHHH
Q psy3450         140 IIRSY-----SRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRT-----------VTTREA  202 (432)
Q Consensus       140 l~~~~-----~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~-----------v~~ee~  202 (432)
                      ....|     +.++|++++|.|    .+|... ..|++.+.+.  +.|+++|+||+|+.....           ...++.
T Consensus        68 ~~~~~l~~~~~~~~d~~l~v~~----~~~~~~d~~~~~~l~~~--~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i  141 (197)
T cd04104          68 PPDDYLEEMKFSEYDFFIIISS----TRFSSNDVKLAKAIQCM--GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEI  141 (197)
T ss_pred             CHHHHHHHhCccCcCEEEEEeC----CCCCHHHHHHHHHHHHh--CCCEEEEEecccchhhhhhccccccccHHHHHHHH
Confidence            22222     577899988843    234444 5566666665  479999999999842111           111122


Q ss_pred             HHHHH----hcC---CcEEEEcCC--CCCCHHHHHHHHHHHHhh
Q psy3450         203 EMYAI----KNQ---MAFFEVSPL--CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       203 ~~~a~----~~~---~~~~evSAk--tg~nI~elf~~L~~~i~~  237 (432)
                      .+.+.    ..+   -++|.+|+.  .+.|+..+.+.++..+-+
T Consensus       142 ~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~  185 (197)
T cd04104         142 RDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPA  185 (197)
T ss_pred             HHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhH
Confidence            22221    212   378999998  678999999999998854

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

>cd01850 CDC_Septin CDC/Septin

Probab=99.47  E-value=5.3e-13  Score=130.92  Aligned_cols=152  Identities=14%  Similarity=0.176  Sum_probs=92.2

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..++|+++|++|+|||||+|+|+....................+.     .++.....+..+|..+++.+|||||...+.
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~-----~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~   77 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTV-----EIKSSKAEIEENGVKLKLTVIDTPGFGDNI   77 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCce-----EEEEEEEEEEECCEEEEEEEEecCCccccc
Confidence            568999999999999999999855443322110000000111111     134455566677888999999999943221


Q ss_pred             --------------------------hhhhhccc--CceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECc
Q psy3450         139 --------------------------TIIRSYSR--GAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       139 --------------------------~l~~~~~~--~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                                                ..++..+.  .+|+++++++.+.. .+... .+.+..+.   .++|+++|+||+
T Consensus        78 ~~~~~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~-~l~~~D~~~lk~l~---~~v~vi~VinK~  153 (276)
T cd01850          78 NNSDCWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGH-GLKPLDIEFMKRLS---KRVNIIPVIAKA  153 (276)
T ss_pred             cchhhHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCC-CCCHHHHHHHHHHh---ccCCEEEEEECC
Confidence                                      11113333  46777777776542 22222 23334443   358999999999


Q ss_pred             cCCCC--cccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         190 HLAFN--RTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       190 DL~~~--r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      |+..+  .....+.+.+.++.+++++|.....
T Consensus       154 D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~~  185 (276)
T cd01850         154 DTLTPEELKEFKQRIMEDIEEHNIKIYKFPED  185 (276)
T ss_pred             CcCCHHHHHHHHHHHHHHHHHcCCceECCCCC
Confidence            98542  2334455677788889998877653

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.45  E-value=1e-12  Score=135.31  Aligned_cols=168  Identities=12%  Similarity=0.108  Sum_probs=101.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcC------CCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLE------SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~------~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      ..+.++|+++|..++|||||+++|...      .++...............++     |++..  ...+.....++.|+|
T Consensus         9 ~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGi-----T~~~~--~~~~~~~~~~i~~iD   81 (396)
T PRK12735          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGI-----TINTS--HVEYETANRHYAHVD   81 (396)
T ss_pred             CCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCc-----eEEEe--eeEEcCCCcEEEEEE
Confidence            345689999999999999999998431      11110000011111111111     22322  233333445679999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEE-EEEECccCCCCcc---cCHHHHHHHH
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKV-LVGNRLHLAFNRT---VTTREAEMYA  206 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiI-LVgNK~DL~~~r~---v~~ee~~~~a  206 (432)
                      |||+++|......-+..+|++++|+|+.+...-+ ..+++..+..  .++|.+ +|.||+|+.++.+   ...+++..+.
T Consensus        82 tPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~q-t~e~l~~~~~--~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l  158 (396)
T PRK12735         82 CPGHADYVKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQ--VGVPYIVVFLNKCDMVDDEELLELVEMEVRELL  158 (396)
T ss_pred             CCCHHHHHHHHHhhhccCCEEEEEEECCCCCchh-HHHHHHHHHH--cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHH
Confidence            9999887555555667899999999998753222 2334444443  347865 5799999964221   1123455566


Q ss_pred             HhcC-----CcEEEEcCCCCC----------CHHHHHHHHHHH
Q psy3450         207 IKNQ-----MAFFEVSPLCDF----------NIRESFTELSRR  234 (432)
Q Consensus       207 ~~~~-----~~~~evSAktg~----------nI~elf~~L~~~  234 (432)
                      +.++     ++++++||++|.          ++.++++.|...
T Consensus       159 ~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~  201 (396)
T PRK12735        159 SKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSY  201 (396)
T ss_pred             HHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhc
Confidence            5543     679999999985          456666666554

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.45  E-value=1.2e-12  Score=134.69  Aligned_cols=155  Identities=12%  Similarity=0.106  Sum_probs=94.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC------CCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE------SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~------~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      .+.++|+++|..++|||||+++|...      .++...+.-.........+     .|++.  ..+.++....++.||||
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG-----~Ti~~--~~~~~~~~~~~~~liDt   82 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARG-----ITINT--AHVEYETENRHYAHVDC   82 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcC-----cceee--EEEEEcCCCEEEEEEEC
Confidence            45689999999999999999998311      1110000000000011111     22333  33344445567899999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEE-EEEECccCCCCcccC---HHHHHHHHH
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKV-LVGNRLHLAFNRTVT---TREAEMYAI  207 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiI-LVgNK~DL~~~r~v~---~ee~~~~a~  207 (432)
                      ||+++|..........+|++++|+|+++....+. .+.+..+...  ++|.+ +|.||+|+.++.+..   .+++.++++
T Consensus        83 pGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt-~e~l~~~~~~--gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~  159 (394)
T TIGR00485        83 PGHADYVKNMITGAAQMDGAILVVSATDGPMPQT-REHILLARQV--GVPYIVVFLNKCDMVDDEELLELVEMEVRELLS  159 (394)
T ss_pred             CchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHHc--CCCEEEEEEEecccCCHHHHHHHHHHHHHHHHH
Confidence            9999886544444567899999999987433222 2333334333  46755 689999986533221   235666666


Q ss_pred             hcC-----CcEEEEcCCCCC
Q psy3450         208 KNQ-----MAFFEVSPLCDF  222 (432)
Q Consensus       208 ~~~-----~~~~evSAktg~  222 (432)
                      ..+     ++++++||++|.
T Consensus       160 ~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       160 EYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             hcCCCccCccEEECcccccc
Confidence            654     689999999885

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.42  E-value=1.8e-12  Score=123.09  Aligned_cols=139  Identities=17%  Similarity=0.215  Sum_probs=85.3

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcC-ccccCCCccccccceeEEEEEEC--------CeEEEEEEEeCC
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSES-PFCSGSGKYDDMLAYKTTTILLD--------GKRVKLQLWDTS  132 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~-~~~~~ig~~~~tid~~~~~i~i~--------~~~v~l~i~Dt~  132 (432)
                      +|+++|..++|||||+.+|............+.... ...........++......+.++        ++.+.++|||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            589999999999999999843222110000000000 00000000001122222223333        457899999999


Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC-CCcccCHHHHH
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA-FNRTVTTREAE  203 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~-~~r~v~~ee~~  203 (432)
                      |+++|......+++.+|++|+|+|+++..+.+... .+.....  .++|+++|+||+|+. .+..++.+++.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~-~l~~~~~--~~~p~ilviNKiD~~~~e~~~~~~~~~  150 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTET-VLRQALK--ERVKPVLVINKIDRLILELKLSPEEAY  150 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHH-HHHHHHH--cCCCEEEEEECCCcchhhhcCCHHHHH
Confidence            99999998889999999999999999877665433 2333322  357999999999975 34445555443

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

>PRK12736 elongation factor Tu; Reviewed

Probab=99.41  E-value=2.9e-12  Score=131.82  Aligned_cols=168  Identities=13%  Similarity=0.116  Sum_probs=101.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCC------CCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLES------RFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~------~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ...++|+++|..++|||||+++|....      .+.....-.........+     .|++.  ..+.++....++.||||
T Consensus        10 k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg-----~T~~~--~~~~~~~~~~~i~~iDt   82 (394)
T PRK12736         10 KPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERG-----ITINT--AHVEYETEKRHYAHVDC   82 (394)
T ss_pred             CCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcC-----ccEEE--EeeEecCCCcEEEEEEC
Confidence            446899999999999999999983211      000000000000011111     12233  22334344456799999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCcccC---HHHHHHHHH
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTVT---TREAEMYAI  207 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v~---~ee~~~~a~  207 (432)
                      ||+++|......-+..+|++++|+|+++...-+ ..+++..+...  ++| +|+|.||+|+.++.+..   .+++.++.+
T Consensus        83 PGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~-t~~~~~~~~~~--g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~  159 (394)
T PRK12736         83 PGHADYVKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLARQV--GVPYLVVFLNKVDLVDDEELLELVEMEVRELLS  159 (394)
T ss_pred             CCHHHHHHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHHc--CCCEEEEEEEecCCcchHHHHHHHHHHHHHHHH
Confidence            999887554445557889999999988643222 23334444433  477 67899999986432221   234555555


Q ss_pred             hcC-----CcEEEEcCCCCC--------CHHHHHHHHHHHH
Q psy3450         208 KNQ-----MAFFEVSPLCDF--------NIRESFTELSRRA  235 (432)
Q Consensus       208 ~~~-----~~~~evSAktg~--------nI~elf~~L~~~i  235 (432)
                      ..+     ++++++||++|.        ++.++++.+.+.+
T Consensus       160 ~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~l  200 (394)
T PRK12736        160 EYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYI  200 (394)
T ss_pred             HhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhC
Confidence            554     589999999984        4667776666554

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.41  E-value=3.4e-12  Score=131.01  Aligned_cols=71  Identities=14%  Similarity=0.181  Sum_probs=50.5

Q ss_pred             CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHH-HHHHHHHHHhhhcCCcccccccCCCCCCCcC
Q psy3450         179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE-SFTELSRRALQRNGMERLWRSNKVGRKPLIN  257 (432)
Q Consensus       179 ~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~e-lf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~  257 (432)
                      ..|+|+|.||.|+...+    +....+.+..+..++.+||+.+.++++ +.+.+++.+              +...++++
T Consensus       217 ~KPvI~VlNK~D~~~~~----~~l~~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~l--------------p~~p~~~~  278 (396)
T PRK09602        217 SKPMVIAANKADLPPAE----ENIERLKEEKYYIVVPTSAEAELALRRAAKAGLIDYI--------------PGDSDFEI  278 (396)
T ss_pred             CCCEEEEEEchhcccch----HHHHHHHhcCCCcEEEEcchhhhhHHHHHHHhHHhhC--------------CCCCccCc
Confidence            37999999999975322    112223322345799999999999999 777777766              45567777


Q ss_pred             CCCchhHHHH
Q psy3450         258 FESFTELSRR  267 (432)
Q Consensus       258 ~~s~~~~~~r  267 (432)
                      .+.+++..++
T Consensus       279 ~d~ltd~~~r  288 (396)
T PRK09602        279 LGELSEKQKK  288 (396)
T ss_pred             cccCCHHHHH
Confidence            7778877766

>KOG1489|consensus

Probab=99.41  E-value=2.2e-12  Score=125.21  Aligned_cols=152  Identities=20%  Similarity=0.215  Sum_probs=105.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccc-cccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD-DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~-~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      -|-+||-||+|||||++.+..                ..|.+++|. ||+....-++.+++ ..++.+-|.||.-+-..+
T Consensus       198 dvGLVG~PNAGKSTLL~als~----------------AKpkVa~YaFTTL~P~iG~v~ydd-f~q~tVADiPGiI~GAh~  260 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSR----------------AKPKVAHYAFTTLRPHIGTVNYDD-FSQITVADIPGIIEGAHM  260 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhc----------------cCCcccccceeeeccccceeeccc-cceeEeccCccccccccc
Confidence            366999999999999999721                122333332 22333333334444 234899999997543333


Q ss_pred             h----hh---cccCceEEEEEEeCCCC---CChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         141 I----RS---YSRGAQGILLVYDITNK---WSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       141 ~----~~---~~~~ad~iIlV~Dvt~~---~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                      .    ..   .++.++..++|+|++..   ..++.++.+..++..+.   .+.|.+||+||+|+.+..   .+...++++
T Consensus       261 nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae---~~~l~~L~~  337 (366)
T KOG1489|consen  261 NKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAE---KNLLSSLAK  337 (366)
T ss_pred             cCcccHHHHHHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHH---HHHHHHHHH
Confidence            2    23   34789999999999988   78888877777776654   578999999999985211   122356666


Q ss_pred             hcCC-cEEEEcCCCCCCHHHHHHHHHH
Q psy3450         208 KNQM-AFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       208 ~~~~-~~~evSAktg~nI~elf~~L~~  233 (432)
                      ...- .++++||+++++++++++.|-+
T Consensus       338 ~lq~~~V~pvsA~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  338 RLQNPHVVPVSAKSGEGLEELLNGLRE  364 (366)
T ss_pred             HcCCCcEEEeeeccccchHHHHHHHhh
Confidence            6654 4999999999999999887754

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.40  E-value=4.9e-12  Score=120.43  Aligned_cols=107  Identities=14%  Similarity=0.068  Sum_probs=71.2

Q ss_pred             EEEEEEeCCCCcccchhhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TT  199 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~  199 (432)
                      ..+.++||||+++|.......+  ..+|++++|+|+.....- ...+++..+...  ++|+++|.||+|+.++...  ..
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~-~d~~~l~~l~~~--~ip~ivvvNK~D~~~~~~~~~~~  160 (224)
T cd04165          84 KLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIG-MTKEHLGLALAL--NIPVFVVVTKIDLAPANILQETL  160 (224)
T ss_pred             cEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcH-HHHHHHHHHHHc--CCCEEEEEECccccCHHHHHHHH
Confidence            4579999999988855433333  368999999998875432 224455555443  4899999999998543211  11


Q ss_pred             HHHHHHHHh--------------------------cCCcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         200 REAEMYAIK--------------------------NQMAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       200 ee~~~~a~~--------------------------~~~~~~evSAktg~nI~elf~~L~~  233 (432)
                      +++.++.+.                          ...++|.+||.+|.|++++.+.|..
T Consensus       161 ~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         161 KDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            222222221                          1248999999999999999988753

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

>cd04169 RF3 RF3 subfamily

Probab=99.39  E-value=6e-12  Score=122.90  Aligned_cols=127  Identities=14%  Similarity=0.185  Sum_probs=80.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCC-CCcccc-c-----CCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLES-RFPRFW-L-----DGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~-~~~~~~-~-----~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +|+++|.+|+|||||++++.... ...... .     .+.....+.+.  +....+.+......++...+++++|||||+
T Consensus         4 ni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~--e~~rg~si~~~~~~~~~~~~~i~liDTPG~   81 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEI--EKQRGISVTSSVMQFEYRDCVINLLDTPGH   81 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHH--HHhCCCCeEEEEEEEeeCCEEEEEEECCCc
Confidence            68999999999999999983321 111000 0     01111111000  000112333444445555678899999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      ++|......+++.+|++|+|+|+++.... ....|+.....  .++|+++++||+|+..
T Consensus        82 ~df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~--~~~P~iivvNK~D~~~  137 (267)
T cd04169          82 EDFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL--RGIPIITFINKLDREG  137 (267)
T ss_pred             hHHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh--cCCCEEEEEECCccCC
Confidence            98887677788999999999999876432 22344444333  3589999999999854

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.39  E-value=3e-12  Score=125.15  Aligned_cols=188  Identities=20%  Similarity=0.242  Sum_probs=117.6

Q ss_pred             CcccceechhhhHHHHHhhhcCcccccccccc-ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCc
Q psy3450          27 VGKQEILSGYKLELTAWLMETKPVVATQKQYD-YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGK  105 (432)
Q Consensus        27 vGKssll~r~~~~l~~~~~~~~~~~~~~~~~~-~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~  105 (432)
                      .|+-+-+.+..+.-+.++.+-+.....-...+ ....|+|.|.||||||||++.+..                ..|.+..
T Consensus       134 ~GR~aSiik~i~~~L~fL~~~r~~l~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~----------------AkpEvA~  197 (346)
T COG1084         134 FGRVASIIKKIDDDLEFLRKARDHLKKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTT----------------AKPEVAP  197 (346)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhcCCCCCCCCCeEEEecCCCCcHHHHHHHHhc----------------CCCccCC
Confidence            45444444444444555554443333333444 456899999999999999999711                1122221


Q ss_pred             cccccceeEEEEEE---CCeEEEEEEEeCCCCc-----ccchhhhh---cc-cCceEEEEEEeCCCC--CChhhHHHHHH
Q psy3450         106 YDDMLAYKTTTILL---DGKRVKLQLWDTSGQG-----RFCTIIRS---YS-RGAQGILLVYDITNK--WSFDGIDRWLK  171 (432)
Q Consensus       106 ~~~tid~~~~~i~i---~~~~v~l~i~Dt~G~e-----~~~~l~~~---~~-~~ad~iIlV~Dvt~~--~Sf~~l~~~l~  171 (432)
                      |    .|.++.+.+   +....++|++||||.-     +.+.+-.+   .+ .-.++|+|+||.+..  -+.+....++.
T Consensus       198 Y----PFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~  273 (346)
T COG1084         198 Y----PFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLE  273 (346)
T ss_pred             C----CccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHH
Confidence            1    333444433   2334578999999952     11111111   11 236889999999864  45677788888


Q ss_pred             HHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhc-CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       172 ~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++.... .|+++|.||+|+.+...+  +++......- +.....+++..+.+++.+-..+.....+
T Consensus       274 eIk~~f~-~p~v~V~nK~D~~~~e~~--~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~v~~~a~~  337 (346)
T COG1084         274 EIKELFK-APIVVVINKIDIADEEKL--EEIEASVLEEGGEEPLKISATKGCGLDKLREEVRKTALE  337 (346)
T ss_pred             HHHHhcC-CCeEEEEecccccchhHH--HHHHHHHHhhccccccceeeeehhhHHHHHHHHHHHhhc
Confidence            9988876 899999999998654333  3333333333 3457788999999999888888776543

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.37  E-value=1.2e-11  Score=123.54  Aligned_cols=52  Identities=13%  Similarity=0.196  Sum_probs=37.9

Q ss_pred             CcEEEEEECccCCCCcccCHHHHHHHHHhc-CCcEEEEcCCCCCCHHHHHH-HHHHHH
Q psy3450         180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDFNIRESFT-ELSRRA  235 (432)
Q Consensus       180 iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-~~~~~evSAktg~nI~elf~-~L~~~i  235 (432)
                      .|+|+|+||+|+.....    ....+.... ...++.+||+.+.+++++.+ .+.+.+
T Consensus       215 KPvI~VlNK~Dl~~~~~----~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~l  268 (318)
T cd01899         215 KPMVIAANKADIPDAEN----NISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYD  268 (318)
T ss_pred             CcEEEEEEHHHccChHH----HHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhC
Confidence            69999999999853221    111222233 45899999999999999998 588877

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.37  E-value=4.4e-12  Score=133.33  Aligned_cols=167  Identities=14%  Similarity=0.075  Sum_probs=96.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCccccc----------CCCCc--------CccccCCCccccccceeEEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWL----------DGSSE--------SPFCSGSGKYDDMLAYKTTTILL  119 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~----------~~~~~--------~~~~~~ig~~~~tid~~~~~i~i  119 (432)
                      ...++|+++|..++|||||+.+|+..........          .+...        ....+.......|++.....+  
T Consensus        25 ~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~--  102 (474)
T PRK05124         25 KSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYF--  102 (474)
T ss_pred             cCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEe--
Confidence            4569999999999999999999843332211000          11100        000000000112234333333  


Q ss_pred             CCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH
Q psy3450         120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT  199 (432)
Q Consensus       120 ~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~  199 (432)
                      .....++.||||||++.|......-+..+|++|+|+|++....-.....| ..+... ...|+|||.||+|+.+.++...
T Consensus       103 ~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~-~l~~~l-g~~~iIvvvNKiD~~~~~~~~~  180 (474)
T PRK05124        103 STEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS-FIATLL-GIKHLVVAVNKMDLVDYSEEVF  180 (474)
T ss_pred             ccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH-HHHHHh-CCCceEEEEEeeccccchhHHH
Confidence            33345789999999988855444446899999999998765322111222 112222 1247899999999864222112


Q ss_pred             H----HHHHHHHhc----CCcEEEEcCCCCCCHHHHH
Q psy3450         200 R----EAEMYAIKN----QMAFFEVSPLCDFNIRESF  228 (432)
Q Consensus       200 e----e~~~~a~~~----~~~~~evSAktg~nI~elf  228 (432)
                      +    +...+.+..    ..+++++||++|.|++++-
T Consensus       181 ~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~  217 (474)
T PRK05124        181 ERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQS  217 (474)
T ss_pred             HHHHHHHHHHHHhcCCCCCceEEEEEeecCCCccccc
Confidence            2    222333333    3689999999999998753

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.37  E-value=1.7e-11  Score=119.49  Aligned_cols=194  Identities=22%  Similarity=0.177  Sum_probs=118.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      -...|++||.|+||||||++.+.....-...|.               .+|.....-.+.++|  .++|+.|+||.-+-.
T Consensus        62 Gda~v~lVGfPsvGKStLL~~LTnt~seva~y~---------------FTTl~~VPG~l~Y~g--a~IQild~Pgii~ga  124 (365)
T COG1163          62 GDATVALVGFPSVGKSTLLNKLTNTKSEVADYP---------------FTTLEPVPGMLEYKG--AQIQLLDLPGIIEGA  124 (365)
T ss_pred             CCeEEEEEcCCCccHHHHHHHHhCCCccccccC---------------ceecccccceEeecC--ceEEEEcCcccccCc
Confidence            346899999999999999999822222111111               122233333445555  678999999864322


Q ss_pred             h-------hhhhcccCceEEEEEEeCCCCCC-hhhHHHHHHHH-------------------------------------
Q psy3450         139 T-------IIRSYSRGAQGILLVYDITNKWS-FDGIDRWLKEV-------------------------------------  173 (432)
Q Consensus       139 ~-------l~~~~~~~ad~iIlV~Dvt~~~S-f~~l~~~l~~i-------------------------------------  173 (432)
                      +       ..-...++||++|+|.|+....+ .+-+.+.++..                                     
T Consensus       125 s~g~grG~~vlsv~R~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~i  204 (365)
T COG1163         125 SSGRGRGRQVLSVARNADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTV  204 (365)
T ss_pred             ccCCCCcceeeeeeccCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHH
Confidence            2       12245699999999999986554 22222211111                                     


Q ss_pred             -------Hh----------------------hCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCH
Q psy3450         174 -------EE----------------------HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNI  224 (432)
Q Consensus       174 -------~~----------------------~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI  224 (432)
                             +-                      ...-+|.++|.||+|+..     .++...+.+..  .++.+||+.+.|+
T Consensus       205 r~iL~Ey~I~nA~V~Ir~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nl  277 (365)
T COG1163         205 RAILREYRIHNADVLIREDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINL  277 (365)
T ss_pred             HHHHHHhCcccceEEEecCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCH
Confidence                   00                      001269999999999843     45556565554  8899999999999


Q ss_pred             HHHHHHHHHHHhhhcCCcccccccCCCCCCCc-----C------CCCchhHHHHHHHhcccccccccC
Q psy3450         225 RESFTELSRRALQRNGMERLWRSNKVGRKPLI-----N------FESFTELSRRALQRNGMERLWRSN  281 (432)
Q Consensus       225 ~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~-----~------~~s~~~~~~r~l~~~~l~r~~~~~  281 (432)
                      +++.+.|.+.+--    .+.... .++..+-+     -      .+.+....+.+..+.+..++|...
T Consensus       278 d~L~e~i~~~L~l----iRVYtK-~~g~~pd~~~PlIlr~GsTV~Dvc~~IH~~l~~~FryA~VWGkS  340 (365)
T COG1163         278 DELKERIWDVLGL----IRVYTK-PPGEEPDFDEPLILRRGSTVGDVCRKIHRDLVENFRYARVWGKS  340 (365)
T ss_pred             HHHHHHHHHhhCe----EEEEec-CCCCCCCCCCCeEEeCCCcHHHHHHHHHHHHHHhcceEEEeccC
Confidence            9999999988722    111110 01111111     1      122334556677788899999873

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.35  E-value=6.7e-12  Score=129.66  Aligned_cols=162  Identities=16%  Similarity=0.102  Sum_probs=94.4

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCccccc----------CCCC----c----CccccCCCccccccceeEEEEEECCe
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWL----------DGSS----E----SPFCSGSGKYDDMLAYKTTTILLDGK  122 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~----------~~~~----~----~~~~~~ig~~~~tid~~~~~i~i~~~  122 (432)
                      ++|+++|..++|||||+.+|+..........          .+..    .    ....+.......|++.....+..+  
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~--   78 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTD--   78 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccC--
Confidence            4899999999999999999843322111000          0100    0    000000000112234443444343  


Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC----
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT----  198 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~----  198 (432)
                      ..++.||||||+++|.......+..+|++|+|+|+.....-+....| ..+... ...++++|.||+|+.+.....    
T Consensus        79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~-~~~~~~-~~~~iivviNK~D~~~~~~~~~~~i  156 (406)
T TIGR02034        79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHS-YIASLL-GIRHVVLAVNKMDLVDYDEEVFENI  156 (406)
T ss_pred             CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHH-HHHHHc-CCCcEEEEEEecccccchHHHHHHH
Confidence            45789999999998865555567899999999998765332222222 222222 223688999999986422211    


Q ss_pred             HHHHHHHHHhcC---CcEEEEcCCCCCCHHH
Q psy3450         199 TREAEMYAIKNQ---MAFFEVSPLCDFNIRE  226 (432)
Q Consensus       199 ~ee~~~~a~~~~---~~~~evSAktg~nI~e  226 (432)
                      .++...+.+..+   ++++++||++|.|+++
T Consensus       157 ~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       157 KKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            122333444444   4799999999999986

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).

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.34  E-value=8.3e-12  Score=132.30  Aligned_cols=157  Identities=19%  Similarity=0.220  Sum_probs=112.1

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc-
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC-  138 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~-  138 (432)
                      ..+|+++|.||||||||.|++...+....+|          |+     .|++.+.-.+...++.  +++.|.||..... 
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~VgNw----------pG-----vTVEkkeg~~~~~~~~--i~ivDLPG~YSL~~   65 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQKVGNW----------PG-----VTVEKKEGKLKYKGHE--IEIVDLPGTYSLTA   65 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCceecCC----------CC-----eeEEEEEEEEEecCce--EEEEeCCCcCCCCC
Confidence            3569999999999999999984444333332          22     3456666667777755  6999999975432 


Q ss_pred             -----hhhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         139 -----TIIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       139 -----~l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                           ...+.|+  .+.|++|-|.|++|.+.  ++ .+--++.+  -++|++++.|++|..+++.+. -+.+++.+..|+
T Consensus        66 ~S~DE~Var~~ll~~~~D~ivnVvDAtnLeR--nL-yltlQLlE--~g~p~ilaLNm~D~A~~~Gi~-ID~~~L~~~LGv  139 (653)
T COG0370          66 YSEDEKVARDFLLEGKPDLIVNVVDATNLER--NL-YLTLQLLE--LGIPMILALNMIDEAKKRGIR-IDIEKLSKLLGV  139 (653)
T ss_pred             CCchHHHHHHHHhcCCCCEEEEEcccchHHH--HH-HHHHHHHH--cCCCeEEEeccHhhHHhcCCc-ccHHHHHHHhCC
Confidence                 2333444  46799999999998642  22 12222333  358999999999986654443 345678888999


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      |.+++||++|.|++++.+.+.+....+.
T Consensus       140 PVv~tvA~~g~G~~~l~~~i~~~~~~~~  167 (653)
T COG0370         140 PVVPTVAKRGEGLEELKRAIIELAESKT  167 (653)
T ss_pred             CEEEEEeecCCCHHHHHHHHHHhccccc
Confidence            9999999999999999999988764443

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.34  E-value=3e-11  Score=111.17  Aligned_cols=157  Identities=18%  Similarity=0.213  Sum_probs=99.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC---
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ---  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~---  134 (432)
                      +...-|+++|.+|||||||||.++.......          .+.+.|.+     -....+.++++   +.++|.||-   
T Consensus        22 ~~~~EIaF~GRSNVGKSSlIN~l~~~k~LAr----------tSktPGrT-----q~iNff~~~~~---~~lVDlPGYGyA   83 (200)
T COG0218          22 DDLPEIAFAGRSNVGKSSLINALTNQKNLAR----------TSKTPGRT-----QLINFFEVDDE---LRLVDLPGYGYA   83 (200)
T ss_pred             CCCcEEEEEccCcccHHHHHHHHhCCcceee----------cCCCCCcc-----ceeEEEEecCc---EEEEeCCCcccc
Confidence            3556899999999999999999844333322          22233311     11223334443   689999993   


Q ss_pred             -------cccchhhhhccc---CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH
Q psy3450         135 -------GRFCTIIRSYSR---GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM  204 (432)
Q Consensus       135 -------e~~~~l~~~~~~---~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~  204 (432)
                             +.+..+...|++   +-.+++++.|+.....-.+ .+.++.+..  .++|++||.||+|.....+.. .....
T Consensus        84 kv~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D-~em~~~l~~--~~i~~~vv~tK~DKi~~~~~~-k~l~~  159 (200)
T COG0218          84 KVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLD-REMIEFLLE--LGIPVIVVLTKADKLKKSERN-KQLNK  159 (200)
T ss_pred             cCCHHHHHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHH-HHHHHHHHH--cCCCeEEEEEccccCChhHHH-HHHHH
Confidence                   344555566764   3578888999877644332 233343333  358999999999986533221 11222


Q ss_pred             HHHhc----CCc--EEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         205 YAIKN----QMA--FFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       205 ~a~~~----~~~--~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      .++..    ...  ++..|+.++.|++++...|.+.+.
T Consensus       160 v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~  197 (200)
T COG0218         160 VAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLK  197 (200)
T ss_pred             HHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhh
Confidence            33222    222  778899999999999999887763

>PRK13351 elongation factor G; Reviewed

Probab=99.33  E-value=1.1e-11  Score=136.22  Aligned_cols=130  Identities=15%  Similarity=0.238  Sum_probs=84.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCC-cc--cccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRF-PR--FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~-~~--~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ...+|+|+|..++|||||+++|...... ..  ....+.+...+.+.......++......+..+  ..++++|||||+.
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~--~~~i~liDtPG~~   84 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWD--NHRINLIDTPGHI   84 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEEC--CEEEEEEECCCcH
Confidence            4579999999999999999998432111 00  00000010000000001112233333444444  4678999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      +|...+..+++.+|++|+|+|+++....+....| ..+..  .++|+++|+||+|+..
T Consensus        85 df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~--~~~p~iiviNK~D~~~  139 (687)
T PRK13351         85 DFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR--YGIPRLIFINKMDRVG  139 (687)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh--cCCCEEEEEECCCCCC
Confidence            9988888999999999999999988777665555 33333  3589999999999853

>CHL00071 tufA elongation factor Tu

Probab=99.33  E-value=1.7e-11  Score=126.72  Aligned_cols=157  Identities=13%  Similarity=0.114  Sum_probs=94.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCc------ccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFP------RFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~------~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ...++|+++|.+++|||||+++|+......      ....-.........  |   .|++....  .+..+..++.|.||
T Consensus        10 ~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~r--g---~T~~~~~~--~~~~~~~~~~~iDt   82 (409)
T CHL00071         10 KPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKAR--G---ITINTAHV--EYETENRHYAHVDC   82 (409)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcC--C---EeEEccEE--EEccCCeEEEEEEC
Confidence            456899999999999999999984321100      00000000111111  1   12232222  23334456789999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCccc---CHHHHHHHHH
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTV---TTREAEMYAI  207 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v---~~ee~~~~a~  207 (432)
                      ||+.+|.......+..+|++++|+|+..... ....+.+..+...  ++| +|+|.||+|+.+..+.   ..+++..+.+
T Consensus        83 PGh~~~~~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~~--g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~  159 (409)
T CHL00071         83 PGHADYVKNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAKQV--GVPNIVVFLNKEDQVDDEELLELVELEVRELLS  159 (409)
T ss_pred             CChHHHHHHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHHHc--CCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHH
Confidence            9988775555556788999999999886532 2223344444433  478 7789999999653221   1234555555


Q ss_pred             hcC-----CcEEEEcCCCCCCH
Q psy3450         208 KNQ-----MAFFEVSPLCDFNI  224 (432)
Q Consensus       208 ~~~-----~~~~evSAktg~nI  224 (432)
                      ..+     ++++.+||.+|.|+
T Consensus       160 ~~~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        160 KYDFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             HhCCCCCcceEEEcchhhcccc
Confidence            543     68999999999754

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.32  E-value=2e-11  Score=119.34  Aligned_cols=155  Identities=14%  Similarity=0.149  Sum_probs=91.1

Q ss_pred             EEEEeCcccchhHHHHHhhhcC-CCCcc--cccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLE-SRFPR--FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~-~~~~~--~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +|+++|.+|+|||||+++++.. +....  ...++.....+.+.......+++.....+..++  .++.+|||||..+|.
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~~df~   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKD--HRINIIDTPGHVDFT   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECC--EEEEEEECCCcHHHH
Confidence            4789999999999999998321 11110  000111111111111111223444445555554  677999999998888


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc-ccCHHHHHHHHHhcCC-cEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR-TVTTREAEMYAIKNQM-AFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r-~v~~ee~~~~a~~~~~-~~~ev  216 (432)
                      ..+..+++.+|++|+|+|+.+...-.. ..++..+..  .++|++++.||+|+.... ....+++++......+ ..+++
T Consensus        79 ~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~--~~~p~ivviNK~D~~~a~~~~~~~~l~~~l~~~~~~~~~Pi  155 (270)
T cd01886          79 IEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADR--YNVPRIAFVNKMDRTGADFFRVVEQIREKLGANPVPLQLPI  155 (270)
T ss_pred             HHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHH--cCCCEEEEEECCCCCCCCHHHHHHHHHHHhCCCceEEEecc
Confidence            878889999999999999987543222 334444443  348999999999986421 1112222222222222 46788


Q ss_pred             cCCCC
Q psy3450         217 SPLCD  221 (432)
Q Consensus       217 SAktg  221 (432)
                      |+..+
T Consensus       156 sa~~~  160 (270)
T cd01886         156 GEEDD  160 (270)
T ss_pred             ccCCC
Confidence            88744

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

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.31  E-value=7.5e-12  Score=120.71  Aligned_cols=96  Identities=17%  Similarity=0.236  Sum_probs=81.2

Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                      ++|..+.+.+++++|++++|||++++. +|+.+.+|+..+..  .++|++||+||+||.+++++..+.+..+. +.++++
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~--~~i~~vIV~NK~DL~~~~~~~~~~~~~~~-~~g~~v  100 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA--QNIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGYQV  100 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH--CCCCEEEEEECcccCCCHHHHHHHHHHHH-HCCCeE
Confidence            678888889999999999999999887 89999999987754  56899999999999765555545555554 578899


Q ss_pred             EEEcCCCCCCHHHHHHHHHH
Q psy3450         214 FEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~  233 (432)
                      +++||++|.|++++|+.+..
T Consensus       101 ~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       101 LMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEecCCchhHHHHHhhhcC
Confidence            99999999999999998764

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.31  E-value=2.5e-11  Score=126.68  Aligned_cols=159  Identities=15%  Similarity=0.169  Sum_probs=100.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcccc--------------------cCCCCcCccccCCCccccccceeEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW--------------------LDGSSESPFCSGSGKYDDMLAYKTTT  116 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~--------------------~~~~~~~~~~~~ig~~~~tid~~~~~  116 (432)
                      .+.++|+++|..++|||||+.+|+.. +......                    .-.........+     .|++..  .
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rG-----iTi~~~--~   77 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERG-----ITIDIA--L   77 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcC-----ceEEEE--E
Confidence            34588999999999999999987321 1111100                    000000011111     123332  2


Q ss_pred             EEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChh-------hHHHHHHHHHhhCCCC-cEEEEEEC
Q psy3450         117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD-------GIDRWLKEVEEHAPGV-PKVLVGNR  188 (432)
Q Consensus       117 i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~-------~l~~~l~~i~~~~~~i-PiILVgNK  188 (432)
                      ..+......+.|+||||+++|.......+..+|++|+|+|+++. .|+       ...+.+..+..  .++ ++|+++||
T Consensus        78 ~~~~~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~--~gi~~iIV~vNK  154 (447)
T PLN00043         78 WKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFT--LGVKQMICCCNK  154 (447)
T ss_pred             EEecCCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHH--cCCCcEEEEEEc
Confidence            33444556789999999999988778888999999999999873 333       23333332322  246 47889999


Q ss_pred             ccCCCCc--c----cCHHHHHHHHHhcC-----CcEEEEcCCCCCCHHH
Q psy3450         189 LHLAFNR--T----VTTREAEMYAIKNQ-----MAFFEVSPLCDFNIRE  226 (432)
Q Consensus       189 ~DL~~~r--~----v~~ee~~~~a~~~~-----~~~~evSAktg~nI~e  226 (432)
                      +|+.+..  +    ...++++.++++.+     ++|+++||++|.|+.+
T Consensus       155 mD~~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        155 MDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             ccCCchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            9985210  0    11345666777665     5799999999999854

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.30  E-value=3.1e-11  Score=128.22  Aligned_cols=130  Identities=15%  Similarity=0.170  Sum_probs=80.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc-CCCCcccc-cC----CCCc-CccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL-ESRFPRFW-LD----GSSE-SPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~-~~~~~~~~-~~----~~~~-~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      +...+|+|+|..++|||||+++|+. .+...... ..    +... ..+.+..  ....+.+....+.++.+.+++++||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E--~~rgiSi~~~~~~~~~~~~~inliD   85 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEME--KQRGISVTSSVMQFPYRDCLINLLD   85 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHH--HhhCCceeeeeEEEEECCEEEEEEE
Confidence            3456899999999999999999842 12111000 00    0000 0000000  0001223333333334457789999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      |||+++|......+++.+|++|+|+|+++...- ....++.....  .++|+++++||+|+.
T Consensus        86 TPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~--~~iPiiv~iNK~D~~  144 (526)
T PRK00741         86 TPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL--RDTPIFTFINKLDRD  144 (526)
T ss_pred             CCCchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh--cCCCEEEEEECCccc
Confidence            999999887777788999999999999875422 23444444433  368999999999984

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.30  E-value=5.2e-12  Score=107.17  Aligned_cols=113  Identities=23%  Similarity=0.183  Sum_probs=80.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccc-cCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFC-SGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~-~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      +||+++|+.|||||+|+.++ ....|         ...+. +++|                                +..
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~-~~~~~---------~~~~~~~t~~--------------------------------~~~   38 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARF-VQFPF---------DYVPTVFTIG--------------------------------IDV   38 (124)
T ss_pred             CEEEEECCCChhHHHHHHHH-hcCCc---------cccCceehhh--------------------------------hhh
Confidence            58999999999999999997 32222         21111 1111                                233


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +...+++.++.+++|||.++.++++.+  |...+.... .++|.++++||.|+.+++++..+++.        .|+++|+
T Consensus        39 ~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~~s~  108 (124)
T smart00010       39 YDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGL--------EFAETSA  108 (124)
T ss_pred             ccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHH--------HHHHHhC
Confidence            344677889999999999999998766  887776544 57899999999998544444433333        4567899


Q ss_pred             CCCCCHH
Q psy3450         219 LCDFNIR  225 (432)
Q Consensus       219 ktg~nI~  225 (432)
                      ++|.|+.
T Consensus       109 ~~~~~~~  115 (124)
T smart00010      109 KTPEEGE  115 (124)
T ss_pred             CCcchhh
Confidence            9999884

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

>KOG1191|consensus

Probab=99.30  E-value=1.2e-11  Score=126.18  Aligned_cols=166  Identities=23%  Similarity=0.183  Sum_probs=108.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc-
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR-  136 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~-  136 (432)
                      +..++|+++|+||||||||+|.|...           .....++..|+++|.++   ..++++|.  .+.+.||+|..+ 
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~-----------drsIVSpv~GTTRDaie---a~v~~~G~--~v~L~DTAGiRe~  329 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSRE-----------DRSIVSPVPGTTRDAIE---AQVTVNGV--PVRLSDTAGIREE  329 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcC-----------CceEeCCCCCcchhhhe---eEeecCCe--EEEEEeccccccc
Confidence            34489999999999999999998222           22335566676655444   55668884  468899999754 


Q ss_pred             cchh--------hhhcccCceEEEEEEeC--CCCCChhhHHHHHHHHHhhC-------CCCcEEEEEECccCCCC-cccC
Q psy3450         137 FCTI--------IRSYSRGAQGILLVYDI--TNKWSFDGIDRWLKEVEEHA-------PGVPKVLVGNRLHLAFN-RTVT  198 (432)
Q Consensus       137 ~~~l--------~~~~~~~ad~iIlV~Dv--t~~~Sf~~l~~~l~~i~~~~-------~~iPiILVgNK~DL~~~-r~v~  198 (432)
                      -...        ....++.+|++++|+|+  ++-++...+.+.++....-.       .+.|++++.||+|+..+ ++..
T Consensus       330 ~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~  409 (531)
T KOG1191|consen  330 SNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMT  409 (531)
T ss_pred             cCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCcccccc
Confidence            1111        12346789999999999  44444444445554443221       24789999999999643 2222


Q ss_pred             HHHHHHHHHhc---CC-cEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         199 TREAEMYAIKN---QM-AFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       199 ~ee~~~~a~~~---~~-~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ... ..+....   .+ ...++|++++++++++.+.+.+.+.....
T Consensus       410 ~~~-~~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~~~~~~~~  454 (531)
T KOG1191|consen  410 KIP-VVYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLNIVERLVV  454 (531)
T ss_pred             CCc-eeccccccCcccceEEEeeechhhhHHHHHHHHHHHHHHhhc
Confidence            111 1111111   13 35569999999999999999988866443

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.30  E-value=9.2e-12  Score=121.50  Aligned_cols=166  Identities=18%  Similarity=0.209  Sum_probs=100.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCccc---ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRF---WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~---~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +|+++|.+|+|||||+++++........   ...+.....+.+..-....++......+..++  +++++|||||..+|.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~--~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKG--HKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECC--EEEEEEECcCHHHHH
Confidence            4799999999999999997332111000   00111000000000000112233334444444  668999999998887


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHH-HHHHHHHhcCCcE--EE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTR-EAEMYAIKNQMAF--FE  215 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~e-e~~~~a~~~~~~~--~e  215 (432)
                      ..+..+++.+|++++|+|+++.........| ..+..  .++|+++|+||+|+...   ..+ ....+.+.++.++  +.
T Consensus        79 ~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~--~~~p~iivvNK~D~~~~---~~~~~~~~l~~~~~~~~~~~~  152 (268)
T cd04170          79 GETRAALRAADAALVVVSAQSGVEVGTEKLW-EFADE--AGIPRIIFINKMDRERA---DFDKTLAALQEAFGRPVVPLQ  152 (268)
T ss_pred             HHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH--cCCCEEEEEECCccCCC---CHHHHHHHHHHHhCCCeEEEE
Confidence            7778889999999999999987655433333 23333  35899999999998643   223 2334444455543  45


Q ss_pred             EcCCCCCCHHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i  235 (432)
                      +...+|.++..+.+.+....
T Consensus       153 ip~~~~~~~~~~vd~~~~~~  172 (268)
T cd04170         153 LPIGEGDDFKGVVDLLTEKA  172 (268)
T ss_pred             ecccCCCceeEEEEcccCEE
Confidence            56788888877766665444

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

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.30  E-value=2.3e-11  Score=132.44  Aligned_cols=164  Identities=16%  Similarity=0.116  Sum_probs=95.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccc----------cCCCCcCcc--------ccCCCccccccceeEEEEEEC
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFW----------LDGSSESPF--------CSGSGKYDDMLAYKTTTILLD  120 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~----------~~~~~~~~~--------~~~ig~~~~tid~~~~~i~i~  120 (432)
                      ..++|+++|.+++|||||+++|+.........          ..+.+....        .+.......|++.....+..+
T Consensus        23 ~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~~  102 (632)
T PRK05506         23 SLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFATP  102 (632)
T ss_pred             CeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEccC
Confidence            45799999999999999999985433221100          011100000        000000112234333333334


Q ss_pred             CeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH-
Q psy3450         121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT-  199 (432)
Q Consensus       121 ~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~-  199 (432)
                      +  .++.|+||||+++|.......+..+|++|+|+|++....-+. .+.+..+... ...+++||.||+|+.+..+... 
T Consensus       103 ~--~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t-~e~~~~~~~~-~~~~iivvvNK~D~~~~~~~~~~  178 (632)
T PRK05506        103 K--RKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQT-RRHSFIASLL-GIRHVVLAVNKMDLVDYDQEVFD  178 (632)
T ss_pred             C--ceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccC-HHHHHHHHHh-CCCeEEEEEEecccccchhHHHH
Confidence            4  467899999998875544456789999999999976532222 2222222222 2257889999999864211111 


Q ss_pred             ---HHHHHHHHhcC---CcEEEEcCCCCCCHHH
Q psy3450         200 ---REAEMYAIKNQ---MAFFEVSPLCDFNIRE  226 (432)
Q Consensus       200 ---ee~~~~a~~~~---~~~~evSAktg~nI~e  226 (432)
                         ++...+.++.+   .+++++||++|.|+++
T Consensus       179 ~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        179 EIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence               22333444555   3699999999999975

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.29  E-value=3.1e-11  Score=115.15  Aligned_cols=159  Identities=14%  Similarity=0.203  Sum_probs=99.5

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh-
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI-  140 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l-  140 (432)
                      ||+++|+.++||||+.+.+|.+-...           .+...|   .|.+.....+...+ .+.+++||.||+..+... 
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~-----------dT~~L~---~T~~ve~~~v~~~~-~~~l~iwD~pGq~~~~~~~   65 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPR-----------DTLRLE---PTIDVEKSHVRFLS-FLPLNIWDCPGQDDFMENY   65 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GG-----------GGGG--------SEEEEEEECTT-SCEEEEEEE-SSCSTTHTT
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCch-----------hccccC---CcCCceEEEEecCC-CcEEEEEEcCCcccccccc
Confidence            89999999999999999874332111           111111   12244444443333 568999999999765433 


Q ss_pred             ----hhhcccCceEEEEEEeCCCCCChhhH---HHHHHHHHhhCCCCcEEEEEECccCCCC--cccCH----HHHHHHHH
Q psy3450         141 ----IRSYSRGAQGILLVYDITNKWSFDGI---DRWLKEVEEHAPGVPKVLVGNRLHLAFN--RTVTT----REAEMYAI  207 (432)
Q Consensus       141 ----~~~~~~~ad~iIlV~Dvt~~~Sf~~l---~~~l~~i~~~~~~iPiILVgNK~DL~~~--r~v~~----ee~~~~a~  207 (432)
                          ....+++++++|+|+|+.+.+-.+++   ...+..+.+..|++.+-+...|+|+..+  |+...    +.+.+.+.
T Consensus        66 ~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~  145 (232)
T PF04670_consen   66 FNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELE  145 (232)
T ss_dssp             HTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhh
Confidence                45678999999999999865544444   4455556677799999999999998542  22111    22333444


Q ss_pred             hcC---CcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         208 KNQ---MAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       208 ~~~---~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ..+   +.++.+|--+ +.+-+.|..++..+.
T Consensus       146 ~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~Li  176 (232)
T PF04670_consen  146 DLGIEDITFFLTSIWD-ESLYEAWSKIVQKLI  176 (232)
T ss_dssp             HTT-TSEEEEEE-TTS-THHHHHHHHHHHTTS
T ss_pred             hccccceEEEeccCcC-cHHHHHHHHHHHHHc
Confidence            455   7889998876 578888888887764

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.

>KOG0077|consensus

Probab=99.28  E-value=6.1e-12  Score=111.44  Aligned_cols=154  Identities=18%  Similarity=0.287  Sum_probs=109.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..-|++++|-.|+|||||++.| ..++..+          +-|+.       ......+.+.+  ++++.+|.+|+..-+
T Consensus        19 K~gKllFlGLDNAGKTTLLHML-KdDrl~q----------hvPTl-------HPTSE~l~Ig~--m~ftt~DLGGH~qAr   78 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHML-KDDRLGQ----------HVPTL-------HPTSEELSIGG--MTFTTFDLGGHLQAR   78 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHH-ccccccc----------cCCCc-------CCChHHheecC--ceEEEEccccHHHHH
Confidence            3459999999999999999997 2222211          11121       22334445555  678999999998888


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHH---h---c-
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAI---K---N-  209 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~---~---~-  209 (432)
                      ..|..|+..+|++++.+|+-|.+.|.+.++-++.+....  ..+|+++.+||+|.+.  ..++++......   .   . 
T Consensus        79 r~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~--a~se~~l~~~l~l~~~t~~~~  156 (193)
T KOG0077|consen   79 RVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPY--AASEDELRFHLGLSNFTTGKG  156 (193)
T ss_pred             HHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCC--cccHHHHHHHHHHHHHhcccc
Confidence            999999999999999999999999998877666654333  6799999999999853  344444332111   1   1 


Q ss_pred             -------C---CcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         210 -------Q---MAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       210 -------~---~~~~evSAktg~nI~elf~~L~~~  234 (432)
                             +   +..|.||...+.+--+.|.|+...
T Consensus       157 ~v~~~~~~~rp~evfmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  157 KVNLTDSNVRPLEVFMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             cccccCCCCCeEEEEEEEEEccCccceeeeehhhh
Confidence                   1   246778888888877888777543

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.27  E-value=4.9e-11  Score=117.14  Aligned_cols=160  Identities=18%  Similarity=0.183  Sum_probs=104.0

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccc-cccceeEEEEEECCeEEEEEEEeCCCCccc----
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD-DMLAYKTTTILLDGKRVKLQLWDTSGQGRF----  137 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~-~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~----  137 (432)
                      |-+||-||+||||||+.+..                ..|.++.|. ||+....-.+.+++ .-.+.+-|.||.-+-    
T Consensus       162 VGLVG~PNaGKSTlls~vS~----------------AkPKIadYpFTTL~PnLGvV~~~~-~~sfv~ADIPGLIEGAs~G  224 (369)
T COG0536         162 VGLVGLPNAGKSTLLSAVSA----------------AKPKIADYPFTTLVPNLGVVRVDG-GESFVVADIPGLIEGASEG  224 (369)
T ss_pred             cccccCCCCcHHHHHHHHhh----------------cCCcccCCccccccCcccEEEecC-CCcEEEecCcccccccccC
Confidence            56999999999999999711                223333322 22222223333322 234789999996432    


Q ss_pred             chhhhhc---ccCceEEEEEEeCCCCCC---hhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         138 CTIIRSY---SRGAQGILLVYDITNKWS---FDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       138 ~~l~~~~---~~~ad~iIlV~Dvt~~~S---f~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                      ..+-..|   ++++.++++|.|++..+-   .++......++..+.   .+.|.+||+||+|+...++...+....+.+.
T Consensus       225 ~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~  304 (369)
T COG0536         225 VGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEA  304 (369)
T ss_pred             CCccHHHHHHHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHh
Confidence            2222233   467899999999986553   566666677777665   4789999999999654333333333444444


Q ss_pred             cCCcEE-EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         209 NQMAFF-EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       209 ~~~~~~-evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      .+...+ .+||.++.|++++...+.+.+.+..
T Consensus       305 ~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         305 LGWEVFYLISALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             cCCCcceeeehhcccCHHHHHHHHHHHHHHhh
Confidence            444322 2999999999999999998886654

>PLN03126 Elongation factor Tu; Provisional

Probab=99.27  E-value=2.9e-11  Score=126.93  Aligned_cols=159  Identities=13%  Similarity=0.122  Sum_probs=96.6

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCC-----CCcccc-cCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEE
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLES-----RFPRFW-LDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLW  129 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~-----~~~~~~-~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~  129 (432)
                      ...+.++|+++|..++|||||+++|....     .....+ .-+........+     .+++.....+..+  ..++.||
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rG-----iTi~~~~~~~~~~--~~~i~li  149 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARG-----ITINTATVEYETE--NRHYAHV  149 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCC-----eeEEEEEEEEecC--CcEEEEE
Confidence            34567899999999999999999984211     111000 000000111111     1223333333333  4567999


Q ss_pred             eCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCccc---CHHHHHHH
Q psy3450         130 DTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTV---TTREAEMY  205 (432)
Q Consensus       130 Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v---~~ee~~~~  205 (432)
                      |+||+++|......-+..+|++++|+|+.+...-+ ..+++..+...  ++| +|++.||+|+.+..+.   ..+++..+
T Consensus       150 DtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~q-t~e~~~~~~~~--gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~  226 (478)
T PLN03126        150 DCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQ-TKEHILLAKQV--GVPNMVVFLNKQDQVDDEELLELVELEVREL  226 (478)
T ss_pred             ECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHH-HHHHHHHHHHc--CCCeEEEEEecccccCHHHHHHHHHHHHHHH
Confidence            99999988665555667899999999998764322 24444444443  477 7789999999653221   11244455


Q ss_pred             HHhc-----CCcEEEEcCCCCCCH
Q psy3450         206 AIKN-----QMAFFEVSPLCDFNI  224 (432)
Q Consensus       206 a~~~-----~~~~~evSAktg~nI  224 (432)
                      .+..     +++++.+||.+|.|+
T Consensus       227 l~~~g~~~~~~~~vp~Sa~~g~n~  250 (478)
T PLN03126        227 LSSYEFPGDDIPIISGSALLALEA  250 (478)
T ss_pred             HHhcCCCcCcceEEEEEccccccc
Confidence            5553     468999999998653

>TIGR00503 prfC peptide chain release factor 3

Probab=99.25  E-value=8.4e-11  Score=124.94  Aligned_cols=130  Identities=17%  Similarity=0.202  Sum_probs=81.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc-CCCCcccc-c--CCC---CcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL-ESRFPRFW-L--DGS---SESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~-~~~~~~~~-~--~~~---~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      ....+|+|+|.+++|||||+++|+. .+...... .  .+.   ......+..  ....+.+....+.++...+++++||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E--~~rgisi~~~~~~~~~~~~~inliD   86 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEME--KQRGISITTSVMQFPYRDCLVNLLD   86 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHH--HhcCCcEEEEEEEEeeCCeEEEEEE
Confidence            4467999999999999999999733 22221100 0  000   000000000  0011233334444555568889999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      |||+..|......+++.+|++|+|+|+++... .....++...+.  .++|+++++||+|+.
T Consensus        87 TPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~--~~~PiivviNKiD~~  145 (527)
T TIGR00503        87 TPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL--RDTPIFTFMNKLDRD  145 (527)
T ss_pred             CCChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh--cCCCEEEEEECcccc
Confidence            99999887766778899999999999987421 223445544433  458999999999983

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.24  E-value=1.7e-10  Score=120.44  Aligned_cols=168  Identities=13%  Similarity=0.086  Sum_probs=96.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-----CCCcccc-cCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-----SRFPRFW-LDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-----~~~~~~~-~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ...++|+++|..++|||||+++|...     ......+ .-.........+     .|++....  .+..+..++.|+||
T Consensus        59 k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rG-----iTi~~~~~--~~~~~~~~i~~iDt  131 (447)
T PLN03127         59 KPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARG-----ITIATAHV--EYETAKRHYAHVDC  131 (447)
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcC-----ceeeeeEE--EEcCCCeEEEEEEC
Confidence            45689999999999999999997211     0000000 000000111111     22343333  34444457899999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCcccC---HHHHHHHHH
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTVT---TREAEMYAI  207 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v~---~ee~~~~a~  207 (432)
                      ||+++|......-+..+|++++|+|+++...-+ ..+.+..+...  ++| +|+|.||+|+.++.+..   .++..++..
T Consensus       132 PGh~~f~~~~~~g~~~aD~allVVda~~g~~~q-t~e~l~~~~~~--gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~  208 (447)
T PLN03127        132 PGHADYVKNMITGAAQMDGGILVVSAPDGPMPQ-TKEHILLARQV--GVPSLVVFLNKVDVVDDEELLELVEMELRELLS  208 (447)
T ss_pred             CCccchHHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHHc--CCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHH
Confidence            999887554444556799999999987653222 23333434433  478 47889999996432211   112333333


Q ss_pred             hc-----CCcEEEEcCC---CCCC-------HHHHHHHHHHHH
Q psy3450         208 KN-----QMAFFEVSPL---CDFN-------IRESFTELSRRA  235 (432)
Q Consensus       208 ~~-----~~~~~evSAk---tg~n-------I~elf~~L~~~i  235 (432)
                      ..     .++++.+||.   +|.|       +.++++.+...+
T Consensus       209 ~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~l  251 (447)
T PLN03127        209 FYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYI  251 (447)
T ss_pred             HhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhC
Confidence            32     2578888876   4555       566666665543

>PRK00049 elongation factor Tu; Reviewed

Probab=99.24  E-value=1.6e-10  Score=119.05  Aligned_cols=166  Identities=12%  Similarity=0.115  Sum_probs=98.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCC------CCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLES------RFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~------~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ...++|+++|..++|||||+++|+...      .......-.........  |   .|++..  .+.+..+..++.|.||
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~r--g---~Ti~~~--~~~~~~~~~~i~~iDt   82 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKAR--G---ITINTA--HVEYETEKRHYAHVDC   82 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhc--C---eEEeee--EEEEcCCCeEEEEEEC
Confidence            456899999999999999999984310      00000000000000011  1   123332  2333334456789999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEE-EEEECccCCCCccc---CHHHHHHHHH
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKV-LVGNRLHLAFNRTV---TTREAEMYAI  207 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiI-LVgNK~DL~~~r~v---~~ee~~~~a~  207 (432)
                      ||+.+|.......+..+|++++|+|+.+... ....+++..+...  ++|.+ ++.||+|+..+.+.   ..+++..+..
T Consensus        83 PG~~~f~~~~~~~~~~aD~~llVVDa~~g~~-~qt~~~~~~~~~~--g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~  159 (396)
T PRK00049         83 PGHADYVKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV--GVPYIVVFLNKCDMVDDEELLELVEMEVRELLS  159 (396)
T ss_pred             CCHHHHHHHHHhhhccCCEEEEEEECCCCCc-hHHHHHHHHHHHc--CCCEEEEEEeecCCcchHHHHHHHHHHHHHHHH
Confidence            9998876655566789999999999987533 2223444444443  47876 58999998642221   1123444444


Q ss_pred             hc-----CCcEEEEcCCCCCC----------HHHHHHHHHH
Q psy3450         208 KN-----QMAFFEVSPLCDFN----------IRESFTELSR  233 (432)
Q Consensus       208 ~~-----~~~~~evSAktg~n----------I~elf~~L~~  233 (432)
                      ..     +++++.+||++|.+          +.++++.|..
T Consensus       160 ~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~  200 (396)
T PRK00049        160 KYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDS  200 (396)
T ss_pred             hcCCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHh
Confidence            43     36899999998763          4555555554

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.23  E-value=1.8e-10  Score=97.69  Aligned_cols=106  Identities=20%  Similarity=0.236  Sum_probs=66.3

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc----
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF----  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~----  137 (432)
                      ||+|+|.+|+|||||+|.|+..+... .          ....+   .|.......+.+++..+  .|+||||...-    
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~-~----------~~~~~---~T~~~~~~~~~~~~~~~--~~vDtpG~~~~~~~~   64 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAK-V----------SNIPG---TTRDPVYGQFEYNNKKF--ILVDTPGINDGESQD   64 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSE-E----------SSSTT---SSSSEEEEEEEETTEEE--EEEESSSCSSSSHHH
T ss_pred             CEEEECCCCCCHHHHHHHHhcccccc-c----------ccccc---ceeeeeeeeeeeceeeE--EEEeCCCCcccchhh
Confidence            68999999999999999984322111 0          01111   11233334455666554  79999996432    


Q ss_pred             ------chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEEC
Q psy3450         138 ------CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNR  188 (432)
Q Consensus       138 ------~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK  188 (432)
                            .... ..+..+|++++|+|.+++.. +....++.+++   .+.|+++|.||
T Consensus        65 ~~~~~~~~~~-~~~~~~d~ii~vv~~~~~~~-~~~~~~~~~l~---~~~~~i~v~NK  116 (116)
T PF01926_consen   65 NDGKEIRKFL-EQISKSDLIIYVVDASNPIT-EDDKNILRELK---NKKPIILVLNK  116 (116)
T ss_dssp             HHHHHHHHHH-HHHCTESEEEEEEETTSHSH-HHHHHHHHHHH---TTSEEEEEEES
T ss_pred             HHHHHHHHHH-HHHHHCCEEEEEEECCCCCC-HHHHHHHHHHh---cCCCEEEEEcC
Confidence                  1122 23388999999999777321 23344555553   46899999998

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 ....

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.22  E-value=1.3e-10  Score=127.64  Aligned_cols=158  Identities=13%  Similarity=0.129  Sum_probs=96.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCc-c--cccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFP-R--FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~-~--~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .+..-+|+|+|..++|||||+++|....... .  ...++.......+.......|++.....+.+++  .++.+|||||
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~--~~i~liDTPG   84 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKG--HRINIIDTPG   84 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECC--eEEEEEECCC
Confidence            3445699999999999999999983221111 0  000010111111100011233455555555655  6789999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC--
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM--  211 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~--  211 (432)
                      +.+|......+++.+|++|+|+|+++....+... ++..+..  .++|+++|+||+|+....  ..+....+...++.  
T Consensus        85 ~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~-~~~~~~~--~~~p~ivviNK~D~~~~~--~~~~~~~i~~~l~~~~  159 (689)
T TIGR00484        85 HVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSET-VWRQANR--YEVPRIAFVNKMDKTGAN--FLRVVNQIKQRLGANA  159 (689)
T ss_pred             CcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHH-HHHHHHH--cCCCEEEEEECCCCCCCC--HHHHHHHHHHHhCCCc
Confidence            9988777888899999999999999866555433 3333433  358999999999986422  11222333333332  


Q ss_pred             --cEEEEcCCCC
Q psy3450         212 --AFFEVSPLCD  221 (432)
Q Consensus       212 --~~~evSAktg  221 (432)
                        ..+.+|+..+
T Consensus       160 ~~~~ipis~~~~  171 (689)
T TIGR00484       160 VPIQLPIGAEDN  171 (689)
T ss_pred             eeEEeccccCCC
Confidence              3567777666

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.

>PRK09866 hypothetical protein; Provisional

Probab=99.21  E-value=3.6e-10  Score=119.76  Aligned_cols=109  Identities=17%  Similarity=0.189  Sum_probs=75.6

Q ss_pred             EEEEEEeCCCCccc-----chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC
Q psy3450         124 VKLQLWDTSGQGRF-----CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT  198 (432)
Q Consensus       124 v~l~i~Dt~G~e~~-----~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~  198 (432)
                      .++.|+||||...-     .......+.++|+||+|+|.++..+..+ ....+.+++.....|+++|.||+|+.+.....
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAVGQSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcCCCCCEEEEEEcccCCCcccch
Confidence            46789999998642     2223456899999999999987655443 23444455443336999999999985433323


Q ss_pred             HHHHHHHHHh----cC---CcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         199 TREAEMYAIK----NQ---MAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       199 ~ee~~~~a~~----~~---~~~~evSAktg~nI~elf~~L~~  233 (432)
                      .+....+.+.    .+   ..+|++||+.|.|++++++.|..
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            4444444321    12   36999999999999999999876

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.18  E-value=3.3e-10  Score=117.25  Aligned_cols=154  Identities=17%  Similarity=0.154  Sum_probs=102.2

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECC-eEEEEEEEeCCCCcccchh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG-KRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~-~~v~l~i~Dt~G~e~~~~l  140 (432)
                      =|+++|.-.-||||||..+ ......         ..-.-++     |-......+..+. ..-.+.|.||||++.|..|
T Consensus         7 vVtimGHVDHGKTtLLD~I-R~t~Va---------~~EaGGI-----TQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~m   71 (509)
T COG0532           7 VVTIMGHVDHGKTTLLDKI-RKTNVA---------AGEAGGI-----TQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAM   71 (509)
T ss_pred             EEEEeCcccCCccchhhhH-hcCccc---------cccCCce-----eeEeeeEEEEeccCCCceEEEEcCCcHHHHHHH
Confidence            4789999999999999997 222221         1111111     0122233444431 2345899999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC---------
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ---------  210 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~---------  210 (432)
                      +..=..-+|++|||+|++|.---    +-.+.+.+.. .++|++++.||+|..+.   ..+....-..++|         
T Consensus        72 RaRGa~vtDIaILVVa~dDGv~p----QTiEAI~hak~a~vP~iVAiNKiDk~~~---np~~v~~el~~~gl~~E~~gg~  144 (509)
T COG0532          72 RARGASVTDIAILVVAADDGVMP----QTIEAINHAKAAGVPIVVAINKIDKPEA---NPDKVKQELQEYGLVPEEWGGD  144 (509)
T ss_pred             HhcCCccccEEEEEEEccCCcch----hHHHHHHHHHHCCCCEEEEEecccCCCC---CHHHHHHHHHHcCCCHhhcCCc
Confidence            98888889999999999885221    1223333322 57999999999998642   2222222222222         


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ..++++||++|.|+++|++.+.-....
T Consensus       145 v~~VpvSA~tg~Gi~eLL~~ill~aev  171 (509)
T COG0532         145 VIFVPVSAKTGEGIDELLELILLLAEV  171 (509)
T ss_pred             eEEEEeeccCCCCHHHHHHHHHHHHHH
Confidence            479999999999999999998766533

>KOG0462|consensus

Probab=99.17  E-value=1.7e-10  Score=118.84  Aligned_cols=170  Identities=19%  Similarity=0.193  Sum_probs=113.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcc-----cccCCCCcCccccCCCccccccceeEEEE-EECCeEEEEEEEeC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPR-----FWLDGSSESPFCSGSGKYDDMLAYKTTTI-LLDGKRVKLQLWDT  131 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~-----~~~~~~~~~~~~~~ig~~~~tid~~~~~i-~i~~~~v~l~i~Dt  131 (432)
                      +..-++.||-.-.-|||||..+++.-.-+..     ...-+..+-....+|     |+...+..+ +.+|..+.++++||
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGI-----TIkaQtasify~~~~~ylLNLIDT  132 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGI-----TIKAQTASIFYKDGQSYLLNLIDT  132 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCc-----EEEeeeeEEEEEcCCceEEEeecC
Confidence            4455789999999999999999832111110     000011111111222     223333333 33567899999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC-HHHHHHHHHhcC
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT-TREAEMYAIKNQ  210 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~-~ee~~~~a~~~~  210 (432)
                      ||+-+|.......+.-+|++|||+|++..---+.+..++..+.   .+.-+|.|.||+|++..+.-. ..+.+++.....
T Consensus       133 PGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe---~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~  209 (650)
T KOG0462|consen  133 PGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFE---AGLAIIPVLNKIDLPSADPERVENQLFELFDIPP  209 (650)
T ss_pred             CCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHH---cCCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCc
Confidence            9999998888888899999999999987655555555554444   357899999999997543211 122333333334


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+.+.+|||+|.|++++++.+++.+
T Consensus       210 ~~~i~vSAK~G~~v~~lL~AII~rV  234 (650)
T KOG0462|consen  210 AEVIYVSAKTGLNVEELLEAIIRRV  234 (650)
T ss_pred             cceEEEEeccCccHHHHHHHHHhhC
Confidence            5899999999999999999999887

>PRK12739 elongation factor G; Reviewed

Probab=99.17  E-value=5.2e-10  Score=122.99  Aligned_cols=131  Identities=15%  Similarity=0.222  Sum_probs=83.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCccc--ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRF--WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~--~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +...+|+|+|..++|||||+++|+.. +.....  ..++.....+.+.......|++.....+.+++  .++.+|||||+
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~--~~i~liDTPG~   83 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKG--HRINIIDTPGH   83 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECC--EEEEEEcCCCH
Confidence            45678999999999999999998321 111000  00000000011110111233455556666655  56799999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      .+|...+...++.+|++|+|+|+.+...-+.. ..+..+..  .++|+|++.||+|+..
T Consensus        84 ~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~--~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         84 VDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADK--YGVPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHH--cCCCEEEEEECCCCCC
Confidence            88877778888999999999999876543332 33333333  3589999999999853

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.17  E-value=1.6e-10  Score=110.77  Aligned_cols=163  Identities=19%  Similarity=0.199  Sum_probs=104.6

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....++|+++|..|+|||||+|.+|.++..+...          .++|...+  .+.  ...+++  -.+.+||+||.++
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~----------vg~~t~~~--~~~--~~~~~~--~~l~lwDtPG~gd   99 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEVKEVSK----------VGVGTDIT--TRL--RLSYDG--ENLVLWDTPGLGD   99 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccCceeee----------cccCCCch--hhH--Hhhccc--cceEEecCCCccc
Confidence            4456899999999999999999997543332111          11110000  000  112344  3479999999765


Q ss_pred             -------cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCC--------cccC---
Q psy3450         137 -------FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFN--------RTVT---  198 (432)
Q Consensus       137 -------~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~--------r~v~---  198 (432)
                             ++.....++.+.|.++++.|+.|+.---+ .+++..+....-+.+++++.|.+|....        .+.+   
T Consensus       100 g~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d-~~f~~dVi~~~~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~  178 (296)
T COG3596         100 GKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTD-EDFLRDVIILGLDKRVLFVVTQADRAEPGREWDSAGHQPSPAI  178 (296)
T ss_pred             chhhhHHHHHHHHHHhhhccEEEEeccCCCccccCC-HHHHHHHHHhccCceeEEEEehhhhhccccccccccCCCCHHH
Confidence                   56667778899999999999988742222 3445555555455899999999997432        1111   


Q ss_pred             ----HHHHHHHHHhcC--CcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         199 ----TREAEMYAIKNQ--MAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       199 ----~ee~~~~a~~~~--~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                          .+.++...+...  -|++.++...+.|++++...+++.+-
T Consensus       179 ~qfi~~k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp  222 (296)
T COG3596         179 KQFIEEKAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALP  222 (296)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCc
Confidence                111111111111  37888889999999999999999884

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.16  E-value=3.4e-10  Score=118.23  Aligned_cols=165  Identities=15%  Similarity=0.111  Sum_probs=94.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcccc-----------cCCCCc----CccccCCCccccccceeEEEEEECC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW-----------LDGSSE----SPFCSGSGKYDDMLAYKTTTILLDG  121 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~-----------~~~~~~----~~~~~~ig~~~~tid~~~~~i~i~~  121 (432)
                      ...++|+++|..++|||||+.+|+.. +......           -.+.+.    ....+..-....|++.....  +..
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~--~~~   82 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWK--FET   82 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEE--Ecc
Confidence            34589999999999999999998331 1111000           000000    00000000011223333333  344


Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCC---Ch---hhHHHHHHHHHhhCCCCc-EEEEEECccCCC-
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKW---SF---DGIDRWLKEVEEHAPGVP-KVLVGNRLHLAF-  193 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~---Sf---~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~-  193 (432)
                      ....+.|+||||+++|.......+..+|++|+|+|+++..   .|   ....+.+..+...  ++| +|++.||+|... 
T Consensus        83 ~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~--gi~~iiv~vNKmD~~~~  160 (446)
T PTZ00141         83 PKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL--GVKQMIVCINKMDDKTV  160 (446)
T ss_pred             CCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc--CCCeEEEEEEccccccc
Confidence            4567899999999988766666678999999999998643   11   1222223333332  455 679999999531 


Q ss_pred             -CcccC----HHHHHHHHHhcC-----CcEEEEcCCCCCCHHH
Q psy3450         194 -NRTVT----TREAEMYAIKNQ-----MAFFEVSPLCDFNIRE  226 (432)
Q Consensus       194 -~r~v~----~ee~~~~a~~~~-----~~~~evSAktg~nI~e  226 (432)
                       ..+-.    .+++..+....+     ++++.+||.+|.|+.+
T Consensus       161 ~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        161 NYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence             11111    223344444333     5799999999999864

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.13  E-value=2.2e-09  Score=99.70  Aligned_cols=160  Identities=14%  Similarity=0.167  Sum_probs=95.5

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch-
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT-  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~-  139 (432)
                      ++|+++|.+|||||||+|.++....+.....          ..+   .|.+.......+++.  ++.++||||...... 
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~----------~~~---~T~~~~~~~~~~~~~--~i~viDTPG~~d~~~~   65 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLS----------ASS---VTKTCQKESAVWDGR--RVNVIDTPGLFDTSVS   65 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccC----------CCC---cccccceeeEEECCe--EEEEEECcCCCCccCC
Confidence            4799999999999999999844443321110          000   111222333344553  579999999654321 


Q ss_pred             -------hh---hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC---CCcEEEEEECccCCCCccc------CHH
Q psy3450         140 -------II---RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP---GVPKVLVGNRLHLAFNRTV------TTR  200 (432)
Q Consensus       140 -------l~---~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~---~iPiILVgNK~DL~~~r~v------~~e  200 (432)
                             +.   .....+.|++|+|.|+.+ .+-++ ...++.+++...   -.++++|.|++|......+      ...
T Consensus        66 ~~~~~~~i~~~~~~~~~g~~~illVi~~~~-~t~~d-~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~  143 (196)
T cd01852          66 PEQLSKEIVRCLSLSAPGPHAFLLVVPLGR-FTEEE-EQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCE  143 (196)
T ss_pred             hHHHHHHHHHHHHhcCCCCEEEEEEEECCC-cCHHH-HHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccH
Confidence                   11   112467899999999887 33222 334444444331   2578999999996432211      113


Q ss_pred             HHHHHHHhcCCcEEEEc-----CCCCCCHHHHHHHHHHHHhh
Q psy3450         201 EAEMYAIKNQMAFFEVS-----PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       201 e~~~~a~~~~~~~~evS-----Aktg~nI~elf~~L~~~i~~  237 (432)
                      ..+.+.++.+-.|+..+     +..+.++++|++.+.+.+.+
T Consensus       144 ~l~~l~~~c~~r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         144 ALKRLLEKCGGRYVAFNNKAKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             HHHHHHHHhCCeEEEEeCCCCcchhHHHHHHHHHHHHHHHHh
Confidence            34555556565555554     45577899999998888754

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).

>PRK12740 elongation factor G; Reviewed

Probab=99.12  E-value=5.1e-10  Score=122.72  Aligned_cols=122  Identities=22%  Similarity=0.290  Sum_probs=77.0

Q ss_pred             eCcccchhHHHHHhhhcCCCCccc---ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhh
Q psy3450          66 VGDSDVGKQEILSGLYLESRFPRF---WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIR  142 (432)
Q Consensus        66 vG~~gvGKSSLln~L~~~~~~~~~---~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~  142 (432)
                      +|..++|||||+++|.........   ...+...............++......+..++  +.+.+|||||+.+|...+.
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~--~~i~liDtPG~~~~~~~~~   78 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKG--HKINLIDTPGHVDFTGEVE   78 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECC--EEEEEEECCCcHHHHHHHH
Confidence            699999999999998332221100   00000000000000001122344444555554  6789999999988877778


Q ss_pred             hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         143 SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      .+++.+|++|+|+|.++.........| ..+..  .++|+++|+||+|+.
T Consensus        79 ~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~--~~~p~iiv~NK~D~~  125 (668)
T PRK12740         79 RALRVLDGAVVVVCAVGGVEPQTETVW-RQAEK--YGVPRIIFVNKMDRA  125 (668)
T ss_pred             HHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH--cCCCEEEEEECCCCC
Confidence            889999999999999987666554444 33333  358999999999985

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.09  E-value=8.5e-10  Score=115.26  Aligned_cols=111  Identities=12%  Similarity=0.136  Sum_probs=73.9

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTRE  201 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~ee  201 (432)
                      ..+.|+|+||++.|....-.-+..+|++++|+|+++...-....+.+..+... .-.++|+|.||+|+.+....  ..++
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~l-gi~~iIVvlNKiDlv~~~~~~~~~~e  195 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIM-KLKHIIILQNKIDLVKEAQAQDQYEE  195 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHc-CCCcEEEEEecccccCHHHHHHHHHH
Confidence            36799999999988555455567899999999998742111112233322222 22468999999999642211  1223


Q ss_pred             HHHHHHh---cCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         202 AEMYAIK---NQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       202 ~~~~a~~---~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +.++.+.   .+.+++++||++|.|+++|++.|.+.+
T Consensus       196 i~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        196 IRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            3333332   256899999999999999999988654

>PRK13768 GTPase; Provisional

Probab=99.09  E-value=5.1e-10  Score=108.52  Aligned_cols=109  Identities=16%  Similarity=0.098  Sum_probs=72.2

Q ss_pred             EEEEEeCCCCccc---chhhhhcc---cC--ceEEEEEEeCCCCCChhhH--HHHHHHHHhhCCCCcEEEEEECccCCCC
Q psy3450         125 KLQLWDTSGQGRF---CTIIRSYS---RG--AQGILLVYDITNKWSFDGI--DRWLKEVEEHAPGVPKVLVGNRLHLAFN  194 (432)
Q Consensus       125 ~l~i~Dt~G~e~~---~~l~~~~~---~~--ad~iIlV~Dvt~~~Sf~~l--~~~l~~i~~~~~~iPiILVgNK~DL~~~  194 (432)
                      .+.+||+||+.++   ...+..++   ..  ++++++|+|.+......+.  ..|+........++|+++|.||+|+...
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~~~~  177 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADLLSE  177 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhhcCc
Confidence            5799999998663   33333332   22  8999999999765544333  3344333322346899999999998653


Q ss_pred             cccCHHHHHH----------------------------HHHhcC--CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         195 RTVTTREAEM----------------------------YAIKNQ--MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       195 r~v~~ee~~~----------------------------~a~~~~--~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+.  ++...                            ..++.+  .+++++||+++.|++++.++|.+.+
T Consensus       178 ~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        178 EEL--ERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             hhH--HHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            221  11111                            122333  5889999999999999999998876

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.07  E-value=2.5e-10  Score=104.68  Aligned_cols=113  Identities=24%  Similarity=0.354  Sum_probs=67.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-CCeEEEEEEEeCCCCcccchh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-DGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      -|+++|+.|+|||+|..+| ..+.+         ..+++.-.        .. ....+ +...-.+.++|+||+++.+..
T Consensus         5 ~vlL~Gps~SGKTaLf~~L-~~~~~---------~~T~tS~e--------~n-~~~~~~~~~~~~~~lvD~PGH~rlr~~   65 (181)
T PF09439_consen    5 TVLLVGPSGSGKTALFSQL-VNGKT---------VPTVTSME--------NN-IAYNVNNSKGKKLRLVDIPGHPRLRSK   65 (181)
T ss_dssp             EEEEE-STTSSHHHHHHHH-HHSS------------B---SS--------EE-EECCGSSTCGTCECEEEETT-HCCCHH
T ss_pred             eEEEEcCCCCCHHHHHHHH-hcCCc---------CCeecccc--------CC-ceEEeecCCCCEEEEEECCCcHHHHHH
Confidence            5899999999999999998 22222         11111110        00 01111 122335799999999988764


Q ss_pred             hhh---cccCceEEEEEEeCCC-CCChhhHHHHHHHHHhh----CCCCcEEEEEECccCCC
Q psy3450         141 IRS---YSRGAQGILLVYDITN-KWSFDGIDRWLKEVEEH----APGVPKVLVGNRLHLAF  193 (432)
Q Consensus       141 ~~~---~~~~ad~iIlV~Dvt~-~~Sf~~l~~~l~~i~~~----~~~iPiILVgNK~DL~~  193 (432)
                      ...   +...+.+||||+|.+. +....++.+++..+...    ...+|++|+.||.|+..
T Consensus        66 ~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~  126 (181)
T PF09439_consen   66 LLDELKYLSNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFT  126 (181)
T ss_dssp             HHHHHHHHGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT
T ss_pred             HHHhhhchhhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccc
Confidence            333   4788999999999873 34455555555544321    25689999999999853

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.06  E-value=1.1e-09  Score=123.20  Aligned_cols=104  Identities=22%  Similarity=0.220  Sum_probs=73.2

Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC---CChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC----
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK---WSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT----  198 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~---~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~----  198 (432)
                      +.||||||++.|..+....+..+|++++|+|+++.   .+++.+    ..+..  .++|+++|+||+|+.......    
T Consensus       528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I----~~lk~--~~iPiIVViNKiDL~~~~~~~~~~~  601 (1049)
T PRK14845        528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAI----NILRQ--YKTPFVVAANKIDLIPGWNISEDEP  601 (1049)
T ss_pred             EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHH----HHHHH--cCCCEEEEEECCCCccccccccchh
Confidence            79999999999988888888999999999999873   333333    23333  258999999999995322110    


Q ss_pred             ------------HHHHH----H----HHH------------hc--CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         199 ------------TREAE----M----YAI------------KN--QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       199 ------------~ee~~----~----~a~------------~~--~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                                  .++..    +    +++            ++  .++++++||++|.||++++..|....
T Consensus       602 ~~~~~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~  672 (1049)
T PRK14845        602 FLLNFNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA  672 (1049)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence                        01110    0    111            11  25899999999999999998876543

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.04  E-value=5.5e-10  Score=94.83  Aligned_cols=137  Identities=18%  Similarity=0.111  Sum_probs=91.8

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      |+++||..|+|||||.+.+..+....                        -++.-++++++    -.+||||.---...+
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~ly------------------------kKTQAve~~d~----~~IDTPGEy~~~~~~   54 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDTLY------------------------KKTQAVEFNDK----GDIDTPGEYFEHPRW   54 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchhhh------------------------cccceeeccCc----cccCCchhhhhhhHH
Confidence            78999999999999999982222111                        11122223332    246999853222222


Q ss_pred             ----hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-cEEEE
Q psy3450         142 ----RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-AFFEV  216 (432)
Q Consensus       142 ----~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~~~ev  216 (432)
                          -....++|++++|-.+++++|--.     ..+.... ..|+|-|.+|.||.+..  ..+..++|..+-|. ++|++
T Consensus        55 Y~aL~tt~~dadvi~~v~~and~~s~f~-----p~f~~~~-~k~vIgvVTK~DLaed~--dI~~~~~~L~eaGa~~IF~~  126 (148)
T COG4917          55 YHALITTLQDADVIIYVHAANDPESRFP-----PGFLDIG-VKKVIGVVTKADLAEDA--DISLVKRWLREAGAEPIFET  126 (148)
T ss_pred             HHHHHHHhhccceeeeeecccCccccCC-----ccccccc-ccceEEEEecccccchH--hHHHHHHHHHHcCCcceEEE
Confidence                234589999999999999875221     1122222 24699999999997533  33456677777787 89999


Q ss_pred             cCCCCCCHHHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELSRR  234 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~  234 (432)
                      |+.++.|++++++.|...
T Consensus       127 s~~d~~gv~~l~~~L~~~  144 (148)
T COG4917         127 SAVDNQGVEELVDYLASL  144 (148)
T ss_pred             eccCcccHHHHHHHHHhh
Confidence            999999999999998753

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.03  E-value=1.7e-09  Score=110.00  Aligned_cols=163  Identities=18%  Similarity=0.190  Sum_probs=108.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcC-CC-----CcccccCCCCcCccccCCCccccccceeEEEEEE---CCeEEEEEEEeC
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLE-SR-----FPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL---DGKRVKLQLWDT  131 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~-~~-----~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~Dt  131 (432)
                      -++.++-.-.-|||||..|++-. +.     +....++ ..+-....++     |+......+.+   +|+.+.|+++||
T Consensus        10 RNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LD-sMdiERERGI-----TIKaq~v~l~Yk~~~g~~Y~lnlIDT   83 (603)
T COG0481          10 RNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLD-SMDIERERGI-----TIKAQAVRLNYKAKDGETYVLNLIDT   83 (603)
T ss_pred             cceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhh-hhhhHhhcCc-----eEEeeEEEEEEEeCCCCEEEEEEcCC
Confidence            35677777788999999998221 01     1000011 0111111122     12333333322   568899999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHH-HHHHHhcC
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREA-EMYAIKNQ  210 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~-~~~a~~~~  210 (432)
                      ||+-.|..-....+..|.+.|||+|++..-.-+.+...+..+.+   +.-+|-|.||+||+..   ..+.. .+.-.-.|
T Consensus        84 PGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~---~LeIiPViNKIDLP~A---dpervk~eIe~~iG  157 (603)
T COG0481          84 PGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN---NLEIIPVLNKIDLPAA---DPERVKQEIEDIIG  157 (603)
T ss_pred             CCccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc---CcEEEEeeecccCCCC---CHHHHHHHHHHHhC
Confidence            99998877777778899999999999977555556666655554   4789999999999642   22222 23333345


Q ss_pred             C---cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         211 M---AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       211 ~---~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +   ..+.+|||+|.||+++++.+++.+
T Consensus       158 id~~dav~~SAKtG~gI~~iLe~Iv~~i  185 (603)
T COG0481         158 IDASDAVLVSAKTGIGIEDVLEAIVEKI  185 (603)
T ss_pred             CCcchheeEecccCCCHHHHHHHHHhhC
Confidence            4   578999999999999999999887

>PRK00007 elongation factor G; Reviewed

Probab=99.01  E-value=3.9e-09  Score=116.08  Aligned_cols=157  Identities=14%  Similarity=0.167  Sum_probs=93.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc-CCCCcc--cccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL-ESRFPR--FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~-~~~~~~--~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +...+|+|+|.+++|||||+++|+. .+....  ...++.....+.+.......|++.....+.+++  .++.++||||.
T Consensus         8 ~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~--~~~~liDTPG~   85 (693)
T PRK00007          8 ERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKD--HRINIIDTPGH   85 (693)
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECC--eEEEEEeCCCc
Confidence            4567999999999999999999832 111100  000000000000000011123455455555655  56799999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC---
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM---  211 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~---  211 (432)
                      .+|.......++.+|++|+|+|+.....-+...-| ..+...  ++|+|++.||+|+....  ..+....+.+.++.   
T Consensus        86 ~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~-~~~~~~--~~p~iv~vNK~D~~~~~--~~~~~~~i~~~l~~~~~  160 (693)
T PRK00007         86 VDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVW-RQADKY--KVPRIAFVNKMDRTGAD--FYRVVEQIKDRLGANPV  160 (693)
T ss_pred             HHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHH-HHHHHc--CCCEEEEEECCCCCCCC--HHHHHHHHHHHhCCCee
Confidence            88766566677899999999998876544443333 333333  47999999999986432  12222333334432   


Q ss_pred             -cEEEEcCCCC
Q psy3450         212 -AFFEVSPLCD  221 (432)
Q Consensus       212 -~~~evSAktg  221 (432)
                       ..+.+||..+
T Consensus       161 ~~~ipisa~~~  171 (693)
T PRK00007        161 PIQLPIGAEDD  171 (693)
T ss_pred             eEEecCccCCc
Confidence             4567787766

>TIGR00101 ureG urease accessory protein UreG

Probab=99.00  E-value=1.7e-09  Score=101.12  Aligned_cols=103  Identities=16%  Similarity=0.080  Sum_probs=65.3

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      ....++++.|..--.... ..  -+|.+|.|+|+.+.++..  ..+..++.     ..=++|+||+|+.+......+...
T Consensus        92 ~D~iiIEt~G~~l~~~~~-~~--l~~~~i~vvD~~~~~~~~--~~~~~qi~-----~ad~~~~~k~d~~~~~~~~~~~~~  161 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFS-PE--LADLTIFVIDVAAGDKIP--RKGGPGIT-----RSDLLVINKIDLAPMVGADLGVME  161 (199)
T ss_pred             CCEEEEECCCCCcccccc-hh--hhCcEEEEEEcchhhhhh--hhhHhHhh-----hccEEEEEhhhccccccccHHHHH
Confidence            456788888842211221 11  268899999998765422  11122221     122899999999642222334444


Q ss_pred             HHHHh--cCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         204 MYAIK--NQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       204 ~~a~~--~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +.++.  .+.+++++||++|.|++++|+++.+.++
T Consensus       162 ~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       162 RDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            44444  3579999999999999999999987654

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>KOG1145|consensus

Probab=98.98  E-value=1.3e-08  Score=105.22  Aligned_cols=152  Identities=18%  Similarity=0.182  Sum_probs=102.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      .=|.|+|.-.-||||||..| .+.........+     .+..+|       -+...+. +|+  .+.|.||||+..|..|
T Consensus       154 PVVTiMGHVDHGKTTLLD~l-Rks~VAA~E~GG-----ITQhIG-------AF~V~~p-~G~--~iTFLDTPGHaAF~aM  217 (683)
T KOG1145|consen  154 PVVTIMGHVDHGKTTLLDAL-RKSSVAAGEAGG-----ITQHIG-------AFTVTLP-SGK--SITFLDTPGHAAFSAM  217 (683)
T ss_pred             CeEEEeecccCChhhHHHHH-hhCceehhhcCC-----ccceec-------eEEEecC-CCC--EEEEecCCcHHHHHHH
Confidence            45889999999999999997 333322111111     112223       2222333 453  4699999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHH-HHH------HhcC--
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAE-MYA------IKNQ--  210 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~-~~a------~~~~--  210 (432)
                      +..-.+-+|+++||+.+.|.--    .+-.+.|+... .++|+||..||+|.+.   -..+... ++.      +++|  
T Consensus       218 RaRGA~vtDIvVLVVAadDGVm----pQT~EaIkhAk~A~VpiVvAinKiDkp~---a~pekv~~eL~~~gi~~E~~GGd  290 (683)
T KOG1145|consen  218 RARGANVTDIVVLVVAADDGVM----PQTLEAIKHAKSANVPIVVAINKIDKPG---ANPEKVKRELLSQGIVVEDLGGD  290 (683)
T ss_pred             HhccCccccEEEEEEEccCCcc----HhHHHHHHHHHhcCCCEEEEEeccCCCC---CCHHHHHHHHHHcCccHHHcCCc
Confidence            9988889999999999887532    22233344333 5799999999999753   2233332 222      2233  


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+.+++||++|.|++.|-+.+.-+.
T Consensus       291 VQvipiSAl~g~nl~~L~eaill~A  315 (683)
T KOG1145|consen  291 VQVIPISALTGENLDLLEEAILLLA  315 (683)
T ss_pred             eeEEEeecccCCChHHHHHHHHHHH
Confidence            5799999999999999988877554

>KOG1490|consensus

Probab=98.98  E-value=3.2e-10  Score=115.76  Aligned_cols=206  Identities=15%  Similarity=0.152  Sum_probs=126.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCcc-ccccccccceEEEEEeCcccchhHHHHHhhhcCCCCccccc
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPV-VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWL   91 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~-~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~   91 (432)
                      .|.++++..++..+.|+-+.+.+....-++.+.+.++- .+...-....-.++|+|-||||||||+|.+.....-.    
T Consensus       120 ~dSlyrck~lk~aAlgrm~tv~k~q~~sl~yLeqVrqhl~rlPsIDp~trTlllcG~PNVGKSSf~~~vtradvev----  195 (620)
T KOG1490|consen  120 GDSLYRCKQLKRAALGRMATIIKRQKSSLEYLEQVRQHLSRLPAIDPNTRTLLVCGYPNVGKSSFNNKVTRADDEV----  195 (620)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCCCCcCeEEEecCCCCCcHhhccccccccccc----
Confidence            34555555555566666555544443333333333222 1222223345578999999999999998761111100    


Q ss_pred             CCCCcCccccCCCccccccceeEEEEEE---CCeEEEEEEEeCCCCccc----chhhhh-----cccCceEEEEEEeCCC
Q psy3450          92 DGSSESPFCSGSGKYDDMLAYKTTTILL---DGKRVKLQLWDTSGQGRF----CTIIRS-----YSRGAQGILLVYDITN  159 (432)
Q Consensus        92 ~~~~~~~~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~Dt~G~e~~----~~l~~~-----~~~~ad~iIlV~Dvt~  159 (432)
                           .+|           .|.++.+.+   +-+-..+++.||||.-+.    +..+..     ...--.+|+++.|++.
T Consensus       196 -----qpY-----------aFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe  259 (620)
T KOG1490|consen  196 -----QPY-----------AFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSE  259 (620)
T ss_pred             -----CCc-----------ccccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechh
Confidence                 010           222233322   334456788899996321    111111     1122357899999987


Q ss_pred             CC--ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHH---HHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         160 KW--SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREA---EMYAIKNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       160 ~~--Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~---~~~a~~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ..  |..+.-+++..|+....+.|+|+|.||+|+.....++.+..   +.+....+++++++|+.+.+||-++....++.
T Consensus       260 ~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vrt~ACe~  339 (620)
T KOG1490|consen  260 MCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVRTTACEA  339 (620)
T ss_pred             hhCCCHHHHHHHHHHhHHHhcCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchhceeeHHHHHHHH
Confidence            54  55566778888888888899999999999976555555442   33444456899999999999999999888888


Q ss_pred             Hhhh
Q psy3450         235 ALQR  238 (432)
Q Consensus       235 i~~~  238 (432)
                      ++..
T Consensus       340 LLa~  343 (620)
T KOG1490|consen  340 LLAA  343 (620)
T ss_pred             HHHH
Confidence            7654

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.98  E-value=3.8e-09  Score=106.41  Aligned_cols=162  Identities=14%  Similarity=0.184  Sum_probs=96.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc-CCCCcc--------------------cccCCCCcCccccCCCccccccceeEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL-ESRFPR--------------------FWLDGSSESPFCSGSGKYDDMLAYKTTT  116 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~-~~~~~~--------------------~~~~~~~~~~~~~~ig~~~~tid~~~~~  116 (432)
                      .+.++++++|...+|||||+-+|+- .+.++.                    .|.-.......       .+.+.+....
T Consensus         5 Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeER-------erGvTi~~~~   77 (428)
T COG5256           5 KPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEER-------ERGVTIDVAH   77 (428)
T ss_pred             CCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHH-------hcceEEEEEE
Confidence            3458999999999999999999822 122211                    11111111111       1112333333


Q ss_pred             EEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCC---Ch--hhH-HHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKW---SF--DGI-DRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       117 i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~---Sf--~~l-~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      ..+.-..+.+.|+|+||+..|-.-.-.-...||+.|||+|+.+.+   .|  +.. ++-+- +.....---+|++.||+|
T Consensus        78 ~~fet~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~-La~tlGi~~lIVavNKMD  156 (428)
T COG5256          78 SKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAF-LARTLGIKQLIVAVNKMD  156 (428)
T ss_pred             EEeecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHH-HHHhcCCceEEEEEEccc
Confidence            444455678999999998777544444457799999999998764   11  111 22111 222212235789999999


Q ss_pred             CCCCcccCHHHH----HHHHHhcC-----CcEEEEcCCCCCCHHHH
Q psy3450         191 LAFNRTVTTREA----EMYAIKNQ-----MAFFEVSPLCDFNIRES  227 (432)
Q Consensus       191 L~~~r~v~~ee~----~~~a~~~~-----~~~~evSAktg~nI~el  227 (432)
                      +.+-++-..+++    ..+.+..|     ++|++|||..|.|+.+.
T Consensus       157 ~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         157 LVSWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             ccccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            975333333333    23444444     56999999999998654

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.97  E-value=1.6e-09  Score=119.61  Aligned_cols=132  Identities=16%  Similarity=0.122  Sum_probs=80.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCc-CccccCCCcccccccee--EEEEEECCeEEEEEEEeCCCC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSE-SPFCSGSGKYDDMLAYK--TTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~-~~~~~~ig~~~~tid~~--~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +...+|+++|..++|||||+++|+...........+... ..+.+.......|++..  ...+..++..+++.+|||||+
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            456799999999999999999984321110000000000 00000000001112221  222335667789999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      .+|.......++.+|++|+|+|+.+....+....|.. +..  .++|+++|+||+|..
T Consensus        97 ~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~-~~~--~~~p~ivviNKiD~~  151 (720)
T TIGR00490        97 VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQ-ALK--ENVKPVLFINKVDRL  151 (720)
T ss_pred             cccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHHH-HHH--cCCCEEEEEEChhcc
Confidence            9988777888999999999999987543333233322 222  347889999999984

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.

>KOG3905|consensus

Probab=98.97  E-value=9.6e-09  Score=100.18  Aligned_cols=159  Identities=18%  Similarity=0.309  Sum_probs=108.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEE--ECCeEEEEEEEeCCCCcccc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL--LDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~--i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      -.|+|+|+.++||||||.+|           .+..+.....+.       .|..-.+.  ..+...++.+|-.-|.--..
T Consensus        53 k~VlvlGdn~sGKtsLi~kl-----------qg~e~~KkgsgL-------eY~yl~V~de~RDd~tr~~VWiLDGd~~h~  114 (473)
T KOG3905|consen   53 KNVLVLGDNGSGKTSLISKL-----------QGSETVKKGSGL-------EYLYLHVHDEDRDDLTRCNVWILDGDLYHK  114 (473)
T ss_pred             CeEEEEccCCCchhHHHHHh-----------hcccccCCCCCc-------ceEEEecccccchhhhhcceEEecCchhhh
Confidence            37999999999999999997           222222222233       33322222  22345678889887865555


Q ss_pred             hhhhhcccC----ceEEEEEEeCCCCCCh-hhHHHHHHHHHh--------------------------------------
Q psy3450         139 TIIRSYSRG----AQGILLVYDITNKWSF-DGIDRWLKEVEE--------------------------------------  175 (432)
Q Consensus       139 ~l~~~~~~~----ad~iIlV~Dvt~~~Sf-~~l~~~l~~i~~--------------------------------------  175 (432)
                      .+....+..    --.+||+.|+++++.+ +.+++|..-+++                                      
T Consensus       115 ~LLk~al~ats~aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~  194 (473)
T KOG3905|consen  115 GLLKFALPATSLAETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQ  194 (473)
T ss_pred             hHHhhcccccCccceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcc
Confidence            555444322    2478999999999764 556888776654                                      


Q ss_pred             ------------------------hCCCCcEEEEEECccC----CCCcccC-------HHHHHHHHHhcCCcEEEEcCCC
Q psy3450         176 ------------------------HAPGVPKVLVGNRLHL----AFNRTVT-------TREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       176 ------------------------~~~~iPiILVgNK~DL----~~~r~v~-------~ee~~~~a~~~~~~~~evSAkt  220 (432)
                                              .+-++|++||.+|+|.    +.+.+..       ...+++||-.+|...|.+|+|.
T Consensus       195 ~r~t~~~~~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE  274 (473)
T KOG3905|consen  195 RRTTVVGSSADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKE  274 (473)
T ss_pred             cccccccCccccccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeeccc
Confidence                                    0114799999999998    2222211       2245678888999999999999


Q ss_pred             CCCHHHHHHHHHHHHhh
Q psy3450         221 DFNIRESFTELSRRALQ  237 (432)
Q Consensus       221 g~nI~elf~~L~~~i~~  237 (432)
                      ..||+-+..+|+..++-
T Consensus       275 ~KNidllyKYivhr~yG  291 (473)
T KOG3905|consen  275 TKNIDLLYKYIVHRSYG  291 (473)
T ss_pred             ccchHHHHHHHHHHhcC
Confidence            99999999999988854

>KOG0090|consensus

Probab=98.95  E-value=3.3e-09  Score=98.06  Aligned_cols=152  Identities=21%  Similarity=0.309  Sum_probs=95.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      .|+++|..++|||+|.-+|          ..+.....+..        +.-..-...++...  ..++|.||+.+.+.-.
T Consensus        40 ~Vll~Gl~dSGKT~LF~qL----------~~gs~~~TvtS--------iepn~a~~r~gs~~--~~LVD~PGH~rlR~kl   99 (238)
T KOG0090|consen   40 AVLLVGLSDSGKTSLFTQL----------ITGSHRGTVTS--------IEPNEATYRLGSEN--VTLVDLPGHSRLRRKL   99 (238)
T ss_pred             cEEEEecCCCCceeeeeeh----------hcCCccCeeee--------eccceeeEeecCcc--eEEEeCCCcHHHHHHH
Confidence            6899999999999999998          33322221111        11112222233333  6899999999877766


Q ss_pred             hhccc---CceEEEEEEeCCC-CCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCc------ccCHHHHHH---
Q psy3450         142 RSYSR---GAQGILLVYDITN-KWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNR------TVTTREAEM---  204 (432)
Q Consensus       142 ~~~~~---~ad~iIlV~Dvt~-~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r------~v~~ee~~~---  204 (432)
                      ..++.   .+-+++||+|..- .....++.+++..+.-..    ..+|++|+.||.|+.-.+      +..+.|+..   
T Consensus       100 ~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~  179 (238)
T KOG0090|consen  100 LEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRE  179 (238)
T ss_pred             HHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHH
Confidence            66665   7999999999753 334555655555544322    568999999999983210      001111111   


Q ss_pred             ---------------------------HHH--hcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         205 ---------------------------YAI--KNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       205 ---------------------------~a~--~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                                                 |..  ...+.|.|+|++++ +++++-+|+.+.
T Consensus       180 sRsa~~~~~~ed~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  180 SRSALRSISDEDIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             HHhhhhccccccccccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                                       110  12246889999999 899999998764

>KOG1707|consensus

Probab=98.94  E-value=1.5e-08  Score=105.47  Aligned_cols=167  Identities=15%  Similarity=0.181  Sum_probs=115.2

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .+.....+++.++|+.++|||.|++.| .+..+....         +...     ...+....+.+.|..-.+.+-|.+-
T Consensus       419 ~~~~R~Vf~C~V~G~k~~GKs~lL~sf-lgr~~~~~~---------~~~~-----~~~~avn~v~~~g~~k~LiL~ei~~  483 (625)
T KOG1707|consen  419 KQTDRKVFQCFVVGPKNCGKSALLQSF-LGRSMSDNN---------TGTT-----KPRYAVNSVEVKGQQKYLILREIGE  483 (625)
T ss_pred             ccccceeeeEEEEcCCcCchHHHHHHH-hcccccccc---------ccCC-----CCceeeeeeeeccccceEEEeecCc
Confidence            344456789999999999999999996 555443311         1111     1234445555557666677877765


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-c
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-A  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~  212 (432)
                      . ....+...- ..+|++.++||.+++.+|+.+...++..... .+.|+++|+.|+|+.+..+...-+-.++++++++ +
T Consensus       484 ~-~~~~l~~ke-~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~-~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~  560 (625)
T KOG1707|consen  484 D-DQDFLTSKE-AACDVACLVYDSSNPRSFEYLAEVYNKYFDL-YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPP  560 (625)
T ss_pred             c-ccccccCcc-ceeeeEEEecccCCchHHHHHHHHHHHhhhc-cCCceEEEeeccccchhhhccCCChHHHHHhcCCCC
Confidence            4 222222222 6799999999999999999887666654444 6799999999999976443332233788999998 5


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      -+.+|.++... .++|..|+.++....
T Consensus       561 P~~~S~~~~~s-~~lf~kL~~~A~~Ph  586 (625)
T KOG1707|consen  561 PIHISSKTLSS-NELFIKLATMAQYPH  586 (625)
T ss_pred             CeeeccCCCCC-chHHHHHHHhhhCCC
Confidence            66778875334 899999999885543

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.90  E-value=1.4e-08  Score=95.25  Aligned_cols=101  Identities=13%  Similarity=0.050  Sum_probs=62.7

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      ..+.|++|.|.-...   ..+....+..+.|+|+.+.+..  +.... .+    ...|.++|+||+|+........++..
T Consensus       103 ~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~--~~~~~-~~----~~~a~iiv~NK~Dl~~~~~~~~~~~~  172 (207)
T TIGR00073       103 IDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDK--PLKYP-GM----FKEADLIVINKADLAEAVGFDVEKMK  172 (207)
T ss_pred             CCEEEEecCCCcCCC---cccccccCeEEEEEecCcccch--hhhhH-hH----HhhCCEEEEEHHHccccchhhHHHHH
Confidence            456788888821100   1122234556678888765421  11111 11    12578999999999653333334444


Q ss_pred             HHHHhcC--CcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         204 MYAIKNQ--MAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       204 ~~a~~~~--~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      +..++.+  .+++++||++|.|++++|+++.+.
T Consensus       173 ~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       173 ADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             HHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4454443  799999999999999999999875

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.89  E-value=2.3e-08  Score=98.82  Aligned_cols=166  Identities=16%  Similarity=0.137  Sum_probs=93.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...++|+++|.+||||||++|+++....+...    .+.     ..+     ..........++  .++.+|||||..+.
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~~v~~vs----~f~-----s~t-----~~~~~~~~~~~G--~~l~VIDTPGL~d~   99 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGERIATVS----AFQ-----SEG-----LRPMMVSRTRAG--FTLNIIDTPGLIEG   99 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCccccc----CCC-----Ccc-----eeEEEEEEEECC--eEEEEEECCCCCch
Confidence            46789999999999999999998433322110    000     000     011111222344  56899999998654


Q ss_pred             chhh-------hhcc--cCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCC---CCcEEEEEECccCCCCcccCHHHH--
Q psy3450         138 CTII-------RSYS--RGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP---GVPKVLVGNRLHLAFNRTVTTREA--  202 (432)
Q Consensus       138 ~~l~-------~~~~--~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~---~iPiILVgNK~DL~~~r~v~~ee~--  202 (432)
                      ....       ..++  ...|++|+|.+++.. .+.+. ...++.+.....   -.++|||.++.|.......+.++.  
T Consensus       100 ~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~-R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~~e~fv~  178 (313)
T TIGR00991       100 GYINDQAVNIIKRFLLGKTIDVLLYVDRLDAY-RVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLEYNDFFS  178 (313)
T ss_pred             HHHHHHHHHHHHHHhhcCCCCEEEEEeccCcc-cCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCCHHHHHH
Confidence            2221       1222  268999999665532 23322 344555554431   257899999999754333443321  


Q ss_pred             ------HHHHHh-------------cCCcEEEEcCCCCCC-------------HHHHHHHHHHHHhhhcC
Q psy3450         203 ------EMYAIK-------------NQMAFFEVSPLCDFN-------------IRESFTELSRRALQRNG  240 (432)
Q Consensus       203 ------~~~a~~-------------~~~~~~evSAktg~n-------------I~elf~~L~~~i~~~~~  240 (432)
                            +++.++             +....+|-|.....|             +..+++.|.+.+....+
T Consensus       179 ~~~~~lq~~i~~~~~~~~~~~~~~~~pv~lven~~~c~~n~~ge~vlp~g~~w~~~l~~~~~~~~~~~~~  248 (313)
T TIGR00991       179 KRSEALLRVIHSGAGLKKRDYQDFPIPVALVENSGRCKKNESDEKILPDGTPWIPKLMKEITEVISNGSK  248 (313)
T ss_pred             hcHHHHHHHHHHHhcccccccccccCCEEEEecCCcccCCCCCCeECCCCCccHHHHHHHHHHHHhCCCC
Confidence                  111111             011356666554332             67888888888866443

>PTZ00258 GTP-binding protein; Provisional

Probab=98.86  E-value=2.9e-08  Score=101.48  Aligned_cols=86  Identities=19%  Similarity=0.139  Sum_probs=52.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe---------------
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK---------------  122 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~---------------  122 (432)
                      ...++|.+||.||||||||+|++.........+               ..+|++.....+.+.+.               
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~---------------pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~   83 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAENF---------------PFCTIDPNTARVNVPDERFDWLCKHFKPKSIV   83 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcccccCC---------------CCCcccceEEEEecccchhhHHHHHcCCcccC
Confidence            445799999999999999999982221111110               11222333333333322               


Q ss_pred             EEEEEEEeCCCCccc----chhhhh---cccCceEEEEEEeCC
Q psy3450         123 RVKLQLWDTSGQGRF----CTIIRS---YSRGAQGILLVYDIT  158 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~----~~l~~~---~~~~ad~iIlV~Dvt  158 (432)
                      ..+++++||||...-    ..+.+.   .++++|++++|+|..
T Consensus        84 ~aqi~lvDtpGLv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         84 PAQLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CCCeEEEECCCcCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            235899999996432    123233   357899999999974

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=98.83  E-value=5.5e-08  Score=94.06  Aligned_cols=122  Identities=20%  Similarity=0.273  Sum_probs=71.1

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +..+..++|+|+|.+|||||||+|+++....+...    .+.    +      .|..........++  ..+.+|||||.
T Consensus        26 ~~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~----~~~----~------~T~~~~~~~~~~~g--~~i~vIDTPGl   89 (249)
T cd01853          26 EELDFSLTILVLGKTGVGKSSTINSIFGERKAATS----AFQ----S------ETLRVREVSGTVDG--FKLNIIDTPGL   89 (249)
T ss_pred             hhccCCeEEEEECCCCCcHHHHHHHHhCCCCcccC----CCC----C------ceEEEEEEEEEECC--eEEEEEECCCc
Confidence            44567799999999999999999998443322211    000    0      11122222233445  56799999997


Q ss_pred             cccc--h-h-------hhhccc--CceEEEEEEeCCCCCChhhH-HHHHHHHHhhCC---CCcEEEEEECccCCC
Q psy3450         135 GRFC--T-I-------IRSYSR--GAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP---GVPKVLVGNRLHLAF  193 (432)
Q Consensus       135 e~~~--~-l-------~~~~~~--~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~---~iPiILVgNK~DL~~  193 (432)
                      ....  . .       ...|+.  ..|++++|..++... ++.. ...++.+.+...   -.++++|.||+|...
T Consensus        90 ~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r-~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~  163 (249)
T cd01853          90 LESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYR-RDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSP  163 (249)
T ss_pred             CcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCC
Confidence            6442  1 1       122332  578888887665432 2222 344455554332   147999999999753

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.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=98.82  E-value=5.1e-08  Score=101.93  Aligned_cols=160  Identities=16%  Similarity=0.311  Sum_probs=108.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE--CCeEEEEEEEeCCCCcccc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL--DGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i--~~~~v~l~i~Dt~G~e~~~  138 (432)
                      -.|+|+|+.++||||||.+| .+         . .+.  ..+.|     ++|..-.+.-  .+...++.+|-..|...+.
T Consensus        26 k~vlvlG~~~~GKttli~~L-~~---------~-e~~--~~~~a-----LeYty~~v~d~~~dd~~rl~vw~L~g~~~~~   87 (472)
T PF05783_consen   26 KSVLVLGDKGSGKTTLIARL-QG---------I-EDP--KKGLA-----LEYTYLDVKDEDRDDLARLNVWELDGDPSHS   87 (472)
T ss_pred             ceEEEEeCCCCchHHHHHHh-hc---------c-CCC--CCCcc-----cceEEEeeccCcCCcCceeeEEEcCCCcchH
Confidence            47999999999999999997 21         1 111  12222     2443322222  2234678999998876777


Q ss_pred             hhhhhcccC----ceEEEEEEeCCCCCChh-hHHHHHHHHHh--------------------------------h-----
Q psy3450         139 TIIRSYSRG----AQGILLVYDITNKWSFD-GIDRWLKEVEE--------------------------------H-----  176 (432)
Q Consensus       139 ~l~~~~~~~----ad~iIlV~Dvt~~~Sf~-~l~~~l~~i~~--------------------------------~-----  176 (432)
                      .+....+..    --++|||.|.+.|+.+- .+.+|+..+++                                .     
T Consensus        88 ~LLk~~lt~~~l~~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~  167 (472)
T PF05783_consen   88 DLLKFALTPENLPNTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSP  167 (472)
T ss_pred             hHhcccCCcccccceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCc
Confidence            776655532    25788999999998754 55777665544                                0     


Q ss_pred             --------------------------CCCCcEEEEEECccCCC----Ccc-------cCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         177 --------------------------APGVPKVLVGNRLHLAF----NRT-------VTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       177 --------------------------~~~iPiILVgNK~DL~~----~r~-------v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                                                +-++|++||.+|+|...    +..       .-.+.++.+|-++|+..|.+|++
T Consensus       168 ~~~~~~~~~~~~~~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~  247 (472)
T PF05783_consen  168 NRRSPSSSSSDDESVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVK  247 (472)
T ss_pred             ccccccccccccccccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeecc
Confidence                                      00379999999999632    111       11233567778899999999999


Q ss_pred             CCCCHHHHHHHHHHHHhhh
Q psy3450         220 CDFNIRESFTELSRRALQR  238 (432)
Q Consensus       220 tg~nI~elf~~L~~~i~~~  238 (432)
                      ...|++-++.+|...++..
T Consensus       248 ~~~n~~~L~~yi~h~l~~~  266 (472)
T PF05783_consen  248 EEKNLDLLYKYILHRLYGF  266 (472)
T ss_pred             ccccHHHHHHHHHHHhccC
Confidence            9999999999988887653

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>cd01855 YqeH YqeH

Probab=98.82  E-value=1.9e-08  Score=92.84  Aligned_cols=94  Identities=15%  Similarity=0.164  Sum_probs=68.0

Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH-----HhcCC
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKNQM  211 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~~~  211 (432)
                      +..++..+++++|++|+|+|++++..     .|...+.....+.|+++|+||+|+..+ ....+....+.     +..+.
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~~~~~~ilV~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~   97 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFGGNNPVILVGNKIDLLPK-DKNLVRIKNWLRAKAAAGLGL   97 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhcCCCcEEEEEEchhcCCC-CCCHHHHHHHHHHHHHhhcCC
Confidence            57788889999999999999987642     123333223356899999999999643 23334444443     23332


Q ss_pred             ---cEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         212 ---AFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       212 ---~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                         .++++||++|.|++++++.|.+.+.
T Consensus        98 ~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          98 KPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence               6899999999999999999988763

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.

>KOG1532|consensus

Probab=98.80  E-value=2e-08  Score=96.12  Aligned_cols=179  Identities=16%  Similarity=0.119  Sum_probs=98.0

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcC---CC---CcccccCCCCcCccccCCCccccccceeEEE--E-----------
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLE---SR---FPRFWLDGSSESPFCSGSGKYDDMLAYKTTT--I-----------  117 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~---~~---~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~--i-----------  117 (432)
                      .+.+.-|+++|-.|+|||||++||...   ..   +..+ +++......-+..=+.+++++|+...  .           
T Consensus        16 ~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviN-LDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~Ts   94 (366)
T KOG1532|consen   16 IQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVIN-LDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTS   94 (366)
T ss_pred             ccCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEe-CCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhh
Confidence            345667899999999999999998221   11   1111 22222221111111345555554210  0           


Q ss_pred             ---------------EECCeEEEEEEEeCCCCcc-cchhhh-----hcc--cCceEEEEEEeCCC---CCChhhHHHHHH
Q psy3450         118 ---------------LLDGKRVKLQLWDTSGQGR-FCTIIR-----SYS--RGAQGILLVYDITN---KWSFDGIDRWLK  171 (432)
Q Consensus       118 ---------------~i~~~~v~l~i~Dt~G~e~-~~~l~~-----~~~--~~ad~iIlV~Dvt~---~~Sf~~l~~~l~  171 (432)
                                     .-........++|||||-+ |.+-..     ..+  ..--++++|+|...   +..|-  ...+.
T Consensus        95 LNLF~tk~dqv~~~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFM--SNMlY  172 (366)
T KOG1532|consen   95 LNLFATKFDQVIELIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFM--SNMLY  172 (366)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHH--HHHHH
Confidence                           0012346689999999853 332111     111  22356777777643   33332  22222


Q ss_pred             HHHh-hCCCCcEEEEEECccCCCCc-----ccCHHHHHHHHHh---------------------cCCcEEEEcCCCCCCH
Q psy3450         172 EVEE-HAPGVPKVLVGNRLHLAFNR-----TVTTREAEMYAIK---------------------NQMAFFEVSPLCDFNI  224 (432)
Q Consensus       172 ~i~~-~~~~iPiILVgNK~DL~~~r-----~v~~ee~~~~a~~---------------------~~~~~~evSAktg~nI  224 (432)
                      ...- +..++|.|+|.||.|+.+..     .-..+..++-.++                     .++..+-|||.+|.|.
T Consensus       173 AcSilyktklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~  252 (366)
T KOG1532|consen  173 ACSILYKTKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGF  252 (366)
T ss_pred             HHHHHHhccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcH
Confidence            2222 22569999999999996521     1111111111110                     1356889999999999


Q ss_pred             HHHHHHHHHHHhhh
Q psy3450         225 RESFTELSRRALQR  238 (432)
Q Consensus       225 ~elf~~L~~~i~~~  238 (432)
                      +++|..+-..+-+.
T Consensus       253 ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  253 DDFFTAVDESVDEY  266 (366)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998877554

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.79  E-value=4.5e-08  Score=108.40  Aligned_cols=132  Identities=17%  Similarity=0.143  Sum_probs=79.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCc-CccccCCCccccccceeEEEE--EECCeEEEEEEEeCCCC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSE-SPFCSGSGKYDDMLAYKTTTI--LLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~-~~~~~~ig~~~~tid~~~~~i--~i~~~~v~l~i~Dt~G~  134 (432)
                      +..-+|+++|..++|||||+.+++...........+... ..+.+.......|++.....+  ..++...++.|+||||+
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~   97 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGH   97 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCc
Confidence            445689999999999999999984322211100111000 000000000001122222222  23555788999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      .+|.......++.+|++|+|+|+.....-+....|.. +...  ++|.|++.||+|+.
T Consensus        98 ~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~-~~~~--~~~~iv~iNK~D~~  152 (731)
T PRK07560         98 VDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQ-ALRE--RVKPVLFINKVDRL  152 (731)
T ss_pred             cChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHH-HHHc--CCCeEEEEECchhh
Confidence            9988777888899999999999887644333333433 2222  46889999999974

>cd01882 BMS1 Bms1

Probab=98.79  E-value=6.8e-08  Score=92.02  Aligned_cols=140  Identities=19%  Similarity=0.303  Sum_probs=80.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      .....|+++|.+|+|||||++.+...  +        .........|      .+   .+ ......++.++||||..  
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~--~--------~~~~~~~~~g------~i---~i-~~~~~~~i~~vDtPg~~--   94 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKN--Y--------TKQNISDIKG------PI---TV-VTGKKRRLTFIECPNDI--   94 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhh--c--------ccCccccccc------cE---EE-EecCCceEEEEeCCchH--
Confidence            44578999999999999999987221  0        0000111112      01   11 11234567899999853  


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcE-EEEEECccCCCCccc---CHHHHHH-HHHh--cC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK-VLVGNRLHLAFNRTV---TTREAEM-YAIK--NQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPi-ILVgNK~DL~~~r~v---~~ee~~~-~a~~--~~  210 (432)
                      ..+. ...+.+|++++|+|.+....... ..++..+...  +.|. ++|.||+|+..+...   ..++++. +..+  .+
T Consensus        95 ~~~l-~~ak~aDvVllviDa~~~~~~~~-~~i~~~l~~~--g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~  170 (225)
T cd01882          95 NAMI-DIAKVADLVLLLIDASFGFEMET-FEFLNILQVH--GFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQG  170 (225)
T ss_pred             HHHH-HHHHhcCEEEEEEecCcCCCHHH-HHHHHHHHHc--CCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCC
Confidence            2222 34588999999999886543332 2334444333  3674 559999998642211   1122222 2222  23


Q ss_pred             CcEEEEcCCCCCC
Q psy3450         211 MAFFEVSPLCDFN  223 (432)
Q Consensus       211 ~~~~evSAktg~n  223 (432)
                      .+++.+||++...
T Consensus       171 ~ki~~iSa~~~~~  183 (225)
T cd01882         171 AKLFYLSGIVHGR  183 (225)
T ss_pred             CcEEEEeeccCCC
Confidence            6899999998854

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.

>KOG0705|consensus

Probab=98.76  E-value=2.5e-08  Score=102.83  Aligned_cols=160  Identities=20%  Similarity=0.399  Sum_probs=121.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+|+-|||..++|||+|+.++          +.+.+.....+.-|      .| .+.+.+++....+.+.|.+|..   
T Consensus        29 pelk~givg~~~sgktalvhr~----------ltgty~~~e~~e~~------~~-kkE~vv~gqs~lLlirdeg~~~---   88 (749)
T KOG0705|consen   29 PELKLGIVGTSQSGKTALVHRY----------LTGTYTQDESPEGG------RF-KKEVVVDGQSHLLLIRDEGGHP---   88 (749)
T ss_pred             chhheeeeecccCCceeeeeee----------ccceeccccCCcCc------cc-eeeEEeeccceEeeeecccCCc---
Confidence            4589999999999999999997          55555544444443      44 4556677888888999988832   


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCC--CCcccCHHHHHHHHHhc-CCcE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLA--FNRTVTTREAEMYAIKN-QMAF  213 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~--~~r~v~~ee~~~~a~~~-~~~~  213 (432)
                        -.+|...+|++||||.+.+..+|+.+..+...+..+.  ..+|+++|+++.-..  ..+.+...++..++.++ .+.|
T Consensus        89 --~aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy  166 (749)
T KOG0705|consen   89 --DAQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSY  166 (749)
T ss_pred             --hhhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccce
Confidence              2467788999999999999999999887766665433  578999999886543  23555556666555544 5799


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      |+.+|.+|.|++..|+.++..+....+
T Consensus       167 ~et~atyGlnv~rvf~~~~~k~i~~~~  193 (749)
T KOG0705|consen  167 YETCATYGLNVERVFQEVAQKIVQLRK  193 (749)
T ss_pred             eecchhhhhhHHHHHHHHHHHHHHHHh
Confidence            999999999999999999988766543

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.73  E-value=3.7e-08  Score=110.52  Aligned_cols=133  Identities=14%  Similarity=0.164  Sum_probs=81.1

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCc-CccccCCCccccccceeEEEEEE--------------CC
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSE-SPFCSGSGKYDDMLAYKTTTILL--------------DG  121 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~-~~~~~~ig~~~~tid~~~~~i~i--------------~~  121 (432)
                      .+...+|+|+|..++|||||+.+|+...........+... ..+.+.......+++.....+.+              ++
T Consensus        16 ~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~   95 (843)
T PLN00116         16 KHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDG   95 (843)
T ss_pred             ccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCC
Confidence            4456699999999999999999984433221111111100 00000000000112221222222              22


Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      ..+.++++||||+.+|.......++.+|++|+|+|+.+.-......-|.. +..  .++|+|++.||+|+.
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~-~~~--~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQ-ALG--ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHH-HHH--CCCCEEEEEECCccc
Confidence            35778999999999997777777899999999999987654443333433 333  358999999999985

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.72  E-value=1.9e-07  Score=94.89  Aligned_cols=169  Identities=17%  Similarity=0.121  Sum_probs=98.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccc----cCCCCcCccccCCCccccccceeE---EEEEE---CCeEEEEEE
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFW----LDGSSESPFCSGSGKYDDMLAYKT---TTILL---DGKRVKLQL  128 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~----~~~~~~~~~~~~ig~~~~tid~~~---~~i~i---~~~~v~l~i  128 (432)
                      -.+-|.|+|+.++|||||+|+|...-..|...    .....+.....+.|.+-+|.+...   +.+.+   ++-...+.+
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~Vrl   95 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRL   95 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEE
Confidence            35789999999999999999983331111111    001111123344453333333322   22222   455678899


Q ss_pred             EeCCCCcc--------cch--h-------------------hhhccc-CceEEEEEE-eCC----CCCChhhH-HHHHHH
Q psy3450         129 WDTSGQGR--------FCT--I-------------------IRSYSR-GAQGILLVY-DIT----NKWSFDGI-DRWLKE  172 (432)
Q Consensus       129 ~Dt~G~e~--------~~~--l-------------------~~~~~~-~ad~iIlV~-Dvt----~~~Sf~~l-~~~l~~  172 (432)
                      +||+|-..        -..  +                   .+..+. .+|+.|+|. |.+    .++.+.+. .+|+.+
T Consensus        96 IDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e  175 (492)
T TIGR02836        96 VDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE  175 (492)
T ss_pred             EECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH
Confidence            99999421        111  0                   122334 789999998 764    12334444 778888


Q ss_pred             HHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCC--CCHHHHHHHH
Q psy3450         173 VEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCD--FNIRESFTEL  231 (432)
Q Consensus       173 i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg--~nI~elf~~L  231 (432)
                      +++.  ++|+++|.||.|-..+  ...+...++.++++.+++.+|+..-  ..|..+++.+
T Consensus       176 Lk~~--~kPfiivlN~~dp~~~--et~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~v  232 (492)
T TIGR02836       176 LKEL--NKPFIILLNSTHPYHP--ETEALRQELEEKYDVPVLAMDVESMRESDILSVLEEV  232 (492)
T ss_pred             HHhc--CCCEEEEEECcCCCCc--hhHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHH
Confidence            8876  4899999999993211  1334445666778889888887533  3444444444

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.

>PTZ00416 elongation factor 2; Provisional

Probab=98.71  E-value=5e-08  Score=109.36  Aligned_cols=132  Identities=15%  Similarity=0.187  Sum_probs=79.9

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCc-CccccCCCccccccceeEEEEEEC--------CeEEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSE-SPFCSGSGKYDDMLAYKTTTILLD--------GKRVKLQL  128 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~-~~~~~~ig~~~~tid~~~~~i~i~--------~~~v~l~i  128 (432)
                      +...+|+++|..++|||||+++|+...........+... ..+.+..-....+++.....+.++        ++...+.|
T Consensus        17 ~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~l   96 (836)
T PTZ00416         17 DQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINL   96 (836)
T ss_pred             cCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEE
Confidence            445699999999999999999984422211100111100 000000000011122222223332        23577899


Q ss_pred             EeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         129 WDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       129 ~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      +||||..+|.......++.+|++|+|+|+.+.-.-+.. ..+..+...  ++|+|++.||+|+.
T Consensus        97 iDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~~~--~~p~iv~iNK~D~~  157 (836)
T PTZ00416         97 IDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQALQE--RIRPVLFINKVDRA  157 (836)
T ss_pred             EcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHHHc--CCCEEEEEEChhhh
Confidence            99999998877777788999999999999876443332 333344333  47999999999985

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.69  E-value=1.5e-07  Score=93.10  Aligned_cols=164  Identities=16%  Similarity=0.154  Sum_probs=95.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCc-ccccCCC-CcCccccCCCcc----------------ccccceeEEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFP-RFWLDGS-SESPFCSGSGKY----------------DDMLAYKTTTILL  119 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~-~~~~~~~-~~~~~~~~ig~~----------------~~tid~~~~~i~i  119 (432)
                      ...++++-+|...=||||||-||+-..+.. +..+..- ..+...-+.|..                ..|||...+.  +
T Consensus         4 k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRy--F   81 (431)
T COG2895           4 KSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRY--F   81 (431)
T ss_pred             ccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeee--c
Confidence            356899999999999999999983322211 0000000 000000001100                1123333332  3


Q ss_pred             CCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH
Q psy3450         120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT  199 (432)
Q Consensus       120 ~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~  199 (432)
                      .-.+-++.+-||||++.|..-...=...||+.|+++|+...  ..+..+-...|...-.=..++|..||+||.+-.+-..
T Consensus        82 sT~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~G--vl~QTrRHs~I~sLLGIrhvvvAVNKmDLvdy~e~~F  159 (431)
T COG2895          82 STEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKG--VLEQTRRHSFIASLLGIRHVVVAVNKMDLVDYSEEVF  159 (431)
T ss_pred             ccccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchh--hHHHhHHHHHHHHHhCCcEEEEEEeeecccccCHHHH
Confidence            33445689999999999865444455779999999998432  2222221122222222245789999999976444333


Q ss_pred             H----HHHHHHHhcCC---cEEEEcCCCCCCHH
Q psy3450         200 R----EAEMYAIKNQM---AFFEVSPLCDFNIR  225 (432)
Q Consensus       200 e----e~~~~a~~~~~---~~~evSAktg~nI~  225 (432)
                      +    +...|+.+++.   .++++||..|.||-
T Consensus       160 ~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         160 EAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            3    34567888774   79999999999974

>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=98.69  E-value=4.2e-07  Score=85.76  Aligned_cols=161  Identities=15%  Similarity=0.138  Sum_probs=91.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc--
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC--  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~--  138 (432)
                      ++|+|+|..|+||||++|.++....|.......      ..+       -........+++..  +.++||||..+-.  
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~------~~t-------~~~~~~~~~~~g~~--v~VIDTPGl~d~~~~   65 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAK------SVT-------QECQKYSGEVDGRQ--VTVIDTPGLFDSDGS   65 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTS------S---------SS-EEEEEEETTEE--EEEEE--SSEETTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccC------Ccc-------cccceeeeeecceE--EEEEeCCCCCCCccc
Confidence            589999999999999999985555553211000      001       13334444677744  6899999953211  


Q ss_pred             ------hhhh---hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC---CCcEEEEEECccCCCCccc----C---H
Q psy3450         139 ------TIIR---SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP---GVPKVLVGNRLHLAFNRTV----T---T  199 (432)
Q Consensus       139 ------~l~~---~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~---~iPiILVgNK~DL~~~r~v----~---~  199 (432)
                            .+..   ....+.+++|||+.+. +-+-.+ ...++.+.+...   -.-++||.+..|......+    .   .
T Consensus        66 ~~~~~~~i~~~l~~~~~g~ha~llVi~~~-r~t~~~-~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~  143 (212)
T PF04548_consen   66 DEEIIREIKRCLSLCSPGPHAFLLVIPLG-RFTEED-REVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESN  143 (212)
T ss_dssp             HHHHHHHHHHHHHHTTT-ESEEEEEEETT-B-SHHH-HHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCCCeEEEEEEecC-cchHHH-HHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCc
Confidence                  1111   1245789999999988 333222 233333433321   1357888888886443321    1   1


Q ss_pred             HHHHHHHHhcCCcEEEEcCC------CCCCHHHHHHHHHHHHhhh
Q psy3450         200 REAEMYAIKNQMAFFEVSPL------CDFNIRESFTELSRRALQR  238 (432)
Q Consensus       200 ee~~~~a~~~~~~~~evSAk------tg~nI~elf~~L~~~i~~~  238 (432)
                      +....+.++.+-.|...+.+      ....+.+|++.+-+.+.++
T Consensus       144 ~~l~~li~~c~~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n  188 (212)
T PF04548_consen  144 EALQELIEKCGGRYHVFNNKTKDKEKDESQVSELLEKIEEMVQEN  188 (212)
T ss_dssp             HHHHHHHHHTTTCEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hhHhHHhhhcCCEEEEEeccccchhhhHHHHHHHHHHHHHHHHHc
Confidence            22455666777788887766      2345788888877776554

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 ....

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.69  E-value=3.2e-07  Score=92.89  Aligned_cols=83  Identities=17%  Similarity=0.129  Sum_probs=50.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeE---------------EE
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKR---------------VK  125 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~---------------v~  125 (432)
                      ++|.+||.||||||||+|++.........+               ..+|++.....+.+.+..               .+
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~ny---------------pftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~   67 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANY---------------PFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPAT   67 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeeccc---------------ccccccceEEEEEeccccchhhHHhcCCccccCce
Confidence            689999999999999999983322111110               112223333333333321               35


Q ss_pred             EEEEeCCCCccc----chhhhh---cccCceEEEEEEeCC
Q psy3450         126 LQLWDTSGQGRF----CTIIRS---YSRGAQGILLVYDIT  158 (432)
Q Consensus       126 l~i~Dt~G~e~~----~~l~~~---~~~~ad~iIlV~Dvt  158 (432)
                      +++.|+||...-    ..+.+.   .++++|++++|+|+.
T Consensus        68 i~lvD~pGL~~~a~~g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         68 IEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             EEEEECCCCCCCCChHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence            899999996432    223233   357899999999984

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.69  E-value=1.6e-08  Score=97.09  Aligned_cols=111  Identities=17%  Similarity=0.120  Sum_probs=57.4

Q ss_pred             EEEEEeCCCCcccchhhhhc------c--cCceEEEEEEeCCCCCChhh-HHHHHHHHH-hhCCCCcEEEEEECccCCCC
Q psy3450         125 KLQLWDTSGQGRFCTIIRSY------S--RGAQGILLVYDITNKWSFDG-IDRWLKEVE-EHAPGVPKVLVGNRLHLAFN  194 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~l~~~~------~--~~ad~iIlV~Dvt~~~Sf~~-l~~~l~~i~-~~~~~iPiILVgNK~DL~~~  194 (432)
                      .+.++|||||.++...+...      +  ...-++++++|.....+-.. +..++..+. ...-+.|.|.|.||+|+..+
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            67999999998765544432      2  34557888899765443221 222222222 11135899999999999652


Q ss_pred             cc-------cC------------HHHHHHHHH---hcC-C-cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         195 RT-------VT------------TREAEMYAI---KNQ-M-AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       195 r~-------v~------------~ee~~~~a~---~~~-~-~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ..       ..            ..-.+++++   .++ . .++.+|++++.++++++..+-+.+
T Consensus       172 ~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 YLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             hhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            10       00            000112222   123 3 799999999999999999887654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.68  E-value=1.1e-07  Score=95.54  Aligned_cols=104  Identities=17%  Similarity=0.071  Sum_probs=65.3

Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHH
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTR  200 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~e  200 (432)
                      .+.+.|+||+|...-..   .....+|.+++|.+..   +-++++.....+.+    +.-++|.||+|+......  ...
T Consensus       148 g~d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~---~gd~iq~~k~gi~E----~aDIiVVNKaDl~~~~~a~~~~~  217 (332)
T PRK09435        148 GYDVILVETVGVGQSET---AVAGMVDFFLLLQLPG---AGDELQGIKKGIME----LADLIVINKADGDNKTAARRAAA  217 (332)
T ss_pred             CCCEEEEECCCCccchh---HHHHhCCEEEEEecCC---chHHHHHHHhhhhh----hhheEEeehhcccchhHHHHHHH
Confidence            36689999999753222   2456799999996633   33344322222222    234899999998643211  112


Q ss_pred             HHHHHHHh-------cCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         201 EAEMYAIK-------NQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       201 e~~~~a~~-------~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +.......       +..+++.+||+++.||+++++.+.+.+.
T Consensus       218 el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        218 EYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             HHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            22222221       2258999999999999999999998773

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=98.67  E-value=2.8e-07  Score=93.96  Aligned_cols=170  Identities=14%  Similarity=0.140  Sum_probs=105.6

Q ss_pred             EEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCc-cccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESP-FCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~-~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      -+|+||-.-.-|||||+..|+.. +.|....  ...++. .+..+ +....|....+...++.+.++++|+||||+..|.
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e--~v~ERvMDSnDl-EkERGITILaKnTav~~~~~~INIvDTPGHADFG   82 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFRERE--EVAERVMDSNDL-EKERGITILAKNTAVNYNGTRINIVDTPGHADFG   82 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhcccccccc--chhhhhcCccch-hhhcCcEEEeccceeecCCeEEEEecCCCcCCcc
Confidence            47899999999999999998332 2222110  000000 00000 0011123344444444444788999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC-HHHHHHHHH-------hcC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT-TREAEMYAI-------KNQ  210 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~-~ee~~~~a~-------~~~  210 (432)
                      .-....+.-.|++++++|+.+.. .-..+..+....+  .+.+.|+|.||+|.+..|... .++..++..       ++.
T Consensus        83 GEVERvl~MVDgvlLlVDA~EGp-MPQTrFVlkKAl~--~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLd  159 (603)
T COG1217          83 GEVERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALA--LGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLD  159 (603)
T ss_pred             chhhhhhhhcceEEEEEEcccCC-CCchhhhHHHHHH--cCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCC
Confidence            98889999999999999998642 1222323333222  346778899999987644211 123333322       356


Q ss_pred             CcEEEEcCCCCC----------CHHHHHHHHHHHHh
Q psy3450         211 MAFFEVSPLCDF----------NIRESFTELSRRAL  236 (432)
Q Consensus       211 ~~~~evSAktg~----------nI~elf~~L~~~i~  236 (432)
                      +|++..||+.|.          ++..+|+.|++.+-
T Consensus       160 FPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp  195 (603)
T COG1217         160 FPIVYASARNGTASLDPEDEADDMAPLFETILDHVP  195 (603)
T ss_pred             CcEEEeeccCceeccCccccccchhHHHHHHHHhCC
Confidence            899999999874          57888888888773

>cd03735 SOCS_SOCS1 SOCS (suppressors of cytokine signaling) box of SOCS1-like proteins

Probab=98.65  E-value=1.3e-08  Score=70.69  Aligned_cols=39  Identities=38%  Similarity=0.592  Sum_probs=36.5

Q ss_pred             hhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhhc
Q psy3450         316 VISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAM  354 (432)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  354 (432)
                      |-+||+||+++|+.++.+..|++||||..||..|++|.-
T Consensus         3 ~~sLQhLCR~tI~~~~~~~~i~~lpLP~~LKdyL~~y~~   41 (43)
T cd03735           3 VRPLQELCRKSIVATFGRENLARIPLNPVLKDYLKSFPF   41 (43)
T ss_pred             ccCHHHHHHHHHHHhcCccccccCcCCHHHHHHHHhCCC
Confidence            579999999999999999999999999999999999953

Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS1, like CIS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. SOCS1 has a dual function as a direct potent JAK kinase inhibitor and as a component of an E3 ubiquitin-ligase complex recruiting substrates to the protein degradation machinery.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.65  E-value=2.1e-07  Score=92.45  Aligned_cols=103  Identities=14%  Similarity=0.054  Sum_probs=66.0

Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH--H
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT--R  200 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~--e  200 (432)
                      .+.+.|+||+|.-...   ......+|.++++-+   +.+-+++......+.    ++|.++|.||+|+........  .
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~---~~~~~el~~~~~~l~----~~~~ivv~NK~Dl~~~~~~~~~~~  195 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTI---PGTGDDLQGIKAGLM----EIADIYVVNKADGEGATNVTIARL  195 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEec---CCccHHHHHHHHHHh----hhccEEEEEcccccchhHHHHHHH
Confidence            4678999999854211   234567888888843   444556555444443    367899999999864321110  0


Q ss_pred             H----HHHHHHh---cCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         201 E----AEMYAIK---NQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       201 e----~~~~a~~---~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .    ...+.+.   +..+++++||+++.|++++++++.+..
T Consensus       196 ~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~  237 (300)
T TIGR00750       196 MLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHK  237 (300)
T ss_pred             HHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHH
Confidence            0    0111111   234699999999999999999999875

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>cd03739 SOCS_SOCS5 SOCS (suppressors of cytokine signaling) box of SOCS5-like proteins

Probab=98.64  E-value=1.4e-08  Score=74.27  Aligned_cols=40  Identities=38%  Similarity=0.614  Sum_probs=37.0

Q ss_pred             hhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhhccc
Q psy3450         317 ISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTS  356 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  356 (432)
                      .|||.||+++|+++++..+|++||||..||.+|+.|.-..
T Consensus         4 fSLQhLCR~~In~~t~~~~I~~LPLP~~LKdyLkeY~y~~   43 (57)
T cd03739           4 FSLQYICRAVICRCTTYDGIDALPLPSMLQDFLKEYHYKQ   43 (57)
T ss_pred             cCHHHHHHHHHHHhcCCCCcccCcCCHHHHHHHHhCCCCc
Confidence            5899999999999999999999999999999999996543

Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS5 inhibits Th2 differentiation by inhibiting IL-4 signaling. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.64  E-value=1.1e-07  Score=96.40  Aligned_cols=159  Identities=17%  Similarity=0.183  Sum_probs=98.7

Q ss_pred             hhhhhcccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .+.+..+.++|.+++|+|+.++. ++..+.+|+..+..  .++|++||+||+||..+.+.  +...+..+.++++++.+|
T Consensus        81 ~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~--~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~iS  156 (352)
T PRK12289         81 ELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES--TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLFIS  156 (352)
T ss_pred             ceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH--CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEEEE
Confidence            34455689999999999999876 45566888876643  46899999999999643221  222233346788999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhccc--ccc-cccCCCceeEEEEEEee
Q psy3450         218 PLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGM--ERL-WRSNKGKHLLTYFQYCF  294 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l--~r~-~~~~~Gk~~~~y~~~~~  294 (432)
                      |+++.|++++++.+...+      .-+.....+++..+.+         ..+....+  ..+ -+..+|||++...+..-
T Consensus       157 A~tg~GI~eL~~~L~~ki------~v~iG~SgVGKSSLIN---------~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~  221 (352)
T PRK12289        157 VETGIGLEALLEQLRNKI------TVVAGPSGVGKSSLIN---------RLIPDVELRVGKVSGKLGRGRHTTRHVELFE  221 (352)
T ss_pred             cCCCCCHHHHhhhhccce------EEEEeCCCCCHHHHHH---------HHcCccccccccccCCCCCCCCcCceeEEEE
Confidence            999999999999886532      2233333344433221         11111111  111 13468999976655442


Q ss_pred             ----------ccccCCccccccccccccchhhh
Q psy3450         295 ----------AGLVRPSVDVNKNKYNLLSFSVI  317 (432)
Q Consensus       295 ----------~~~~~~~~~~~~~~~~~~~~~~~  317 (432)
                                .++..|.+ ..-.+++...|..+
T Consensus       222 l~~g~~liDTPG~~~~~l-~~~~~~l~~~F~e~  253 (352)
T PRK12289        222 LPNGGLLADTPGFNQPDL-DCSPRELAHYFPEA  253 (352)
T ss_pred             CCCCcEEEeCCCcccccc-ccCHHHHHhhHHHH
Confidence                      24445555 23345677777664

>KOG3886|consensus

Probab=98.63  E-value=3.1e-08  Score=92.66  Aligned_cols=144  Identities=19%  Similarity=0.280  Sum_probs=90.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch-
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT-  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~-  139 (432)
                      -||+++|.+|+|||++-..+|.+..-     .+  .    ...|   .|+|+....+.+-| ++.+.+||.+||+.+.. 
T Consensus         5 kKvlLMGrsGsGKsSmrsiiF~ny~a-----~D--~----~rlg---~tidveHsh~RflG-nl~LnlwDcGgqe~fmen   69 (295)
T KOG3886|consen    5 KKVLLMGRSGSGKSSMRSIIFANYIA-----RD--T----RRLG---ATIDVEHSHVRFLG-NLVLNLWDCGGQEEFMEN   69 (295)
T ss_pred             ceEEEeccCCCCccccchhhhhhhhh-----hh--h----hccC---Ccceeeehhhhhhh-hheeehhccCCcHHHHHH
Confidence            48999999999999986655322110     00  0    1111   22355544444444 46689999999985422 


Q ss_pred             ----hhhhcccCceEEEEEEeCCCCCChhhH---HHHHHHHHhhCCCCcEEEEEECccCCCC--cccCHHHH----HHHH
Q psy3450         140 ----IIRSYSRGAQGILLVYDITNKWSFDGI---DRWLKEVEEHAPGVPKVLVGNRLHLAFN--RTVTTREA----EMYA  206 (432)
Q Consensus       140 ----l~~~~~~~ad~iIlV~Dvt~~~Sf~~l---~~~l~~i~~~~~~iPiILVgNK~DL~~~--r~v~~ee~----~~~a  206 (432)
                          .....+++.+++|+|||+...+-..++   ++-++.+.++.|+..+.+...|.||...  ++...++-    ..+.
T Consensus        70 ~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s  149 (295)
T KOG3886|consen   70 YLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLS  149 (295)
T ss_pred             HHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechhcccchHHHHHHHHHHHHHHhc
Confidence                234567899999999999877544444   4455666777788999999999999642  32222222    2222


Q ss_pred             HhcCCcEEEEcCC
Q psy3450         207 IKNQMAFFEVSPL  219 (432)
Q Consensus       207 ~~~~~~~~evSAk  219 (432)
                      +..++.++.+|--
T Consensus       150 ~~~~~~~f~Tsiw  162 (295)
T KOG3886|consen  150 RPLECKCFPTSIW  162 (295)
T ss_pred             ccccccccccchh
Confidence            2344567777654

>cd01859 MJ1464 MJ1464

Probab=98.63  E-value=1.2e-07  Score=84.67  Aligned_cols=94  Identities=14%  Similarity=0.066  Sum_probs=65.5

Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      +.+.+..++++|++|+|+|++++....+ ..+...+..  .+.|+++|+||+|+.++...  ++...+.+..+.+++.+|
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~~--~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iS   77 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVLE--LGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVYVS   77 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHHh--CCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEEEE
Confidence            3456677889999999999988654333 122222222  35799999999998532211  111233344567899999


Q ss_pred             CCCCCCHHHHHHHHHHHHh
Q psy3450         218 PLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~  236 (432)
                      |+++.|++++++.+.+.+.
T Consensus        78 a~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          78 AKERLGTKILRRTIKELAK   96 (156)
T ss_pred             ccccccHHHHHHHHHHHHh
Confidence            9999999999999988763

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.

>cd03738 SOCS_SOCS4 SOCS (suppressors of cytokine signaling) box of SOCS4-like proteins

Probab=98.61  E-value=2.3e-08  Score=72.97  Aligned_cols=40  Identities=40%  Similarity=0.585  Sum_probs=37.6

Q ss_pred             hhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhhccc
Q psy3450         317 ISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTS  356 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  356 (432)
                      .|||.||+.+|..+++..+|++||||..||.+|++|....
T Consensus         4 fSLQHLCR~~I~~~t~~~~I~~LPLP~~LK~YLkeY~y~~   43 (56)
T cd03738           4 FSLQHICRTVICNCTTYDGIDALPIPSSMKLYLKEYHYKS   43 (56)
T ss_pred             cCHHHHHHHHHHhcCCccccccCCCCHHHHHHHHhCCCcc
Confidence            6899999999999999999999999999999999997644

Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.60  E-value=1.6e-07  Score=93.33  Aligned_cols=86  Identities=19%  Similarity=0.161  Sum_probs=66.6

Q ss_pred             cccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCC
Q psy3450         144 YSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDF  222 (432)
Q Consensus       144 ~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~  222 (432)
                      ...++|++++|+|+++++++..+ .+|+..+..  .++|+++|+||+||.++.+ ..++..+..+..+++++++||+++.
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~--~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g~  153 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA--NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEGE  153 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH--CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCCc
Confidence            35899999999999988776654 788877654  4689999999999963322 1223344556678899999999999


Q ss_pred             CHHHHHHHHH
Q psy3450         223 NIRESFTELS  232 (432)
Q Consensus       223 nI~elf~~L~  232 (432)
                      |++++++.+.
T Consensus       154 gi~~L~~~l~  163 (298)
T PRK00098        154 GLDELKPLLA  163 (298)
T ss_pred             cHHHHHhhcc
Confidence            9999998873

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.59  E-value=1.6e-07  Score=95.72  Aligned_cols=95  Identities=21%  Similarity=0.270  Sum_probs=73.0

Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH----HHHhc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM----YAIKN  209 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~----~a~~~  209 (432)
                      .++|..+...+++.++++++|+|+.+..     ..|..++.+...+.|+++|+||+||.. +.+..+++.+    ++++.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~~~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k~~  123 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFVGGNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAKEL  123 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHhCCCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHHHc
Confidence            4678888889999999999999997654     345566665545689999999999964 3344444443    45666


Q ss_pred             CC---cEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         210 QM---AFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       210 ~~---~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ++   .++++||++|.|++++|+.+.+.
T Consensus       124 g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       124 GLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             CCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            76   48999999999999999998654

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.59  E-value=2e-07  Score=92.13  Aligned_cols=88  Identities=16%  Similarity=0.178  Sum_probs=69.2

Q ss_pred             hhcccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         142 RSYSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      +..+.++|.+++|+|++++. ++..+.+|+..+...  ++|+++|+||+||.++.+  ......+....+.+++++||++
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~--~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~~  148 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAA--GIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAKT  148 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHc--CCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECCC
Confidence            34578999999999999998 888888998877653  589999999999964311  1122333455788999999999


Q ss_pred             CCCHHHHHHHHHH
Q psy3450         221 DFNIRESFTELSR  233 (432)
Q Consensus       221 g~nI~elf~~L~~  233 (432)
                      +.|+++++..|..
T Consensus       149 g~gi~~L~~~L~~  161 (287)
T cd01854         149 GEGLDELREYLKG  161 (287)
T ss_pred             CccHHHHHhhhcc
Confidence            9999999988764

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.

>KOG0458|consensus

Probab=98.57  E-value=6.4e-07  Score=93.62  Aligned_cols=164  Identities=18%  Similarity=0.219  Sum_probs=100.7

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhc---------------------CCCCcccccCCCCcCccccCCCccccccceeE
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYL---------------------ESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT  114 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~---------------------~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~  114 (432)
                      .....+.++++|...+|||||+-+++.                     ...|.-.|.-.++......+       +....
T Consensus       173 ~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerG-------vTm~v  245 (603)
T KOG0458|consen  173 DPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERG-------VTMDV  245 (603)
T ss_pred             CCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcc-------eeEEe
Confidence            344668999999999999999988721                     11222222222222222222       34444


Q ss_pred             EEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC---CChh---hHHHHHHHHHhhCCCCcEEEEEEC
Q psy3450         115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK---WSFD---GIDRWLKEVEEHAPGVPKVLVGNR  188 (432)
Q Consensus       115 ~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~---~Sf~---~l~~~l~~i~~~~~~iPiILVgNK  188 (432)
                      ....++-....+.|.|+||+..|..-.-.-...||+.+||+|++-.   ..|+   ..++....++.. .-.-+||+.||
T Consensus       246 ~~~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~L-gi~qlivaiNK  324 (603)
T KOG0458|consen  246 KTTWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSL-GISQLIVAINK  324 (603)
T ss_pred             eeEEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHc-CcceEEEEeec
Confidence            5555666667789999999877755444445679999999998743   1233   122322223322 23457899999


Q ss_pred             ccCCCCcccCHHHHH----HHH-HhcC-----CcEEEEcCCCCCCHHHH
Q psy3450         189 LHLAFNRTVTTREAE----MYA-IKNQ-----MAFFEVSPLCDFNIRES  227 (432)
Q Consensus       189 ~DL~~~r~v~~ee~~----~~a-~~~~-----~~~~evSAktg~nI~el  227 (432)
                      +|+.+=.+-..+++.    .|. +..|     +.|++||+.+|+|+-..
T Consensus       325 mD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  325 MDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            999653333334433    344 3333     47999999999997544

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.57  E-value=5.1e-07  Score=91.59  Aligned_cols=162  Identities=18%  Similarity=0.199  Sum_probs=80.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...++|+|+|++|+|||||||.|..          -..+.+.....|...+|.+....   ...+.-.+.+||.||...-
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrG----------l~~~d~~aA~tGv~etT~~~~~Y---~~p~~pnv~lWDlPG~gt~   99 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRG----------LGHEDEGAAPTGVVETTMEPTPY---PHPKFPNVTLWDLPGIGTP   99 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT------------TTSTTS--SSSHSCCTS-EEE---E-SS-TTEEEEEE--GGGS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhC----------CCCCCcCcCCCCCCcCCCCCeeC---CCCCCCCCeEEeCCCCCCC
Confidence            3568999999999999999999821          11111111222322222222211   1122224799999996432


Q ss_pred             chhhhhc-----ccCceEEEEEEeCCCCCChhhHHH-HHHHHHhhCCCCcEEEEEECccCC-------CCcccCH----H
Q psy3450         138 CTIIRSY-----SRGAQGILLVYDITNKWSFDGIDR-WLKEVEEHAPGVPKVLVGNRLHLA-------FNRTVTT----R  200 (432)
Q Consensus       138 ~~l~~~~-----~~~ad~iIlV~Dvt~~~Sf~~l~~-~l~~i~~~~~~iPiILVgNK~DL~-------~~r~v~~----e  200 (432)
                      ..-...|     +...|.+|++.+-    .|.+..- +..++++.  +.|+.+|-+|+|..       ..+...+    +
T Consensus       100 ~f~~~~Yl~~~~~~~yD~fiii~s~----rf~~ndv~La~~i~~~--gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~  173 (376)
T PF05049_consen  100 NFPPEEYLKEVKFYRYDFFIIISSE----RFTENDVQLAKEIQRM--GKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQ  173 (376)
T ss_dssp             S--HHHHHHHTTGGG-SEEEEEESS----S--HHHHHHHHHHHHT--T-EEEEEE--HHHHHHHHHCC-STT--HHTHHH
T ss_pred             CCCHHHHHHHccccccCEEEEEeCC----CCchhhHHHHHHHHHc--CCcEEEEEecccccHhhhhccCCcccCHHHHHH
Confidence            2222233     4567998888762    3544433 34445554  47999999999961       1122222    2


Q ss_pred             HHHHHHH----hcCC---cEEEEcCCC--CCCHHHHHHHHHHHHhhh
Q psy3450         201 EAEMYAI----KNQM---AFFEVSPLC--DFNIRESFTELSRRALQR  238 (432)
Q Consensus       201 e~~~~a~----~~~~---~~~evSAkt--g~nI~elf~~L~~~i~~~  238 (432)
                      ++++.+.    +.++   ++|-+|+.+  ..++..+.+.|.+.+-..
T Consensus       174 ~IR~~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~  220 (376)
T PF05049_consen  174 EIRENCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAH  220 (376)
T ss_dssp             HHHHHHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GG
T ss_pred             HHHHHHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHH
Confidence            3333322    2233   688999875  446888888888877443

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.

>cd00066 G-alpha G protein alpha subunit

Probab=98.57  E-value=6.3e-07  Score=89.79  Aligned_cols=126  Identities=16%  Similarity=0.125  Sum_probs=87.8

Q ss_pred             eeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC----------CChhhHHHHHHHHHhhC--CC
Q psy3450         112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK----------WSFDGIDRWLKEVEEHA--PG  179 (432)
Q Consensus       112 ~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~----------~Sf~~l~~~l~~i~~~~--~~  179 (432)
                      +....+.++  .+.+.+||++|+...+..|..++.+++++|+|+|+++.          ..+++....+..+-...  .+
T Consensus       151 i~~~~f~~~--~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~  228 (317)
T cd00066         151 IVETKFTIK--NLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFAN  228 (317)
T ss_pred             eeEEEEEec--ceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccC
Confidence            333444444  47789999999999999999999999999999999874          23444444444443322  57


Q ss_pred             CcEEEEEECccCCCC---------------c-ccCHHHHHHHHHh----------cCCcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         180 VPKVLVGNRLHLAFN---------------R-TVTTREAEMYAIK----------NQMAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       180 iPiILVgNK~DL~~~---------------r-~v~~ee~~~~a~~----------~~~~~~evSAktg~nI~elf~~L~~  233 (432)
                      .|++|++||.|+-.+               . .-..+++..+...          ..+-...++|.+-.+++.+|+.+.+
T Consensus       229 ~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~  308 (317)
T cd00066         229 TSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKD  308 (317)
T ss_pred             CCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHH
Confidence            999999999997321               1 2234455444432          1233456888888899999999988


Q ss_pred             HHhhhc
Q psy3450         234 RALQRN  239 (432)
Q Consensus       234 ~i~~~~  239 (432)
                      .|+...
T Consensus       309 ~i~~~~  314 (317)
T cd00066         309 IILQNN  314 (317)
T ss_pred             HHHHHH
Confidence            887643

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>cd01900 YchF YchF subfamily

Probab=98.52  E-value=4.9e-07  Score=88.55  Aligned_cols=81  Identities=14%  Similarity=0.106  Sum_probs=49.1

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe---------------EEEEE
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK---------------RVKLQ  127 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~---------------~v~l~  127 (432)
                      |.+||.||||||||+|++.........+               ..+|++.....+.+.+.               ..+++
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~---------------pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~   65 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANY---------------PFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIE   65 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccc---------------cccchhceeeeEEeccchhhhHHHHhCCceeeeeEEE
Confidence            4789999999999999983322211111               11223333333444332               13589


Q ss_pred             EEeCCCCccc----chhhhhc---ccCceEEEEEEeCC
Q psy3450         128 LWDTSGQGRF----CTIIRSY---SRGAQGILLVYDIT  158 (432)
Q Consensus       128 i~Dt~G~e~~----~~l~~~~---~~~ad~iIlV~Dvt  158 (432)
                      ++|+||..+-    ..+.+.+   ++.+|++++|+|+.
T Consensus        66 lvD~pGl~~~a~~~~glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          66 FVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             EEECCCcCCCCchhhHHHHHHHHHHHhCCEEEEEEeCc
Confidence            9999996432    2233333   47899999999874

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.

>KOG1486|consensus

Probab=98.52  E-value=1.7e-06  Score=82.17  Aligned_cols=153  Identities=21%  Similarity=0.192  Sum_probs=100.4

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      ..+|+++|-|.||||||+..+.               .+.+...+...+|.....-.+.++|.  .+++.|.||.-+-.+
T Consensus        62 daRValIGfPSVGKStlLs~iT---------------~T~SeaA~yeFTTLtcIpGvi~y~ga--~IQllDLPGIieGAs  124 (364)
T KOG1486|consen   62 DARVALIGFPSVGKSTLLSKIT---------------STHSEAASYEFTTLTCIPGVIHYNGA--NIQLLDLPGIIEGAS  124 (364)
T ss_pred             CeEEEEecCCCccHHHHHHHhh---------------cchhhhhceeeeEEEeecceEEecCc--eEEEecCcccccccc
Confidence            4689999999999999999871               11122222222334444455667774  469999999643322


Q ss_pred             h-------hhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHh------------------------------------
Q psy3450         140 I-------IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEE------------------------------------  175 (432)
Q Consensus       140 l-------~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~------------------------------------  175 (432)
                      .       .-...+.||.++.|.|++..+.-.++ .+-++.+.-                                    
T Consensus       125 qgkGRGRQviavArtaDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~  204 (364)
T KOG1486|consen  125 QGKGRGRQVIAVARTADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIY  204 (364)
T ss_pred             cCCCCCceEEEEeecccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHH
Confidence            1       11345889999999999875433322 222222110                                    


Q ss_pred             ------------------------------hCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHH
Q psy3450         176 ------------------------------HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR  225 (432)
Q Consensus       176 ------------------------------~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~  225 (432)
                                                    ...-++.+.|-||+|.     ++.++..++|++-+.  +.+|+.-+.|++
T Consensus       205 ~ILheykI~Naevl~ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID~-----vs~eevdrlAr~Pns--vViSC~m~lnld  277 (364)
T KOG1486|consen  205 TILHEYKIHNAEVLFREDCTVDDFIDVIEGNRVYIKCLYVYNKIDQ-----VSIEEVDRLARQPNS--VVISCNMKLNLD  277 (364)
T ss_pred             HHHHHHeeccceEEEecCCChHHHHHHHhccceEEEEEEEeeccce-----ecHHHHHHHhcCCCc--EEEEeccccCHH
Confidence                                          0011578888999985     788888899887654  456777888999


Q ss_pred             HHHHHHHHHHh
Q psy3450         226 ESFTELSRRAL  236 (432)
Q Consensus       226 elf~~L~~~i~  236 (432)
                      .+++.+.+.+.
T Consensus       278 ~lle~iWe~l~  288 (364)
T KOG1486|consen  278 RLLERIWEELN  288 (364)
T ss_pred             HHHHHHHHHhc
Confidence            99999988873

>smart00275 G_alpha G protein alpha subunit

Probab=98.50  E-value=2.2e-06  Score=86.76  Aligned_cols=127  Identities=14%  Similarity=0.146  Sum_probs=88.8

Q ss_pred             ceeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC----------CChhhHHHHHHHHHhhC--C
Q psy3450         111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK----------WSFDGIDRWLKEVEEHA--P  178 (432)
Q Consensus       111 d~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~----------~Sf~~l~~~l~~i~~~~--~  178 (432)
                      .+....+.+++  +.+.+||.+|+...+..|..++.+++++|+|+|+++.          ..+++....+..+-...  .
T Consensus       173 Gi~~~~f~~~~--~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~  250 (342)
T smart00275      173 GIQETAFIVKK--LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFA  250 (342)
T ss_pred             ceEEEEEEECC--eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCcccc
Confidence            34445555555  5679999999999999999999999999999999973          23555544555554432  5


Q ss_pred             CCcEEEEEECccCCCC---------------cccCHHHHHHHHHh-----c------CCcEEEEcCCCCCCHHHHHHHHH
Q psy3450         179 GVPKVLVGNRLHLAFN---------------RTVTTREAEMYAIK-----N------QMAFFEVSPLCDFNIRESFTELS  232 (432)
Q Consensus       179 ~iPiILVgNK~DL~~~---------------r~v~~ee~~~~a~~-----~------~~~~~evSAktg~nI~elf~~L~  232 (432)
                      +.|++|++||.|+..+               .....+.+..+..+     .      .+-...++|.+-.++..+|+.+.
T Consensus       251 ~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~  330 (342)
T smart00275      251 NTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVK  330 (342)
T ss_pred             CCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHH
Confidence            7999999999998321               11233444444332     1      13345678888889999999988


Q ss_pred             HHHhhhc
Q psy3450         233 RRALQRN  239 (432)
Q Consensus       233 ~~i~~~~  239 (432)
                      ..+++..
T Consensus       331 ~~I~~~~  337 (342)
T smart00275      331 DIILQRN  337 (342)
T ss_pred             HHHHHHH
Confidence            8886643

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG0461|consensus

Probab=98.48  E-value=2.1e-06  Score=84.72  Aligned_cols=165  Identities=19%  Similarity=0.194  Sum_probs=95.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-------CCeEEEEEEEeCC
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-------DGKRVKLQLWDTS  132 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-------~~~~v~l~i~Dt~  132 (432)
                      .+++-++|.-.+|||+|.+++-.-..-......++..        +...|.|.-...+.+       .++..++.++|.|
T Consensus         7 n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~--------eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCP   78 (522)
T KOG0461|consen    7 NLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQST--------ERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCP   78 (522)
T ss_pred             eeeeeeEeeccCchHHHHHHHHhhccchhhccCCccc--------ccceeEeecceeeecccccccCccccceeEEEeCC
Confidence            4899999999999999999982211111111111111        111223333222222       4677889999999


Q ss_pred             CCcccchhhhhcc---cCceEEEEEEeCCCCCChhhHHH-HHHHHHhhCCCCcEEEEEECccCCCC--cccCHHH-HHHH
Q psy3450         133 GQGRFCTIIRSYS---RGAQGILLVYDITNKWSFDGIDR-WLKEVEEHAPGVPKVLVGNRLHLAFN--RTVTTRE-AEMY  205 (432)
Q Consensus       133 G~e~~~~l~~~~~---~~ad~iIlV~Dvt~~~Sf~~l~~-~l~~i~~~~~~iPiILVgNK~DL~~~--r~v~~ee-~~~~  205 (432)
                      |+..   +++..+   .-.|..++|.|+.....-+..+- .+.++.  +  ...++|.||+|+..+  |+-..++ ..++
T Consensus        79 GHas---LIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~--c--~klvvvinkid~lpE~qr~ski~k~~kk~  151 (522)
T KOG0461|consen   79 GHAS---LIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL--C--KKLVVVINKIDVLPENQRASKIEKSAKKV  151 (522)
T ss_pred             CcHH---HHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhh--c--cceEEEEeccccccchhhhhHHHHHHHHH
Confidence            9853   334444   33578899999986533332221 122221  1  346888899987543  2222222 2223


Q ss_pred             HHhc-------CCcEEEEcCCCC----CCHHHHHHHHHHHHhhhc
Q psy3450         206 AIKN-------QMAFFEVSPLCD----FNIRESFTELSRRALQRN  239 (432)
Q Consensus       206 a~~~-------~~~~~evSAktg----~nI~elf~~L~~~i~~~~  239 (432)
                      .+.+       +.|++++||+.|    ++|.|+.+.|-.++.+..
T Consensus       152 ~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~  196 (522)
T KOG0461|consen  152 RKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPK  196 (522)
T ss_pred             HHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCC
Confidence            2221       369999999999    677777777777776543

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=98.48  E-value=6.8e-07  Score=80.25  Aligned_cols=63  Identities=19%  Similarity=0.264  Sum_probs=45.3

Q ss_pred             EEEEEeCCCCcc----cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         125 KLQLWDTSGQGR----FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       125 ~l~i~Dt~G~e~----~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                      .+.|+||||...    ...++..|+..+|++|+|.+.+...+-.+...|.+......  ..+++|.||+
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~--~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPDK--SRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTTC--SSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCCC--CeEEEEEcCC
Confidence            478999999742    34567788899999999999988665555555555554443  3489999985

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 ....

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.47  E-value=1.6e-06  Score=92.84  Aligned_cols=122  Identities=19%  Similarity=0.254  Sum_probs=73.9

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .-++.++|+|+|.+||||||++|.++....+.....        .+..      ..........++  ..+.++||||..
T Consensus       114 ~LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~--------~~~T------Tr~~ei~~~idG--~~L~VIDTPGL~  177 (763)
T TIGR00993       114 PLDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAF--------GMGT------TSVQEIEGLVQG--VKIRVIDTPGLK  177 (763)
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhccccccccCC--------CCCc------eEEEEEEEEECC--ceEEEEECCCCC
Confidence            346678999999999999999999855444432110        0010      011112223455  457999999976


Q ss_pred             ccc-------hh---hhhccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCC---CCcEEEEEECccCCC
Q psy3450         136 RFC-------TI---IRSYSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAP---GVPKVLVGNRLHLAF  193 (432)
Q Consensus       136 ~~~-------~l---~~~~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~---~iPiILVgNK~DL~~  193 (432)
                      ...       .+   ...++.  ..|++|+|..++......+-..+++.+.+.+.   -.-+|||.+..|...
T Consensus       178 dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       178 SSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             ccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            431       11   112333  58999999987644332222356666665542   135899999999754

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.46  E-value=8.7e-07  Score=89.72  Aligned_cols=88  Identities=20%  Similarity=0.204  Sum_probs=68.0

Q ss_pred             ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc-cCHHHHHHHHHhcCCcEEEEcCCCCCC
Q psy3450         145 SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT-VTTREAEMYAIKNQMAFFEVSPLCDFN  223 (432)
Q Consensus       145 ~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~-v~~ee~~~~a~~~~~~~~evSAktg~n  223 (432)
                      ..++|.+++|++++...++..+.+|+..+..  .++|++||+||+||.++.+ ...++.....+..+++++++||+++.|
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~--~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~G  195 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET--LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGEG  195 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh--cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCcC
Confidence            3569999999999988899999999886643  4589999999999964321 111222333456788999999999999


Q ss_pred             HHHHHHHHHHH
Q psy3450         224 IRESFTELSRR  234 (432)
Q Consensus       224 I~elf~~L~~~  234 (432)
                      ++++++.|...
T Consensus       196 ideL~~~L~~k  206 (347)
T PRK12288        196 LEELEAALTGR  206 (347)
T ss_pred             HHHHHHHHhhC
Confidence            99999988653

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=98.46  E-value=2.4e-06  Score=84.14  Aligned_cols=150  Identities=17%  Similarity=0.233  Sum_probs=75.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc-
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF-  137 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~-  137 (432)
                      ..++|+|+|.+|+|||||+|.|+...-....   ........ .. .....+......+.-++..+.|.|+||||-... 
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~---~~~~~~~~-~~-~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i   77 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISED---SSIPPPSA-SI-SRTLEIEERTVELEENGVKLNLTIIDTPGFGDNI   77 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS------------S--------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhccccccc---cccccccc-cc-ccccceeeEEEEeccCCcceEEEEEeCCCccccc
Confidence            4689999999999999999998654433321   00000000 00 001112333344555788899999999994211 


Q ss_pred             ------chh-------hhhcc-------------cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         138 ------CTI-------IRSYS-------------RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       138 ------~~l-------~~~~~-------------~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                            ..+       ...++             ...|++|+..+.+.. .+..++  +..+++....+++|-|..|+|.
T Consensus        78 ~n~~~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~-~L~~~D--i~~mk~Ls~~vNvIPvIaKaD~  154 (281)
T PF00735_consen   78 DNSDCWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGH-GLKPLD--IEFMKRLSKRVNVIPVIAKADT  154 (281)
T ss_dssp             THCHHHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSS-SS-HHH--HHHHHHHTTTSEEEEEESTGGG
T ss_pred             cchhhhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCc-cchHHH--HHHHHHhcccccEEeEEecccc
Confidence                  000       00111             346999999997653 233221  2344555556899999999997


Q ss_pred             CCCccc--CHHHHHHHHHhcCCcEEEE
Q psy3450         192 AFNRTV--TTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       192 ~~~r~v--~~ee~~~~a~~~~~~~~ev  216 (432)
                      ....+.  -.+.+.+-.+.+++.+|.-
T Consensus       155 lt~~el~~~k~~i~~~l~~~~I~~f~f  181 (281)
T PF00735_consen  155 LTPEELQAFKQRIREDLEENNIKIFDF  181 (281)
T ss_dssp             S-HHHHHHHHHHHHHHHHHTT--S---
T ss_pred             cCHHHHHHHHHHHHHHHHHcCceeecc
Confidence            432211  1122333445567765553

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.

>cd03740 SOCS_SOCS6 SOCS (suppressors of cytokine signaling) box of SOCS6-like proteins

Probab=98.46  E-value=7.8e-08  Score=66.40  Aligned_cols=38  Identities=42%  Similarity=0.474  Sum_probs=35.9

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhh
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY  352 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  352 (432)
                      .|-|||++||.+|..++....|++||||..||..|+.|
T Consensus         2 ~v~sLqhLCR~~Ir~~~~~~~i~~LpLP~~Lk~yL~~~   39 (41)
T cd03740           2 QVRSLQYLCRFVIRQYTRIDLIQKLPLPNKMKGYLLEK   39 (41)
T ss_pred             CcccHHHHHHHHHHHHcchhhcccCCCCHHHHHHHHcC
Confidence            57899999999999999989999999999999999887

Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>smart00053 DYNc Dynamin, GTPase

Probab=98.41  E-value=2.7e-06  Score=81.74  Aligned_cols=68  Identities=22%  Similarity=0.201  Sum_probs=44.0

Q ss_pred             EEEEEEeCCCCccc-------------chhhhhccc-CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         124 VKLQLWDTSGQGRF-------------CTIIRSYSR-GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       124 v~l~i~Dt~G~e~~-------------~~l~~~~~~-~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                      ..+.++||||....             ..+...|++ ..+++++|+|++....-.+..++.+.+..  .+.|+++|.||.
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~--~~~rti~ViTK~  202 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP--QGERTIGVITKL  202 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH--cCCcEEEEEECC
Confidence            56889999997421             223456777 45689999998653222222333444433  357999999999


Q ss_pred             cCCC
Q psy3450         190 HLAF  193 (432)
Q Consensus       190 DL~~  193 (432)
                      |..+
T Consensus       203 D~~~  206 (240)
T smart00053      203 DLMD  206 (240)
T ss_pred             CCCC
Confidence            9864

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>KOG0410|consensus

Probab=98.37  E-value=5.3e-07  Score=88.33  Aligned_cols=160  Identities=18%  Similarity=0.162  Sum_probs=97.2

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......--|.+||-.|+|||||+++|....-.++..+..+.               |...+...+.... .+.+.||-|-
T Consensus       173 r~~~s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATL---------------DpT~h~a~Lpsg~-~vlltDTvGF  236 (410)
T KOG0410|consen  173 REGESSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATL---------------DPTLHSAHLPSGN-FVLLTDTVGF  236 (410)
T ss_pred             cccCCCceEEEEeecCccHHHHHHHHHhhhcCccchhheec---------------cchhhhccCCCCc-EEEEeechhh
Confidence            33444557899999999999999998433333332222222               2222333333322 2578899983


Q ss_pred             c--ccchhhhh------cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCc----EEEEEECccCCCCcccCHHH
Q psy3450         135 G--RFCTIIRS------YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVP----KVLVGNRLHLAFNRTVTTRE  201 (432)
Q Consensus       135 e--~~~~l~~~------~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iP----iILVgNK~DL~~~r~v~~ee  201 (432)
                      -  --..+...      -...+|.+|.|.|+++|+--+.....+.-+.... +..|    ++=|-||+|.... .+..| 
T Consensus       237 isdLP~~LvaAF~ATLeeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~-~~e~E-  314 (410)
T KOG0410|consen  237 ISDLPIQLVAAFQATLEEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEED-EVEEE-  314 (410)
T ss_pred             hhhCcHHHHHHHHHHHHHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccc-cCccc-
Confidence            2  11112221      2367999999999999976555555555555443 2222    5567788887432 22211 


Q ss_pred             HHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         202 AEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       202 ~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                            +++  -+.+||++|.|.+++.+.+-..+.....
T Consensus       315 ------~n~--~v~isaltgdgl~el~~a~~~kv~~~t~  345 (410)
T KOG0410|consen  315 ------KNL--DVGISALTGDGLEELLKAEETKVASETT  345 (410)
T ss_pred             ------cCC--ccccccccCccHHHHHHHHHHHhhhhhe
Confidence                  222  5779999999999999998877765543

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.37  E-value=2.4e-06  Score=84.00  Aligned_cols=55  Identities=9%  Similarity=0.082  Sum_probs=40.1

Q ss_pred             CcEEEEEECccCCCCcccCHHHHHHHHHhc--CCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKN--QMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       180 iPiILVgNK~DL~~~r~v~~ee~~~~a~~~--~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      .+-++|.||+|+........++..+..+..  +++++++||++|.|++++.++|.++
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            467999999999642222233444444443  4799999999999999999999764

>cd03717 SOCS_SOCS_like SOCS (suppressors of cytokine signaling) box of SOCS-like proteins

Probab=98.37  E-value=1.9e-07  Score=63.91  Aligned_cols=38  Identities=50%  Similarity=0.600  Sum_probs=35.6

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhh
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY  352 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  352 (432)
                      +|-|||++||.+|..+....+|++||||..|+..|+.|
T Consensus         2 ~~~sLq~LCR~~Ir~~~~~~~i~~LpLP~~Lk~yL~~y   39 (39)
T cd03717           2 SVRSLQHLCRFVIRQCTRRDLIDQLPLPRRLKDYLKEY   39 (39)
T ss_pred             CCCCHHHHHHHHHHHHccccccccCCCCHHHHHHHHcC
Confidence            46899999999999999889999999999999999876

The CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. These intracellular proteins regulate the responses of immune cells to cytokines. Identified as negative regulators of the cytokine-JAK-STAT pathway, they seem to play a role in many immunological and pathological processes. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. Related SOCS boxes are also present in Rab40-like proteins and insect proteins of unknown function that also contain a NEUZ (domain in neuralized proteins) domain.

>cd01858 NGP_1 NGP-1

Probab=98.34  E-value=2.1e-06  Score=76.85  Aligned_cols=90  Identities=12%  Similarity=0.066  Sum_probs=58.4

Q ss_pred             cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCC
Q psy3450         144 YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFN  223 (432)
Q Consensus       144 ~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~n  223 (432)
                      .++++|++++|.|+.++..-.+ ..+...+.....+.|+++|.||+|+.++.+. .+....+.+.+....+.+||+.+.|
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~-~~i~~~l~~~~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~~~   82 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRC-KHVEEYLKKEKPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNPFG   82 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccC-HHHHHHHHhccCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeecccccc
Confidence            4578999999999998743211 2223333333345899999999999543221 1222233332333457899999999


Q ss_pred             HHHHHHHHHHHH
Q psy3450         224 IRESFTELSRRA  235 (432)
Q Consensus       224 I~elf~~L~~~i  235 (432)
                      ++++++.+...+
T Consensus        83 ~~~L~~~l~~~~   94 (157)
T cd01858          83 KGSLIQLLRQFS   94 (157)
T ss_pred             HHHHHHHHHHHH
Confidence            999999987654

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.

>smart00253 SOCS suppressors of cytokine signalling

Probab=98.31  E-value=3.2e-07  Score=64.21  Aligned_cols=38  Identities=42%  Similarity=0.523  Sum_probs=35.6

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhh
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY  352 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  352 (432)
                      .|-|||++||.+|..+.....|++||||..||..|+.|
T Consensus         6 ~~~sLqhLCR~~I~~~~~~~~i~~LpLP~~lk~yL~~y   43 (43)
T smart00253        6 NVPSLQHLCRFTIRRCTRTDQIKTLPLPPKLKDYLSYY   43 (43)
T ss_pred             CCCCHHHHHHHHHHHHcCCcCcccCCCCHHHHHHHHhC
Confidence            45899999999999999999999999999999999887

suppressors of cytokine signalling

>KOG0082|consensus

Probab=98.29  E-value=8e-06  Score=82.04  Aligned_cols=116  Identities=14%  Similarity=0.133  Sum_probs=80.5

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCC--h--------hhHHHHHHHHHhhC--CCCcEEEEEECccC
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS--F--------DGIDRWLKEVEEHA--PGVPKVLVGNRLHL  191 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~S--f--------~~l~~~l~~i~~~~--~~iPiILVgNK~DL  191 (432)
                      ..+.++|++||..-+.-|-.++.+++++|||.++++-+-  +        .+..++++.|-+..  .+.++||..||.||
T Consensus       195 ~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DL  274 (354)
T KOG0082|consen  195 LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDL  274 (354)
T ss_pred             CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHH
Confidence            668999999998778888899999999999999885321  1        12233344443332  57999999999998


Q ss_pred             CCC---------------cccCHHHHHHHHHhc----------CCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         192 AFN---------------RTVTTREAEMYAIKN----------QMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       192 ~~~---------------r~v~~ee~~~~a~~~----------~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      -++               ..-..+++..+.+..          .+-+..+.|.+-.||+.+|+.+.+.+...+
T Consensus       275 FeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~n  347 (354)
T KOG0082|consen  275 FEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQNN  347 (354)
T ss_pred             HHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHHH
Confidence            321               112445555544321          123445688888899999999999887653

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.28  E-value=1.4e-05  Score=80.37  Aligned_cols=96  Identities=18%  Similarity=0.111  Sum_probs=53.4

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccc-cceeEEEEEEC--CeEEEEEEEeCCCCc--
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDM-LAYKTTTILLD--GKRVKLQLWDTSGQG--  135 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~t-id~~~~~i~i~--~~~v~l~i~Dt~G~e--  135 (432)
                      +++-|||.||||||||.|.+...+--..+|...+.++  ..++..-++. .+.....+..+  -....+.|+|.+|.-  
T Consensus         3 l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIeP--N~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G   80 (372)
T COG0012           3 LKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEP--NVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG   80 (372)
T ss_pred             ceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccC--CeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence            6899999999999999999844442222222222221  1121111000 00000000000  124568999999853  


Q ss_pred             --ccchhhhhc---ccCceEEEEEEeCC
Q psy3450         136 --RFCTIIRSY---SRGAQGILLVYDIT  158 (432)
Q Consensus       136 --~~~~l~~~~---~~~ad~iIlV~Dvt  158 (432)
                        +-..+-+.|   +|.+|+++.|+|+.
T Consensus        81 As~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          81 ASKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             cccCCCcchHHHHhhhhcCeEEEEEEec
Confidence              344555555   48999999999986

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.26  E-value=1.2e-05  Score=78.96  Aligned_cols=174  Identities=15%  Similarity=0.117  Sum_probs=100.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc--CCCCcccccCCCCcCccccCCCcccccc----------ceeEE-EEEEC----
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL--ESRFPRFWLDGSSESPFCSGSGKYDDML----------AYKTT-TILLD----  120 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~--~~~~~~~~~~~~~~~~~~~~ig~~~~ti----------d~~~~-~i~i~----  120 (432)
                      +..++|-++|.-.-|||||...+..  ..++++.     ..+..+...|..+..+          .|... .....    
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseE-----lkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~   82 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEE-----LKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAET   82 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHH-----HhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCc
Confidence            5678999999999999999998711  0111110     0011111112111110          00000 00000    


Q ss_pred             CeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc--cC
Q psy3450         121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT--VT  198 (432)
Q Consensus       121 ~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~--v~  198 (432)
                      .-.-.+.|.|.||+|-.....-+-..-.|+.|||.+++.+..--.-.+-+..+.-. .-..+|+|-||+||..+.+  ..
T Consensus        83 ~l~R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi-gik~iiIvQNKIDlV~~E~AlE~  161 (415)
T COG5257          83 ELVRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII-GIKNIIIVQNKIDLVSRERALEN  161 (415)
T ss_pred             cEEEEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh-ccceEEEEecccceecHHHHHHH
Confidence            11235789999999854332222223359999999988753322223322222222 1246899999999964322  23


Q ss_pred             HHHHHHHHHhc---CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         199 TREAEMYAIKN---QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       199 ~ee~~~~a~~~---~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++++|.+.-   +.+++.+||..+.||+-+++.|.+.+-.
T Consensus       162 y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         162 YEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             HHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            44556666542   5799999999999999999999998854

>KOG0468|consensus

Probab=98.22  E-value=7.1e-06  Score=86.76  Aligned_cols=131  Identities=21%  Similarity=0.311  Sum_probs=83.8

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCC-Ccccc--ccceeEEEEE---ECCeEEEEEEEe
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS-GKYDD--MLAYKTTTIL---LDGKRVKLQLWD  130 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~i-g~~~~--tid~~~~~i~---i~~~~v~l~i~D  130 (432)
                      .+....|.++|.-+.|||+|+..| ....-+.........-.+..+. -+...  ++.....++-   .+++.+-++|.|
T Consensus       125 p~~irnV~l~GhLhhGKT~l~D~L-v~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilD  203 (971)
T KOG0468|consen  125 PERIRNVGLVGHLHHGKTALMDLL-VEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILD  203 (971)
T ss_pred             cceEEEEEEeeccccChhHHHHhh-ceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeec
Confidence            345678999999999999999987 4443333221111111111000 00000  1122222222   256788899999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      |||+-.|..-....++-+|++++|+|+.+.-.+.. .+.++..-+  .+.|+++|.||.|.
T Consensus       204 TPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-Er~ikhaiq--~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  204 TPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-ERIIKHAIQ--NRLPIVVVINKVDR  261 (971)
T ss_pred             CCCcccchHHHHHHhhhcceEEEEEEcccCceeeH-HHHHHHHHh--ccCcEEEEEehhHH
Confidence            99999998888888999999999999988776654 233333222  35899999999995

>KOG0084|consensus

Probab=98.21  E-value=3.8e-07  Score=83.52  Aligned_cols=99  Identities=25%  Similarity=0.338  Sum_probs=69.8

Q ss_pred             cccccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCccc
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRF   89 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~   89 (432)
                      +..+||+|||++|||+||||||++.||..      ..+.+.+..+.+.|+.+|-+.+-    ||+--++-|         
T Consensus         3 ~~~~dylFKiiliGds~VGKtCL~~Rf~~------~~f~e~~~sTIGVDf~~rt~e~~----gk~iKlQIW---------   63 (205)
T KOG0084|consen    3 NPEYDYLFKIILIGDSGVGKTCLLLRFKD------DTFTESYISTIGVDFKIRTVELD----GKTIKLQIW---------   63 (205)
T ss_pred             CcccceEEEEEEECCCCcChhhhhhhhcc------CCcchhhcceeeeEEEEEEeeec----ceEEEEEee---------
Confidence            45789999999999999999999999999      88888889999999999877775    666545544         


Q ss_pred             ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          90 WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        90 ~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                       ...-.++-.+.+.       +|      +.+..--+.++|..-++.|..+-
T Consensus        64 -DTAGQERFrtit~-------sy------YR~ahGii~vyDiT~~~SF~~v~  101 (205)
T KOG0084|consen   64 -DTAGQERFRTITS-------SY------YRGAHGIIFVYDITKQESFNNVK  101 (205)
T ss_pred             -eccccHHHhhhhH-------hh------ccCCCeEEEEEEcccHHHhhhHH
Confidence             1100011011111       22      23444457889999888886653

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=98.21  E-value=5.6e-06  Score=90.43  Aligned_cols=131  Identities=18%  Similarity=0.279  Sum_probs=85.9

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc-CCCCcc--cccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL-ESRFPR--FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~-~~~~~~--~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +..-+|.|+|.-..|||||..+++- .+....  ...++.......+..-...-|+.....++.+.+ .+.++++||||+
T Consensus         8 ~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~-~~~iNlIDTPGH   86 (697)
T COG0480           8 ERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKG-DYRINLIDTPGH   86 (697)
T ss_pred             ccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcC-ceEEEEeCCCCc
Confidence            3456899999999999999999832 222221  001010000000000001123444455555665 578899999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      -+|..-....++-+|++++|+|+...-..+.-.-|.+..+   .++|.+++.||+|..
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~---~~vp~i~fiNKmDR~  141 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADK---YGVPRILFVNKMDRL  141 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhh---cCCCeEEEEECcccc
Confidence            9999888899999999999999987655444455554433   358999999999974

>KOG1144|consensus

Probab=98.18  E-value=8.6e-06  Score=87.03  Aligned_cols=108  Identities=16%  Similarity=0.175  Sum_probs=75.7

Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC---CChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc-------
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK---WSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR-------  195 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~---~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r-------  195 (432)
                      +.++||||++.|..++.....-||.+|+|+|+...   .+.+.    +..++.  .+.|+||+.||+|..-.+       
T Consensus       542 ~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiES----i~lLR~--rktpFivALNKiDRLYgwk~~p~~~  615 (1064)
T KOG1144|consen  542 LLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIES----INLLRM--RKTPFIVALNKIDRLYGWKSCPNAP  615 (1064)
T ss_pred             eEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHH----HHHHHh--cCCCeEEeehhhhhhcccccCCCch
Confidence            68899999999999999999999999999999753   33332    233333  358999999999962110       


Q ss_pred             ----------ccCH-------HHHHHHHHh-cC-------------CcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         196 ----------TVTT-------REAEMYAIK-NQ-------------MAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       196 ----------~v~~-------ee~~~~a~~-~~-------------~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                                .+..       .-+.+|+++ ++             +.++++||.+|.||-+|+-+|++.....+
T Consensus       616 i~~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m  690 (1064)
T KOG1144|consen  616 IVEALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTM  690 (1064)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHH
Confidence                      0100       012233332 11             35788999999999999999998775543

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.18  E-value=1.1e-05  Score=82.18  Aligned_cols=156  Identities=15%  Similarity=0.092  Sum_probs=96.7

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIR  142 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~  142 (432)
                      |...|.-.-|||+|+..+          .......  -+..+....|+|.........+  ..+.|+|+||.+++-.-.-
T Consensus         3 i~t~GhidHgkT~L~~al----------tg~~~d~--l~EekKRG~TiDlg~~y~~~~d--~~~~fIDvpgh~~~i~~mi   68 (447)
T COG3276           3 IGTAGHIDHGKTTLLKAL----------TGGVTDR--LPEEKKRGITIDLGFYYRKLED--GVMGFIDVPGHPDFISNLL   68 (447)
T ss_pred             EEEeeeeeccchhhhhhh----------ccccccc--chhhhhcCceEeeeeEeccCCC--CceEEeeCCCcHHHHHHHH
Confidence            556677778999999987          1111111  1222223334454444333333  4789999999998755444


Q ss_pred             hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh---cCCcEEEEcCC
Q psy3450         143 SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK---NQMAFFEVSPL  219 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~---~~~~~~evSAk  219 (432)
                      .-+...|..+||+|.++.-.-+. .+-+..+... .-...++|.+|+|..++..+ .+...+....   -++++|.+|++
T Consensus        69 ag~~~~d~alLvV~~deGl~~qt-gEhL~iLdll-gi~~giivltk~D~~d~~r~-e~~i~~Il~~l~l~~~~i~~~s~~  145 (447)
T COG3276          69 AGLGGIDYALLVVAADEGLMAQT-GEHLLILDLL-GIKNGIIVLTKADRVDEARI-EQKIKQILADLSLANAKIFKTSAK  145 (447)
T ss_pred             hhhcCCceEEEEEeCccCcchhh-HHHHHHHHhc-CCCceEEEEeccccccHHHH-HHHHHHHHhhcccccccccccccc
Confidence            55678899999999865432222 1222222222 22346999999998653311 1222222222   23588999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRRA  235 (432)
Q Consensus       220 tg~nI~elf~~L~~~i  235 (432)
                      +|.||+++.++|....
T Consensus       146 ~g~GI~~Lk~~l~~L~  161 (447)
T COG3276         146 TGRGIEELKNELIDLL  161 (447)
T ss_pred             cCCCHHHHHHHHHHhh
Confidence            9999999999999988

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.16  E-value=8.5e-06  Score=72.78  Aligned_cols=84  Identities=15%  Similarity=0.122  Sum_probs=56.3

Q ss_pred             eEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHH
Q psy3450         149 QGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF  228 (432)
Q Consensus       149 d~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf  228 (432)
                      |++|+|+|+.++.+...  .|+........+.|+++|.||+|+..+.++ .+....+.+..+..++.+||++|.|+++++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L~   77 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIERVLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKKE   77 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHHHHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhHH
Confidence            68999999998866553  344311111246899999999999532211 111122333345678999999999999999


Q ss_pred             HHHHHHH
Q psy3450         229 TELSRRA  235 (432)
Q Consensus       229 ~~L~~~i  235 (432)
                      +.+.+..
T Consensus        78 ~~i~~~~   84 (155)
T cd01849          78 SAFTKQT   84 (155)
T ss_pred             HHHHHHh
Confidence            9987764

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.15  E-value=6.6e-06  Score=72.32  Aligned_cols=76  Identities=20%  Similarity=0.262  Sum_probs=54.6

Q ss_pred             hcccCceEEEEEEeCCCCCChh--hHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         143 SYSRGAQGILLVYDITNKWSFD--GIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~--~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      ..++++|++++|+|+.++.+..  .+.+|+...   ..+.|+++|.||+|+.++..  .++..++.+..+..++++||++
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~~   81 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---DPRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSALK   81 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---cCCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEecC
Confidence            4568899999999999887654  344554432   24689999999999954332  2234455556678899999998


Q ss_pred             CCC
Q psy3450         221 DFN  223 (432)
Q Consensus       221 g~n  223 (432)
                      +.+
T Consensus        82 ~~~   84 (141)
T cd01857          82 ENA   84 (141)
T ss_pred             CCc
Confidence            876

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.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=98.13  E-value=5.8e-06  Score=76.09  Aligned_cols=102  Identities=15%  Similarity=0.040  Sum_probs=63.2

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      ..+.|+...|.  ... .-++.-..+.-|+|.|++..+.--  .+-...+.     ..=++|.||.||...-..+.+...
T Consensus        97 ~Dll~iEs~GN--L~~-~~sp~L~d~~~v~VidvteGe~~P--~K~gP~i~-----~aDllVInK~DLa~~v~~dlevm~  166 (202)
T COG0378          97 LDLLFIESVGN--LVC-PFSPDLGDHLRVVVIDVTEGEDIP--RKGGPGIF-----KADLLVINKTDLAPYVGADLEVMA  166 (202)
T ss_pred             CCEEEEecCcc--eec-ccCcchhhceEEEEEECCCCCCCc--ccCCCcee-----EeeEEEEehHHhHHHhCccHHHHH
Confidence            45566666661  111 011222233778888988654211  11011111     123789999999765555567666


Q ss_pred             HHHHhc--CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         204 MYAIKN--QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       204 ~~a~~~--~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +-+++.  +.+++++|+++|.|++++++++....
T Consensus       167 ~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         167 RDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             HHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            666665  47999999999999999999987654

>cd01856 YlqF YlqF

Probab=98.12  E-value=6.2e-06  Score=74.94  Aligned_cols=90  Identities=13%  Similarity=0.053  Sum_probs=61.2

Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      ......++++|++++|+|++++....+ ..+...    ..+.|+++|.||+|+..+..+  .+..++.+..+..++.+||
T Consensus        11 ~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~~----~~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~iSa   83 (171)
T cd01856          11 RQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEKI----LGNKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFVNA   83 (171)
T ss_pred             HHHHHHHhhCCEEEEEeeccCccCcCC-hhhHhH----hcCCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEEEC
Confidence            334567789999999999987654322 122222    234799999999999533211  1111222334457899999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      +++.|++++.+.+...+
T Consensus        84 ~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          84 KSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             CCcccHHHHHHHHHHHH
Confidence            99999999999998876

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.05  E-value=1.8e-05  Score=80.77  Aligned_cols=92  Identities=17%  Similarity=0.281  Sum_probs=64.0

Q ss_pred             ccchhhhhcccCce-EEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHH----HHhcC
Q psy3450         136 RFCTIIRSYSRGAQ-GILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMY----AIKNQ  210 (432)
Q Consensus       136 ~~~~l~~~~~~~ad-~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~----a~~~~  210 (432)
                      .|..+.... ...+ .+++|+|+.|..     ..|...+.+...+.|+++|+||+||.. +....+++.++    ++..+
T Consensus        58 ~~~~~l~~i-~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~~~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~~g  130 (365)
T PRK13796         58 DFLKLLNGI-GDSDALVVNVVDIFDFN-----GSWIPGLHRFVGNNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKELG  130 (365)
T ss_pred             HHHHHHHhh-cccCcEEEEEEECccCC-----CchhHHHHHHhCCCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHhcC
Confidence            444444333 4444 899999987743     345566665555689999999999964 33334444433    55566


Q ss_pred             C---cEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         211 M---AFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       211 ~---~~~evSAktg~nI~elf~~L~~~  234 (432)
                      +   .++.+||+++.|++++++.+.+.
T Consensus       131 ~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        131 LRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            5   68999999999999999999765

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.03  E-value=4e-05  Score=76.70  Aligned_cols=150  Identities=15%  Similarity=0.196  Sum_probs=83.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+.|+++|++|.|||||+|.||...-......++.......+++     .+....-.+.-++..++|.++||||--++
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~-----~i~~~~~~l~e~~~~~~l~vIDtpGfGD~   95 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTL-----EIKITKAELEEDGFHLNLTVIDTPGFGDF   95 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcce-----EEEeeeeeeecCCeEEEEEEeccCCcccc
Confidence            5678999999999999999999855421111100011110111222     12333344445677889999999995321


Q ss_pred             ---c-----------hhhhhcc--------------cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         138 ---C-----------TIIRSYS--------------RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       138 ---~-----------~l~~~~~--------------~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                         .           .....|+              .+.+++|+..-.+. ..+..++  +..+++....+.+|=|.-|+
T Consensus        96 idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptg-h~l~~~D--Ie~Mk~ls~~vNlIPVI~Ka  172 (373)
T COG5019          96 IDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTG-HGLKPLD--IEAMKRLSKRVNLIPVIAKA  172 (373)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCC-CCCCHHH--HHHHHHHhcccCeeeeeecc
Confidence               1           1111222              24688888887553 2333331  23333444456788888999


Q ss_pred             cCCCC--cccCHHHHHHHHHhcCCcEEE
Q psy3450         190 HLAFN--RTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       190 DL~~~--r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      |.-..  ...-.+.+.+....+++++|-
T Consensus       173 D~lT~~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         173 DTLTDDELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHhCCceeC
Confidence            97432  112223344555667888774

>KOG2655|consensus

Probab=98.00  E-value=7.2e-05  Score=75.32  Aligned_cols=169  Identities=15%  Similarity=0.191  Sum_probs=93.3

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......+.++++|++|.|||||+|.||...-.......+....+ ..+.     .+......+.-+|-.++|.+.||||-
T Consensus        16 ~KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~-~~t~-----~i~~~~~~iee~g~~l~LtvidtPGf   89 (366)
T KOG2655|consen   16 VKKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERI-KETV-----EIESTKVEIEENGVKLNLTVIDTPGF   89 (366)
T ss_pred             HhcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCc-cccc-----eeeeeeeeecCCCeEEeeEEeccCCC
Confidence            34456789999999999999999999776332211111111100 0011     12333444455778899999999994


Q ss_pred             ccc-------ch-------hhhhcc-------------cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEE
Q psy3450         135 GRF-------CT-------IIRSYS-------------RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGN  187 (432)
Q Consensus       135 e~~-------~~-------l~~~~~-------------~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgN  187 (432)
                      .+.       ..       ....|+             ...+++|+....+.. .+..++  +..+++....+.+|-|.-
T Consensus        90 GD~vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~D--i~~Mk~l~~~vNiIPVI~  166 (366)
T KOG2655|consen   90 GDAVDNSNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLD--IEFMKKLSKKVNLIPVIA  166 (366)
T ss_pred             cccccccccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhh--HHHHHHHhccccccceee
Confidence            211       11       111222             257888888875532 233331  233444455678888889


Q ss_pred             CccCCCCcc--cCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         188 RLHLAFNRT--VTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       188 K~DL~~~r~--v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      |+|.....+  .-.+.+.+-+..+++++|.-.....   ++.+....+.+
T Consensus       167 KaD~lT~~El~~~K~~I~~~i~~~nI~vf~fp~~~~---d~~~~~~~~~l  213 (366)
T KOG2655|consen  167 KADTLTKDELNQFKKRIRQDIEEHNIKVFDFPTDES---DEELKEEEQDL  213 (366)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHcCcceecCCCCcc---hhhhHHHHHHH
Confidence            999743221  1223344455566776665544333   44444444444

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=97.99  E-value=1.6e-05  Score=76.56  Aligned_cols=102  Identities=16%  Similarity=0.114  Sum_probs=60.5

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +.+.|+.|.|.-.-..   ....-+|.+++|.-..-.+..+.++.=+.++       .=|+|.||.|+...+ ....+.+
T Consensus       122 ~D~IiiETVGvGQsE~---~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi-------aDi~vVNKaD~~gA~-~~~~~l~  190 (266)
T PF03308_consen  122 FDVIIIETVGVGQSEV---DIADMADTVVLVLVPGLGDEIQAIKAGIMEI-------ADIFVVNKADRPGAD-RTVRDLR  190 (266)
T ss_dssp             -SEEEEEEESSSTHHH---HHHTTSSEEEEEEESSTCCCCCTB-TTHHHH--------SEEEEE--SHHHHH-HHHHHHH
T ss_pred             CCEEEEeCCCCCccHH---HHHHhcCeEEEEecCCCccHHHHHhhhhhhh-------ccEEEEeCCChHHHH-HHHHHHH
Confidence            4567888876422111   2345689999999876666666554444443       237889999964321 1122222


Q ss_pred             HHHH---h----cCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         204 MYAI---K----NQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       204 ~~a~---~----~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ....   .    +..+++.+||.++.||+++++.|.+...
T Consensus       191 ~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  191 SMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             HHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            2222   1    2248999999999999999999987653

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>KOG0086|consensus

Probab=97.95  E-value=1.8e-06  Score=75.94  Aligned_cols=110  Identities=21%  Similarity=0.369  Sum_probs=75.5

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCccccc
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWL   91 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~   91 (432)
                      .||||||++++|.+|.||++++++|..      ..|....+.+.+.++--||+=||    ||+--++-|          .
T Consensus         5 tYDyLfKfl~iG~aGtGKSCLLh~Fie------~kfkDdssHTiGveFgSrIinVG----gK~vKLQIW----------D   64 (214)
T KOG0086|consen    5 TYDYLFKFLVIGSAGTGKSCLLHQFIE------NKFKDDSSHTIGVEFGSRIVNVG----GKTVKLQIW----------D   64 (214)
T ss_pred             hhhhhheeEEeccCCCChhHHHHHHHH------hhhcccccceeeeeecceeeeec----CcEEEEEEe----------e
Confidence            799999999999999999999999998      77777888899999999999999    776555544          1


Q ss_pred             CCCCcCccccCCCccccc-cceeEEEEEECCeEEEEEEEeCCCCcccchhhhhc-----ccCceEEEEEE
Q psy3450          92 DGSSESPFCSGSGKYDDM-LAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSY-----SRGAQGILLVY  155 (432)
Q Consensus        92 ~~~~~~~~~~~ig~~~~t-id~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~-----~~~ad~iIlV~  155 (432)
                              +.+.+..+.. ..|      +.|..-.+.++|....+.|..+.+..     +...+++|++.
T Consensus        65 --------TAGQErFRSVtRsY------YRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~  120 (214)
T KOG0086|consen   65 --------TAGQERFRSVTRSY------YRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILC  120 (214)
T ss_pred             --------cccHHHHHHHHHHH------hccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEe
Confidence                    1111100000 011      23444457889999888887765532     33345555443

>cd03736 SOCS_SOCS2 SOCS (suppressors of cytokine signaling) box of SOCS2-like proteins

Probab=97.94  E-value=5.4e-06  Score=57.29  Aligned_cols=37  Identities=43%  Similarity=0.600  Sum_probs=33.3

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhh
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  353 (432)
                      +|-|||.+|+.+|..|+.  .|++||||..||..|+.|-
T Consensus         2 ~~~sLQhLCR~~I~~~~~--~i~~LpLP~~Lk~yL~~y~   38 (41)
T cd03736           2 STPSLQHLCRITINKCTR--QIQELPLPTRLKDYLTEYT   38 (41)
T ss_pred             CCCCHHHHHHHHHHHhcC--CCCcCCCCHHHHHHHHHCC
Confidence            467999999999999865  9999999999999999884

Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS2 has recently been shown to regulate neuronal differentiation by controlling expression of a neurogenic transcription factor, Neurogenin-1. SOCS2 binds to GH receptors and inhibits the activation of STAT5b induced by GH. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd03741 SOCS_SOCS7 SOCS (suppressors of cytokine signaling) box of SOCS7-like proteins

Probab=97.91  E-value=5.9e-06  Score=59.22  Aligned_cols=40  Identities=33%  Similarity=0.355  Sum_probs=36.4

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhhc
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAM  354 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  354 (432)
                      +|-|||.+|+.+|..+.....|++||||..||..|+.|-.
T Consensus         2 ~v~SLQhLCR~~Ir~~~~~~~i~~LPLP~~Lk~YL~~~~y   41 (49)
T cd03741           2 NVQSLQHLCRFVIRKLVRRDHIPALPLPRRLIDYLREKHY   41 (49)
T ss_pred             CCccHHHHHHHHHHHHccccccccCCCCHHHHHHHhccCC
Confidence            4689999999999999988899999999999999988754

Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS7 is important in the functioning of neuronal cells. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=97.91  E-value=8e-05  Score=75.94  Aligned_cols=148  Identities=13%  Similarity=0.099  Sum_probs=89.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcC--------ccccCCCccccccceeEEEEEECCeEEEEEEEeCC
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSES--------PFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTS  132 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~--------~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~  132 (432)
                      -.++||-.|.+|||||..+|++-+...+  ..+....        .....++ ....|......++++.....+++.|||
T Consensus        13 RTFAIISHPDAGKTTlTEkLLlfGgaIq--~AG~Vk~rk~~~~a~SDWM~iE-kqRGISVtsSVMqF~Y~~~~iNLLDTP   89 (528)
T COG4108          13 RTFAIISHPDAGKTTLTEKLLLFGGAIQ--EAGTVKGRKSGKHAKSDWMEIE-KQRGISVTSSVMQFDYADCLVNLLDTP   89 (528)
T ss_pred             cceeEEecCCCCcccHHHHHHHhcchhh--hcceeeeccCCcccccHHHHHH-HhcCceEEeeEEEeccCCeEEeccCCC
Confidence            3578999999999999999854332211  0111100        0000000 011234555555666666778999999


Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      |++.|..-.-..+..+|.++.|.|+...-.-+. .++++-.+.  .++||+-..||+|.+. | -+.|-..+.-+.+++.
T Consensus        90 GHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT-~KLfeVcrl--R~iPI~TFiNKlDR~~-r-dP~ELLdEiE~~L~i~  164 (528)
T COG4108          90 GHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQT-LKLFEVCRL--RDIPIFTFINKLDREG-R-DPLELLDEIEEELGIQ  164 (528)
T ss_pred             CccccchhHHHHHHhhheeeEEEecccCccHHH-HHHHHHHhh--cCCceEEEeecccccc-C-ChHHHHHHHHHHhCcc
Confidence            999998766667778999999999876532221 333333332  4699999999999743 2 2334444555556654


Q ss_pred             EEEE
Q psy3450         213 FFEV  216 (432)
Q Consensus       213 ~~ev  216 (432)
                      ..++
T Consensus       165 ~~Pi  168 (528)
T COG4108         165 CAPI  168 (528)
T ss_pred             eecc
Confidence            4333

>KOG1954|consensus

Probab=97.90  E-value=6.4e-05  Score=75.07  Aligned_cols=133  Identities=19%  Similarity=0.280  Sum_probs=81.0

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccC--CCccccccceeEEEEEEC-------------
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSG--SGKYDDMLAYKTTTILLD-------------  120 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~--ig~~~~tid~~~~~i~i~-------------  120 (432)
                      +.+..--|+++|.-..||||+|+-| .++.|+.....+..+..+-..  .|....+++=.  .+.++             
T Consensus        54 dfd~KPmill~GqyStGKTtfi~yL-le~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGn--al~vd~~~pF~gL~~FG~  130 (532)
T KOG1954|consen   54 DFDAKPMILLVGQYSTGKTTFIRYL-LEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGN--ALVVDAKKPFRGLNKFGN  130 (532)
T ss_pred             ccccCceEEEEeccccchhHHHHHH-HhCCCCccccCCCCCcceeEEEEecCcccccCCc--eeeecCCCchhhhhhhHH
Confidence            3444556999999999999999986 666666443333332221110  01111111000  01111             


Q ss_pred             ------------C-eEEEEEEEeCCCCc-----------ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh
Q psy3450         121 ------------G-KRVKLQLWDTSGQG-----------RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH  176 (432)
Q Consensus       121 ------------~-~~v~l~i~Dt~G~e-----------~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~  176 (432)
                                  + ---.+.|+||||.-           .|......|..++|.||++||....+--++..+.+..++.+
T Consensus       131 aflnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~  210 (532)
T KOG1954|consen  131 AFLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH  210 (532)
T ss_pred             HHHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC
Confidence                        0 01147899999952           34556678889999999999987666556666667766655


Q ss_pred             CCCCcEEEEEECccCCC
Q psy3450         177 APGVPKVLVGNRLHLAF  193 (432)
Q Consensus       177 ~~~iPiILVgNK~DL~~  193 (432)
                      ..  .+-||.||.|..+
T Consensus       211 Ed--kiRVVLNKADqVd  225 (532)
T KOG1954|consen  211 ED--KIRVVLNKADQVD  225 (532)
T ss_pred             cc--eeEEEeccccccC
Confidence            33  4668899999754

>KOG0087|consensus

Probab=97.90  E-value=5.2e-06  Score=76.89  Aligned_cols=60  Identities=30%  Similarity=0.443  Sum_probs=53.5

Q ss_pred             ccccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhh
Q psy3450          11 KQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        11 ~~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .++||+||+++|||++|||+.++.|+..      ++|.....++.+.++.-+-+.|+    ||+-.++-|
T Consensus         9 ~~~dylFKiVliGDS~VGKsnLlsRftr------nEF~~~SksTIGvef~t~t~~vd----~k~vkaqIW   68 (222)
T KOG0087|consen    9 EEYDYLFKIVLIGDSAVGKSNLLSRFTR------NEFSLESKSTIGVEFATRTVNVD----GKTVKAQIW   68 (222)
T ss_pred             cccceEEEEEEeCCCccchhHHHHHhcc------cccCcccccceeEEEEeeceeec----CcEEEEeee
Confidence            5899999999999999999999999999      89998889999999888888888    787666655

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.88  E-value=5.4e-05  Score=74.33  Aligned_cols=90  Identities=12%  Similarity=0.124  Sum_probs=61.9

Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      ....++.+|++|+|+|+.++.+..+  .++.++.   .+.|+++|.||+|+.++...  +...++.++.+.+++.+||++
T Consensus        15 ~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l---~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~iSa~~   87 (276)
T TIGR03596        15 IKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR---GNKPRLIVLNKADLADPAVT--KQWLKYFEEKGIKALAINAKK   87 (276)
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH---CCCCEEEEEEccccCCHHHH--HHHHHHHHHcCCeEEEEECCC
Confidence            3456789999999999987755433  1222222   35799999999999532111  111222233456889999999


Q ss_pred             CCCHHHHHHHHHHHHhh
Q psy3450         221 DFNIRESFTELSRRALQ  237 (432)
Q Consensus       221 g~nI~elf~~L~~~i~~  237 (432)
                      +.|++++.+.+.+.+.+
T Consensus        88 ~~gi~~L~~~i~~~~~~  104 (276)
T TIGR03596        88 GKGVKKIIKAAKKLLKE  104 (276)
T ss_pred             cccHHHHHHHHHHHHHH
Confidence            99999999998877644

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.

>cd03734 SOCS_CIS1 SOCS (suppressors of cytokine signaling) box of CIS (cytokine-inducible SH2 protein) 1-like proteins

Probab=97.86  E-value=8.9e-06  Score=56.04  Aligned_cols=37  Identities=38%  Similarity=0.552  Sum_probs=33.5

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhh
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  353 (432)
                      +|-|||.||+.+|..|+.  .|++||||..|+..|+.|-
T Consensus         2 ~~~sLQHLCR~~I~~~~~--~i~~LpLP~~L~~yL~~y~   38 (41)
T cd03734           2 SARSLQHLCRLVINRLVT--DVDCLPLPRRMADYLRQYP   38 (41)
T ss_pred             CCccHHHHHHHHHHHhcC--CcccCCCCHHHHHHHHHCC
Confidence            357999999999999985  7899999999999999984

Together with the SOCS proteins, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. CIS1, like SOCS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. CIS1 binds to cytokine receptors at STAT5-docking sites, which prohibits recruitment of STAT5 to the receptor signaling complex and results in the down-regulation of activation by STAT5.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.83  E-value=3.4e-05  Score=67.82  Aligned_cols=54  Identities=28%  Similarity=0.417  Sum_probs=34.2

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +++++|.+|||||||+|++ .+.....          .....|.     ......+.+++   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l-~~~~~~~----------~~~~~~~-----~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINAL-VGKKKVS----------VSATPGK-----TKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHH-hCCCcee----------eCCCCCc-----ccceEEEEeCC---CEEEEECCCc
Confidence            8999999999999999998 3322211          1111221     12233444554   4699999995

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.

>KOG2486|consensus

Probab=97.83  E-value=4.5e-05  Score=73.70  Aligned_cols=155  Identities=17%  Similarity=0.121  Sum_probs=84.9

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC--
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ--  134 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~--  134 (432)
                      .+....++++|.+|||||+|||.++.........         .+..|      +.  +.+..-...-.+.+.|.||-  
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~---------k~K~g------~T--q~in~f~v~~~~~~vDlPG~~~  195 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTS---------KSKNG------KT--QAINHFHVGKSWYEVDLPGYGR  195 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhc---------CCCCc------cc--eeeeeeeccceEEEEecCCccc
Confidence            3556899999999999999999873332221100         01112      11  11111111224678899992  


Q ss_pred             --------cccchhhhhcccCc---eEEEEEEeCCCCC-Chh-hHHHHHHHHHhhCCCCcEEEEEECccCCCC------c
Q psy3450         135 --------GRFCTIIRSYSRGA---QGILLVYDITNKW-SFD-GIDRWLKEVEEHAPGVPKVLVGNRLHLAFN------R  195 (432)
Q Consensus       135 --------e~~~~l~~~~~~~a---d~iIlV~Dvt~~~-Sf~-~l~~~l~~i~~~~~~iPiILVgNK~DL~~~------r  195 (432)
                              +++..+...|+.+-   --+++..|++.+- --+ ....|+.+     .++|+.+|.||+|....      +
T Consensus       196 a~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge-----~~VP~t~vfTK~DK~k~~~~~~kK  270 (320)
T KOG2486|consen  196 AGYGFELPADWDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGE-----NNVPMTSVFTKCDKQKKVKRTGKK  270 (320)
T ss_pred             ccCCccCcchHhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhh-----cCCCeEEeeehhhhhhhccccccC
Confidence                    23445555665322   2344555665431 111 22344432     35999999999997431      1


Q ss_pred             ccCHHH--HHHHHHh---cCCcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         196 TVTTRE--AEMYAIK---NQMAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       196 ~v~~ee--~~~~a~~---~~~~~~evSAktg~nI~elf~~L~~  233 (432)
                      ......  ...+.+.   ...+++.+|+.++.|++++.-.+..
T Consensus       271 p~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  271 PGLNIKINFQGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             ccccceeehhhccccceeccCCceeeecccccCceeeeeehhh
Confidence            111111  1111111   1247888999999999998776654

>KOG1547|consensus

Probab=97.81  E-value=0.00027  Score=67.02  Aligned_cols=152  Identities=20%  Similarity=0.211  Sum_probs=83.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ..+.++|+|||.+|.|||||+|.+|...-......+... .+...+.     .+......+.-++-+.++.++||||-.+
T Consensus        43 ~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~-~p~pkT~-----eik~~thvieE~gVklkltviDTPGfGD  116 (336)
T KOG1547|consen   43 TGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSA-EPIPKTT-----EIKSITHVIEEKGVKLKLTVIDTPGFGD  116 (336)
T ss_pred             ccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCccc-CcccceE-----EEEeeeeeeeecceEEEEEEecCCCccc
Confidence            356789999999999999999998554332211111111 1111111     1233345566678889999999999421


Q ss_pred             c---chhh-----------hhcc--------------cCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEE
Q psy3450         137 F---CTII-----------RSYS--------------RGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGN  187 (432)
Q Consensus       137 ~---~~l~-----------~~~~--------------~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgN  187 (432)
                      +   ..-|           .+|+              ...+++++....+- .++.-+ .++++.+-+.   +.+|-|.-
T Consensus       117 qInN~ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~v---vNvvPVIa  192 (336)
T KOG1547|consen  117 QINNDNCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTEV---VNVVPVIA  192 (336)
T ss_pred             ccCccchhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhhh---heeeeeEe
Confidence            1   1111           1222              23577777776553 334433 3344443333   56777788


Q ss_pred             CccCC--CCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         188 RLHLA--FNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       188 K~DL~--~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      |+|-.  ++|..-.+.+++-...+++.++.--+
T Consensus       193 kaDtlTleEr~~FkqrI~~el~~~~i~vYPq~~  225 (336)
T KOG1547|consen  193 KADTLTLEERSAFKQRIRKELEKHGIDVYPQDS  225 (336)
T ss_pred             ecccccHHHHHHHHHHHHHHHHhcCcccccccc
Confidence            99952  22332233344444566776655433

>cd03746 SOCS_WSB1_SWIP1 SOCS (suppressors of cytokine signaling) box of WSB1/SWiP1-like proteins

Probab=97.80  E-value=1.1e-05  Score=55.34  Aligned_cols=36  Identities=33%  Similarity=0.504  Sum_probs=33.1

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhh
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  350 (432)
                      +|-|||.+|+.+|..+.....|++||||..||..|.
T Consensus         2 ~v~sLQhLCR~~Ir~~~~~~~i~~LpLP~~Lk~YL~   37 (40)
T cd03746           2 QVASLQHLCRMAIRRVMPTQQVKELPIPSKLLEFLT   37 (40)
T ss_pred             CCcCHHHHHHHHHHHHccccccccCCCCHHHHHHHh
Confidence            478999999999999988889999999999998875

This subfamily contains WSB-1 (SOCS-box-containing WD-40 protein), part of an E3 ubiquitin ligase for the thyroid-hormone-activating type 2 iodothyronine deiodinase (D2) and SWiP-1 (SOCS box and WD-repeats in Protein), a WD40-containing protein that is expressed in embryonic structures of chickens and regulated by Sonic Hedgehog (Shh). The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=97.80  E-value=0.00017  Score=70.61  Aligned_cols=105  Identities=16%  Similarity=0.085  Sum_probs=62.2

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH--HH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT--RE  201 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~--ee  201 (432)
                      +.+.|+.|.|.-.-..   ....-+|.+++|.=..-.+..+-++.=+.++.       =|+|.||.|.......-.  ..
T Consensus       144 ~DvIIVETVGvGQsev---~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEia-------Di~vINKaD~~~A~~a~r~l~~  213 (323)
T COG1703         144 YDVIIVETVGVGQSEV---DIANMADTFLVVMIPGAGDDLQGIKAGIMEIA-------DIIVINKADRKGAEKAARELRS  213 (323)
T ss_pred             CCEEEEEecCCCcchh---HHhhhcceEEEEecCCCCcHHHHHHhhhhhhh-------heeeEeccChhhHHHHHHHHHH
Confidence            4567888877432211   23356888888875444444444443333332       378899999643211101  11


Q ss_pred             HHHHHH------hcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         202 AEMYAI------KNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       202 ~~~~a~------~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +..+..      .+..+.+.+||.+|+|++++++.+.+.....
T Consensus       214 al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~  256 (323)
T COG1703         214 ALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFL  256 (323)
T ss_pred             HHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHH
Confidence            111221      1235899999999999999999998876443

>KOG0095|consensus

Probab=97.76  E-value=2.5e-05  Score=68.55  Aligned_cols=55  Identities=24%  Similarity=0.436  Sum_probs=49.2

Q ss_pred             cccccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCccc
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSD   70 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~g   70 (432)
                      |.+|++|||++++|+.|+||++++.|+..      +-|.|-...+.+.++.+|-+-+|...
T Consensus         1 medykflfkivlvgnagvgktclvrrftq------glfppgqgatigvdfmiktvev~gek   55 (213)
T KOG0095|consen    1 MEDYKFLFKIVLVGNAGVGKTCLVRRFTQ------GLFPPGQGATIGVDFMIKTVEVNGEK   55 (213)
T ss_pred             CcccceeEEEEEEccCCcCcchhhhhhhc------cCCCCCCCceeeeeEEEEEEEECCeE
Confidence            56799999999999999999999999998      77888888899999999999888544

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.74  E-value=0.00013  Score=72.16  Aligned_cols=90  Identities=12%  Similarity=0.132  Sum_probs=62.3

Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      ....++.+|++|+|+|+.++.+.++  .++.++.   .+.|+++|.||+|+.+...  .+...++.++.+.+++.+||++
T Consensus        18 l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~---~~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vSa~~   90 (287)
T PRK09563         18 IKENLKLVDVVIEVLDARIPLSSEN--PMIDKII---GNKPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAINAKK   90 (287)
T ss_pred             HHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh---CCCCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEECCC
Confidence            3456789999999999988755432  2233222   2579999999999953211  1122222334467789999999


Q ss_pred             CCCHHHHHHHHHHHHhh
Q psy3450         221 DFNIRESFTELSRRALQ  237 (432)
Q Consensus       221 g~nI~elf~~L~~~i~~  237 (432)
                      +.|++++.+.+...+..
T Consensus        91 ~~gi~~L~~~l~~~l~~  107 (287)
T PRK09563         91 GQGVKKILKAAKKLLKE  107 (287)
T ss_pred             cccHHHHHHHHHHHHHH
Confidence            99999999998877644

>PF07525 SOCS_box: SOCS box; InterPro: IPR001496 The SOCS box was first identified in SH2-domain-containing proteins of the suppressor of cytokines signalling (SOCS) family [] but was later also found in: the WSB (WD-40-repeat-containing proteins with a SOCS box) family, the SSB (SPRY domain-containing proteins with a SOCS box) family, the ASB (ankyrin-repeat-containing proteins with a SOCS box) family, and ras and ras-like GTPases []

Probab=97.73  E-value=1.8e-05  Score=54.54  Aligned_cols=35  Identities=40%  Similarity=0.457  Sum_probs=29.2

Q ss_pred             hhhHhhhhhhhhhcccceee---ccCCCChHHHHHhhh
Q psy3450         316 VISLQELCCRAIVARTTVYA---INQLPLPNLIKSHLK  350 (432)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~  350 (432)
                      |-|||++|+.+|..+.....   |++||||..|+..|+
T Consensus         1 p~sLq~LCR~~Ir~~l~~~~~~~i~~LpLP~~L~~yL~   38 (40)
T PF07525_consen    1 PPSLQHLCRLAIRRSLGKKGLERIDKLPLPPRLKDYLL   38 (40)
T ss_dssp             ---HHHHHHHHHHHHSSCCHGGGGGGSSS-HHHHHHHC
T ss_pred             CccHHHHHHHHHHHHhChhhccccccCCCCHHHHHHHc
Confidence            45899999999999998887   999999999999987

The SOCS box found in these proteins is an about 50 amino acid carboxy-terminal domain composed of two blocks of well-conserved residues separated by between 2 and 10 non-conserved residues []. The C-terminal conserved region is an L/P-rich sequence of unknown function, whereas the N-terminal conserved region is a consensus BC box [], which binds to the Elongin BC complex [, ]. It has been proposed that this association could couple bound proteins to the ubiquitination or proteasomal compartments [].; GO: 0035556 intracellular signal transduction; PDB: 2XAI_A 2JZ3_A 2C9W_A 2FNJ_A 2IZV_A.

>cd01859 MJ1464 MJ1464

Probab=97.72  E-value=9.8e-05  Score=65.73  Aligned_cols=22  Identities=36%  Similarity=0.410  Sum_probs=20.2

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...+++++|.+|+|||||+|++
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l  121 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINAL  121 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            4578999999999999999998

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.

>KOG0080|consensus

Probab=97.72  E-value=2.7e-05  Score=69.27  Aligned_cols=51  Identities=29%  Similarity=0.440  Sum_probs=46.6

Q ss_pred             ccccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          11 KQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        11 ~~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      +.+++.|||++||++||||++++.||.+      ..|.+....+.+.|+.+|++-|+
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~------~~fd~~~~~tIGvDFkvk~m~vd   56 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVS------NTFDDLHPTTIGVDFKVKVMQVD   56 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHh------cccCccCCceeeeeEEEEEEEEc
Confidence            5688999999999999999999999998      78888888889999999999888

>cd03587 SOCS SOCS (suppressors of cytokine signaling) box

Probab=97.71  E-value=1.7e-05  Score=54.96  Aligned_cols=37  Identities=38%  Similarity=0.425  Sum_probs=32.6

Q ss_pred             hhhhHhhhhhhhhhccc---ceeeccCCCChHHHHHhhhh
Q psy3450         315 SVISLQELCCRAIVART---TVYAINQLPLPNLIKSHLKS  351 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~  351 (432)
                      ++-|||++||.+|....   ....|++||||..||..|+.
T Consensus         1 ~p~sLq~LCR~~Ir~~lg~~~~~~i~~LpLP~~Lk~yL~~   40 (41)
T cd03587           1 NPRSLQHLCRLAIRRCLGKRRLDLIDKLPLPPRLKDYLLY   40 (41)
T ss_pred             CCcCHHHHHHHHHHHHHCcccccccccCCCCHHHHHHHcc
Confidence            35799999999999997   57899999999999998864

The SOCS box is found in the C-terminal region of CIS/SOCS family proteins (in combination with a SH2 domain), ASBs (ankyrin repeat-containing proteins with a SOCS box), SSBs (SPRY domain-containing proteins with a SOCS box), and WSBs (WD40 repeat-containing proteins with a SOCS box), as well as, other miscellaneous proteins. The function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.69  E-value=0.00019  Score=70.73  Aligned_cols=136  Identities=19%  Similarity=0.168  Sum_probs=84.9

Q ss_pred             hhhhcccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +.+.-..+.|-.|+|+.+.+|+ +..-+.+++-.+..  .++..+||.||+||.++.....++........+.+.+.+|+
T Consensus        72 L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~--~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s~  149 (301)
T COG1162          72 LIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA--GGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVSA  149 (301)
T ss_pred             eeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH--cCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEecC
Confidence            3334445678888888888875 34444655544443  45777888999999764433334555667778999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhccccccc-ccCCCceeEEEE
Q psy3450         219 LCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLW-RSNKGKHLLTYF  290 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~-~~~~Gk~~~~y~  290 (432)
                      +++.+++++.+.+...+      .-+..+..+++..+.+.-.....       .....+- +..+|||++++.
T Consensus       150 ~~~~~~~~l~~~l~~~~------svl~GqSGVGKSSLiN~L~p~~~-------~~t~eIS~~~~rGkHTTt~~  209 (301)
T COG1162         150 KNGDGLEELAELLAGKI------TVLLGQSGVGKSTLINALLPELN-------QKTGEISEKLGRGRHTTTHV  209 (301)
T ss_pred             cCcccHHHHHHHhcCCe------EEEECCCCCcHHHHHHhhCchhh-------hhhhhhcccCCCCCCccceE
Confidence            99999999998887654      33334444555544433211100       0011111 235899998885

>PRK01889 GTPase RsgA; Reviewed

Probab=97.69  E-value=0.00017  Score=73.44  Aligned_cols=83  Identities=17%  Similarity=0.218  Sum_probs=59.6

Q ss_pred             ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHH-hcCCcEEEEcCCCCCC
Q psy3450         145 SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQMAFFEVSPLCDFN  223 (432)
Q Consensus       145 ~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-~~~~~~~evSAktg~n  223 (432)
                      ..++|.+++|+++...-+...+++++..+...  ++|.+||.||+||.++..   +....+.. ..+.+++.+|++++.|
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~--~i~piIVLNK~DL~~~~~---~~~~~~~~~~~g~~Vi~vSa~~g~g  184 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES--GAEPVIVLTKADLCEDAE---EKIAEVEALAPGVPVLAVSALDGEG  184 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc--CCCEEEEEEChhcCCCHH---HHHHHHHHhCCCCcEEEEECCCCcc
Confidence            57899999999997554455567776666554  578899999999965311   11222222 3467999999999999


Q ss_pred             HHHHHHHHH
Q psy3450         224 IRESFTELS  232 (432)
Q Consensus       224 I~elf~~L~  232 (432)
                      ++++..++.
T Consensus       185 l~~L~~~L~  193 (356)
T PRK01889        185 LDVLAAWLS  193 (356)
T ss_pred             HHHHHHHhh
Confidence            999888874

>cd03733 SOCS_WSB_SWIP SOCS (suppressors of cytokine signaling) box of WSB/SWiP-like proteins

Probab=97.69  E-value=2.1e-05  Score=53.70  Aligned_cols=36  Identities=36%  Similarity=0.488  Sum_probs=32.8

Q ss_pred             hhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhh
Q psy3450         315 SVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  350 (432)
                      +|-|||.+|+.+|..+...-.|++||||..||..|.
T Consensus         2 ~v~sLqhLCR~~Ir~~~~~~~i~~LpLP~~Lk~YL~   37 (39)
T cd03733           2 VVSSLQHLCRMALRRVMTTQQVLALPIPKKMKEFLT   37 (39)
T ss_pred             CCCCHHHHHHHHHHHHccccccccCCCCHHHHHHHc
Confidence            468999999999999987788999999999998875

This subfamily contains WSB-1 (SOCS-box-containing WD-40 protein), part of an E3 ubiquitin ligase for the thyroid-hormone-activating type 2 iodothyronine deiodinase (D2), and SWiP-1 (SOCS box and WD-repeats in Protein), a WD40-containing protein that is expressed in embryonic structures of chickens and regulated by Sonic Hedgehog (Shh), as well as, their isoforms WSB-2 and SWiP-2. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=97.66  E-value=0.00024  Score=82.75  Aligned_cols=118  Identities=19%  Similarity=0.267  Sum_probs=68.9

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc------
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG------  135 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e------  135 (432)
                      =.+|||++|+||||+|++-  +-.|+-   ..........++|.++ ..++.     +.++   ..++||+|..      
T Consensus       113 WYlviG~~gsGKtt~l~~s--gl~~pl---~~~~~~~~~~~~~~t~-~c~ww-----f~~~---avliDtaG~y~~~~~~  178 (1169)
T TIGR03348       113 WYLVIGPPGSGKTTLLQNS--GLKFPL---AERLGAAALRGVGGTR-NCDWW-----FTDE---AVLIDTAGRYTTQDSD  178 (1169)
T ss_pred             CEEEECCCCCchhHHHHhC--CCCCcC---chhhccccccCCCCCc-ccceE-----ecCC---EEEEcCCCccccCCCc
Confidence            5799999999999999973  334432   1111111122232111 12222     2232   3689999932      


Q ss_pred             --ccchhhhhcc---------cCceEEEEEEeCCCCCC--h-------hhHHHHHHHHHhhC-CCCcEEEEEECccCCC
Q psy3450         136 --RFCTIIRSYS---------RGAQGILLVYDITNKWS--F-------DGIDRWLKEVEEHA-PGVPKVLVGNRLHLAF  193 (432)
Q Consensus       136 --~~~~l~~~~~---------~~ad~iIlV~Dvt~~~S--f-------~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~  193 (432)
                        .....|..++         +-.|+||+++|+.+--.  -       ..++..+.++.+.. -.+||.||.+|+|+..
T Consensus       179 ~~~~~~~W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       179 PEEDAAAWLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             ccccHHHHHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence              2223344443         44799999999876422  1       13344555555443 5799999999999853

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>cd01856 YlqF YlqF

Probab=97.66  E-value=0.00011  Score=66.58  Aligned_cols=23  Identities=26%  Similarity=0.472  Sum_probs=20.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...++++++|.+|||||||+|++
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l  135 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRL  135 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHH
Confidence            34579999999999999999998

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=97.61  E-value=0.00046  Score=67.27  Aligned_cols=153  Identities=13%  Similarity=0.123  Sum_probs=85.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc--C----CCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL--E----SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~--~----~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      .+-.+|..+|.-+-|||||...+..  .    ..+..+............++       ......+.++-.+-.+-.+|.
T Consensus        10 kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGI-------TIntahveyet~~rhyahVDc   82 (394)
T COG0050          10 KPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGI-------TINTAHVEYETANRHYAHVDC   82 (394)
T ss_pred             CCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCc-------eeccceeEEecCCceEEeccC
Confidence            3457999999999999999887611  1    11111000111111111122       233333334333445688999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCcccC---HHHHHHHHH
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTVT---TREAEMYAI  207 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v~---~ee~~~~a~  207 (432)
                      ||+.+|-...-.-....|+.|||+.++|..--+. ++-+...++.  ++| ++++.||+|+.++++..   ..+..++..
T Consensus        83 PGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqT-rEHiLlarqv--Gvp~ivvflnK~Dmvdd~ellelVemEvreLLs  159 (394)
T COG0050          83 PGHADYVKNMITGAAQMDGAILVVAATDGPMPQT-REHILLARQV--GVPYIVVFLNKVDMVDDEELLELVEMEVRELLS  159 (394)
T ss_pred             CChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcc-hhhhhhhhhc--CCcEEEEEEecccccCcHHHHHHHHHHHHHHHH
Confidence            9998874322222346899999999988532222 2222222222  354 56778999998754432   335667777


Q ss_pred             hcCC-----cEEEEcCCC
Q psy3450         208 KNQM-----AFFEVSPLC  220 (432)
Q Consensus       208 ~~~~-----~~~evSAkt  220 (432)
                      ++++     |++.-||+.
T Consensus       160 ~y~f~gd~~Pii~gSal~  177 (394)
T COG0050         160 EYGFPGDDTPIIRGSALK  177 (394)
T ss_pred             HcCCCCCCcceeechhhh
Confidence            7764     577667653

>KOG3887|consensus

Probab=97.55  E-value=0.00047  Score=65.47  Aligned_cols=159  Identities=22%  Similarity=0.323  Sum_probs=88.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc-h
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC-T  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~-~  139 (432)
                      -+|+++|-..+||||+-+-.|..-. |...+.  .+++..++.    +         .+.+.-+.+++||.|||-.+- .
T Consensus        28 p~ilLMG~rRsGKsSI~KVVFhkMs-PneTlf--lESTski~~----d---------~is~sfinf~v~dfPGQ~~~Fd~   91 (347)
T KOG3887|consen   28 PRILLMGLRRSGKSSIQKVVFHKMS-PNETLF--LESTSKITR----D---------HISNSFINFQVWDFPGQMDFFDP   91 (347)
T ss_pred             ceEEEEeecccCcchhhheeeeccC-CCceeE--eeccCcccH----h---------hhhhhhcceEEeecCCccccCCC
Confidence            4599999999999998775422111 100000  000000010    0         112345779999999996542 2


Q ss_pred             h--hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHh---hCCCCcEEEEEECccCCC-C------cccCHHHHHHHHH
Q psy3450         140 I--IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE---HAPGVPKVLVGNRLHLAF-N------RTVTTREAEMYAI  207 (432)
Q Consensus       140 l--~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~---~~~~iPiILVgNK~DL~~-~------r~v~~ee~~~~a~  207 (432)
                      .  ....++++.+.|+|.|.-+.- .+.+.++...+..   .++++.+=+...|.|-.. +      |.+-.....+++.
T Consensus        92 s~D~e~iF~~~gALifvIDaQddy-~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d  170 (347)
T KOG3887|consen   92 SFDYEMIFRGVGALIFVIDAQDDY-MEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELAD  170 (347)
T ss_pred             ccCHHHHHhccCeEEEEEechHHH-HHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHh
Confidence            1  234578999999999976531 2223333333332   337888889999999532 2      1111111222222


Q ss_pred             h----cCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         208 K----NQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       208 ~----~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .    ....|.-+|- ....|-|.|..+++.+..
T Consensus       171 ~gle~v~vsf~LTSI-yDHSIfEAFSkvVQkLip  203 (347)
T KOG3887|consen  171 AGLEKVQVSFYLTSI-YDHSIFEAFSKVVQKLIP  203 (347)
T ss_pred             hhhccceEEEEEeee-cchHHHHHHHHHHHHHhh
Confidence            1    2235666655 456788888888877743

>cd03745 SOCS_WSB2_SWIP2 SOCS (suppressors of cytokine signaling) box of WSB2/SWiP2-like proteins

Probab=97.52  E-value=5.8e-05  Score=51.43  Aligned_cols=35  Identities=34%  Similarity=0.589  Sum_probs=31.8

Q ss_pred             hhhHhhhhhhhhhcccceeeccCCCChHHHHHhhh
Q psy3450         316 VISLQELCCRAIVARTTVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  350 (432)
                      |-|||-+|+.+|..+.....++.||||..||..|+
T Consensus         3 v~SLQHLCR~~I~~~~~~~~~~~LPLP~~Lk~yL~   37 (39)
T cd03745           3 LPSLRHLCRKALRHFLTTYQVLALPIPKKMKEFLT   37 (39)
T ss_pred             cccHHHHHHHHHHHhccccccccCCCcHHHHHHHc
Confidence            57999999999999987778999999999998876

This family consists of WSB-2 (SOCS-box-containing WD-40 protein) and SWiP-2 (SOCS box and WD-repeats in Protein). No functional information is available for WSB2 or SWiP-2, but limited information is available for the isoforms WSB-1 and SWiP-1. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd01855 YqeH YqeH

Probab=97.51  E-value=0.00016  Score=66.73  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=19.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYL   82 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~   82 (432)
                      ..++++|.+|||||||+|.|+.
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~  149 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLK  149 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999843

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.49  E-value=0.00019  Score=65.65  Aligned_cols=24  Identities=25%  Similarity=0.382  Sum_probs=21.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~   81 (432)
                      ...++++++|.+|||||||+|++.
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~  138 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLK  138 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHh
Confidence            445899999999999999999983

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

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.49  E-value=0.00039  Score=68.71  Aligned_cols=23  Identities=22%  Similarity=0.528  Sum_probs=21.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...++++++|.+|||||||+|++
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l  141 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRL  141 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHH
Confidence            34689999999999999999998

>KOG1487|consensus

Probab=97.45  E-value=0.0011  Score=63.71  Aligned_cols=147  Identities=22%  Similarity=0.211  Sum_probs=84.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECC----eEEEEEEEeCCCCcc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG----KRVKLQLWDTSGQGR  136 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~----~~v~l~i~Dt~G~e~  136 (432)
                      -||-++|-|.||||||+..+          ....     ++...      -+.++-+.+.|    +.-++++.|.||.-+
T Consensus        60 a~vg~vgFPSvGksTl~~~l----------~g~~-----s~vas------yefttl~~vpG~~~y~gaKiqlldlpgiie  118 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKL----------TGTF-----SEVAA------YEFTTLTTVPGVIRYKGAKIQLLDLPGIIE  118 (358)
T ss_pred             eeeeEEecCccchhhhhhhh----------cCCC-----Ccccc------ccceeEEEecceEeccccceeeecCcchhc
Confidence            47889999999999999986          1111     11110      11112222222    124679999999643


Q ss_pred             cch----h---hhhcccCceEEEEEEeCCCCCChhhH-HHHHHH------------------------------------
Q psy3450         137 FCT----I---IRSYSRGAQGILLVYDITNKWSFDGI-DRWLKE------------------------------------  172 (432)
Q Consensus       137 ~~~----l---~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~------------------------------------  172 (432)
                      -..    -   .-...+.++.+++|.|+-.+-+...+ ++-++-                                    
T Consensus       119 gakdgkgrg~qviavartcnli~~vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rs  198 (358)
T KOG1487|consen  119 GAKDGKGRGKQVIAVARTCNLIFIVLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRS  198 (358)
T ss_pred             ccccCCCCccEEEEEeecccEEEEEeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHH
Confidence            211    1   11345789999999999776554433 111111                                    


Q ss_pred             ----HHhhC----------------------CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         173 ----VEEHA----------------------PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       173 ----i~~~~----------------------~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                          .+.+.                      .-+|.+.+.||+|-.     +.||..-.  ......+.+||-++.|+++
T Consensus       199 il~eyR~hsAdi~Lr~DaT~DdLIdvVegnr~yVp~iyvLNkIdsI-----SiEELdii--~~iphavpISA~~~wn~d~  271 (358)
T KOG1487|consen  199 ILSEYRIHSADIALRFDATADDLIDVVEGNRIYVPCIYVLNKIDSI-----SIEELDII--YTIPHAVPISAHTGWNFDK  271 (358)
T ss_pred             HHHHhhhcchheeeecCcchhhhhhhhccCceeeeeeeeeccccee-----eeecccee--eeccceeecccccccchHH
Confidence                11100                      025777788888752     22221100  0123578899999999999


Q ss_pred             HHHHHHHHH
Q psy3450         227 SFTELSRRA  235 (432)
Q Consensus       227 lf~~L~~~i  235 (432)
                      +++.+-+.+
T Consensus       272 lL~~mweyL  280 (358)
T KOG1487|consen  272 LLEKMWEYL  280 (358)
T ss_pred             HHHHHhhcc
Confidence            999887765

>cd01858 NGP_1 NGP-1

Probab=97.45  E-value=0.00026  Score=63.27  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=19.6

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+++|.+|||||||+|++
T Consensus       102 ~~~v~~~G~~nvGKStliN~l  122 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTL  122 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHH
Confidence            468999999999999999998

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.44  E-value=0.00039  Score=68.26  Aligned_cols=22  Identities=27%  Similarity=0.551  Sum_probs=20.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..++++++|.+|||||||+|++
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l  138 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRL  138 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4689999999999999999998

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.

>KOG4273|consensus

Probab=97.39  E-value=0.0012  Score=62.88  Aligned_cols=154  Identities=18%  Similarity=0.246  Sum_probs=90.0

Q ss_pred             EEEEeCcccc--hhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe----EEEEEEEeCCCCc
Q psy3450          62 KFLLVGDSDV--GKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK----RVKLQLWDTSGQG  135 (432)
Q Consensus        62 KVvvvG~~gv--GKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~----~v~l~i~Dt~G~e  135 (432)
                      -++|+|-+||  ||-+|+.+| ....|.........              ..++..  +++.+    .+.+.|.-..  +
T Consensus         6 ~~lv~g~sgvfsg~~~ll~rl-~s~dfed~ses~~~--------------te~hgw--tid~kyysadi~lcishic--d   66 (418)
T KOG4273|consen    6 CALVTGCSGVFSGDQLLLHRL-GSEDFEDESESNDA--------------TEFHGW--TIDNKYYSADINLCISHIC--D   66 (418)
T ss_pred             eEEEecccccccchHHHHHHh-cchhheeeccccCc--------------eeeece--EecceeeecceeEEeeccc--c
Confidence            4689999999  999999997 54444322111111              122211  12222    2222322221  1


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCC------------------cc-
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFN------------------RT-  196 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~------------------r~-  196 (432)
                      ++.-.......-..++++|||++....++.++.|+....-..-+ -.+.+|||.|....                  |. 
T Consensus        67 e~~lpn~~~a~pl~a~vmvfdlse~s~l~alqdwl~htdinsfd-illcignkvdrvphhlahdeyrrrl~kasdpsrdl  145 (418)
T KOG4273|consen   67 EKFLPNAEIAEPLQAFVMVFDLSEKSGLDALQDWLPHTDINSFD-ILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDL  145 (418)
T ss_pred             hhccCCcccccceeeEEEEEeccchhhhHHHHhhccccccccch-hheecccccccccchhhhhHHHHHHHhhcCcchhH
Confidence            11111112234567999999999999999999998754332212 24678999996321                  00 


Q ss_pred             -------------------------cCHHHHHHHHHhcCCcEEEEcCCC------------CCCHHHHHHHHHHHH
Q psy3450         197 -------------------------VTTREAEMYAIKNQMAFFEVSPLC------------DFNIRESFTELSRRA  235 (432)
Q Consensus       197 -------------------------v~~ee~~~~a~~~~~~~~evSAkt------------g~nI~elf~~L~~~i  235 (432)
                                               .....+.+|+.++++.++|.+|..            ..||+.+|..|-..+
T Consensus       146 ~~di~dfgisetegssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahm  221 (418)
T KOG4273|consen  146 MIDICDFGISETEGSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHM  221 (418)
T ss_pred             hhhhhhccccccccccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhcc
Confidence                                     112235678888899999998843            247888888776554

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=97.38  E-value=0.0018  Score=65.38  Aligned_cols=106  Identities=15%  Similarity=0.103  Sum_probs=64.0

Q ss_pred             EEEEeCCCCcccch--hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc--cCHHH
Q psy3450         126 LQLWDTSGQGRFCT--IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT--VTTRE  201 (432)
Q Consensus       126 l~i~Dt~G~e~~~~--l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~--v~~ee  201 (432)
                      +.|+||.|+|.|-.  ++-.+-++.|-.+|++.+++.-+--. ++-+-.+..  -+.|+++|.+|+|+.++..  -..++
T Consensus       203 VsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kEHLgi~~a--~~lPviVvvTK~D~~~ddr~~~v~~e  279 (527)
T COG5258         203 VSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KEHLGIALA--MELPVIVVVTKIDMVPDDRFQGVVEE  279 (527)
T ss_pred             EEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hHhhhhhhh--hcCCEEEEEEecccCcHHHHHHHHHH
Confidence            67899999998743  22334478999999999887643211 222221111  3589999999999964311  01111


Q ss_pred             HHHH----------------------HHhcC---CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         202 AEMY----------------------AIKNQ---MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       202 ~~~~----------------------a~~~~---~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +.++                      +-+.+   .|+|.+|+-+|+|++-+ +++...+
T Consensus       280 i~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL-~e~f~~L  337 (527)
T COG5258         280 ISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLL-DEFFLLL  337 (527)
T ss_pred             HHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHH-HHHHHhC
Confidence            1111                      11112   48999999999998544 4444333

>cd03737 SOCS_SOCS3 SOCS (suppressors of cytokine signaling) box of SOCS3-like proteins

Probab=97.38  E-value=7.6e-05  Score=51.69  Aligned_cols=37  Identities=43%  Similarity=0.717  Sum_probs=30.1

Q ss_pred             hhhhHhhhhhhhhhccccee-eccCCCChHHHHHhhhhhh
Q psy3450         315 SVISLQELCCRAIVARTTVY-AINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  353 (432)
                      +|-|||-||+.+|..+++.+ .++.||+|  ||..|+.|-
T Consensus         2 ~v~SLQHLCR~~In~~~~~~~~~~~LP~~--Lk~yL~~Y~   39 (42)
T cd03737           2 SVSTLQHLCRKTVNGHLDSYEKRTQLPLP--IKEFLDQYD   39 (42)
T ss_pred             CcccHHHHHHHHHHHhcCcccchhhccHH--HHHHHHhCC
Confidence            46899999999999998765 47777776  888888773

Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS3, like CIS1 and SOCS1, is involved in the down-regulation of the JAK/STAT pathway. SOCS3 inhibits JAK activity indirectly through recruitment to the cytokine receptors. SOCS3 has been shown to play an essential role in placental development and a non-essential role in embryo development. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>KOG0078|consensus

Probab=97.37  E-value=0.00015  Score=67.38  Aligned_cols=51  Identities=31%  Similarity=0.508  Sum_probs=46.7

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCc
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGD   68 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~   68 (432)
                      .+|+++|++++||+++|||+++.|+.+      +.|...+..+.+.++.+|.+.+..
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d------~~f~~~~~sTiGIDFk~kti~l~g   58 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSD------DSFNTSFISTIGIDFKIKTIELDG   58 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhh------ccCcCCccceEEEEEEEEEEEeCC
Confidence            789999999999999999999999999      888888888999999999877763

>KOG1143|consensus

Probab=97.36  E-value=0.0016  Score=65.34  Aligned_cols=103  Identities=16%  Similarity=0.138  Sum_probs=64.8

Q ss_pred             EEEEEeCCCCcccchhhhhccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCC--------
Q psy3450         125 KLQLWDTSGQGRFCTIIRSYSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFN--------  194 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~l~~~~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~--------  194 (432)
                      -+.|+|.+|..+|....-.-+.  ..|..++|+++...-.+.. ++-+..+...  ++|+.++.+|+|+.+.        
T Consensus       250 lvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~AL--~iPfFvlvtK~Dl~~~~~~~~tv~  326 (591)
T KOG1143|consen  250 LVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAAL--NIPFFVLVTKMDLVDRQGLKKTVK  326 (591)
T ss_pred             eEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHHh--CCCeEEEEEeeccccchhHHHHHH
Confidence            3689999999988654333221  3577888888776543321 3334444443  5999999999999653        


Q ss_pred             ----------------cccCHHHHHHHHHhc---C-CcEEEEcCCCCCCHHHHHHH
Q psy3450         195 ----------------RTVTTREAEMYAIKN---Q-MAFFEVSPLCDFNIRESFTE  230 (432)
Q Consensus       195 ----------------r~v~~ee~~~~a~~~---~-~~~~evSAktg~nI~elf~~  230 (432)
                                      +..+.+++..-+++.   + .|+|.+|+.+|++++-+-..
T Consensus       327 ~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~f  382 (591)
T KOG1143|consen  327 DLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTF  382 (591)
T ss_pred             HHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHH
Confidence                            112233443333332   2 48999999999998654433

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=97.34  E-value=0.0018  Score=66.67  Aligned_cols=121  Identities=12%  Similarity=0.101  Sum_probs=78.9

Q ss_pred             EEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCC----------hhhHHHHHHHHHhhC--CCCc
Q psy3450         114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS----------FDGIDRWLKEVEEHA--PGVP  181 (432)
Q Consensus       114 ~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~S----------f~~l~~~l~~i~~~~--~~iP  181 (432)
                      ...+.++ ....+.++|++|+..-+.-|..++.++++||||+++++-+-          +.+....+..+-...  .+.|
T Consensus       227 e~~f~~~-~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~  305 (389)
T PF00503_consen  227 EIDFNFS-GSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTP  305 (389)
T ss_dssp             EEEEEE--TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSE
T ss_pred             EEEEEee-cccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCc
Confidence            3444441 23567999999998888889999999999999999874211          233333444443322  5799


Q ss_pred             EEEEEECccCCC------C----------cc--cCHHHHHHHHHhc------------CCcEEEEcCCCCCCHHHHHHHH
Q psy3450         182 KVLVGNRLHLAF------N----------RT--VTTREAEMYAIKN------------QMAFFEVSPLCDFNIRESFTEL  231 (432)
Q Consensus       182 iILVgNK~DL~~------~----------r~--v~~ee~~~~a~~~------------~~~~~evSAktg~nI~elf~~L  231 (432)
                      +||+.||.|+-.      .          ..  -..+.+..+....            .+-+..++|.+-.+++.+|+.+
T Consensus       306 iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v  385 (389)
T PF00503_consen  306 IILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAV  385 (389)
T ss_dssp             EEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHH
T ss_pred             eEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHh
Confidence            999999999721      0          11  2345555555431            1134578888888899998888


Q ss_pred             HHHH
Q psy3450         232 SRRA  235 (432)
Q Consensus       232 ~~~i  235 (432)
                      .+.|
T Consensus       386 ~~~i  389 (389)
T PF00503_consen  386 KDII  389 (389)
T ss_dssp             HHHH
T ss_pred             cCcC
Confidence            7643

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>KOG0447|consensus

Probab=97.32  E-value=0.0046  Score=64.79  Aligned_cols=161  Identities=19%  Similarity=0.266  Sum_probs=92.0

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccc--cCCCccc-----c--------------------
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFC--SGSGKYD-----D--------------------  108 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~--~~ig~~~-----~--------------------  108 (432)
                      ..++..+|+|||+..+||||.+..+....-||.-.-.--+..+..  ...|.|.     +                    
T Consensus       304 t~DhLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~  383 (980)
T KOG0447|consen  304 TQDHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEI  383 (980)
T ss_pred             ccccCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHH
Confidence            346788999999999999999998744444443221111111111  1112110     0                    


Q ss_pred             ------------ccceeEEEEEECCeE-EEEEEEeCCCC-------------cccchhhhhcccCceEEEEEEeCCCCCC
Q psy3450         109 ------------MLAYKTTTILLDGKR-VKLQLWDTSGQ-------------GRFCTIIRSYSRGAQGILLVYDITNKWS  162 (432)
Q Consensus       109 ------------tid~~~~~i~i~~~~-v~l~i~Dt~G~-------------e~~~~l~~~~~~~ad~iIlV~Dvt~~~S  162 (432)
                                  |+......+.+.|.. -+..++|.||.             +....+...|+.+.++||+|.--.+-+.
T Consensus       384 E~RMr~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDA  463 (980)
T KOG0447|consen  384 ELRMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDA  463 (980)
T ss_pred             HHHHHhcccCCcccccceEEEeecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcch
Confidence                        122222233444432 35678999984             2344567789999999999974222211


Q ss_pred             h-hhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC-----CcEEEEcC
Q psy3450         163 F-DGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-----MAFFEVSP  218 (432)
Q Consensus       163 f-~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-----~~~~evSA  218 (432)
                      - ..+..+...+.-  .+.-.|+|.+|.|+.++.-.+...++++....-     ..||.+-.
T Consensus       464 ERSnVTDLVsq~DP--~GrRTIfVLTKVDlAEknlA~PdRI~kIleGKLFPMKALGYfaVVT  523 (980)
T KOG0447|consen  464 ERSIVTDLVSQMDP--HGRRTIFVLTKVDLAEKNVASPSRIQQIIEGKLFPMKALGYFAVVT  523 (980)
T ss_pred             hhhhHHHHHHhcCC--CCCeeEEEEeecchhhhccCCHHHHHHHHhcCccchhhcceeEEEe
Confidence            1 122222222221  256789999999998877777777777665321     25666543

>KOG0448|consensus

Probab=97.31  E-value=0.002  Score=69.07  Aligned_cols=67  Identities=18%  Similarity=0.320  Sum_probs=45.4

Q ss_pred             EEEEEeCCCCc---ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCC
Q psy3450         125 KLQLWDTSGQG---RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFN  194 (432)
Q Consensus       125 ~l~i~Dt~G~e---~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~  194 (432)
                      .+.+.|.||.+   +...-...+..++|++|||....+.....+ +.++....+.  +..|.|+.||||....
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~~--KpniFIlnnkwDasas  276 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSEE--KPNIFILNNKWDASAS  276 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhcc--CCcEEEEechhhhhcc
Confidence            35778999964   444555677889999999998766544333 4444444443  3567788999998643

>TIGR00092 GTP-binding protein YchF

Probab=97.23  E-value=0.00093  Score=68.02  Aligned_cols=84  Identities=13%  Similarity=-0.050  Sum_probs=50.5

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCC-CcccccCCCCcCccccCCCccccccceeEEEEEECCe---------------EE
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESR-FPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK---------------RV  124 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~-~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~---------------~v  124 (432)
                      +|+.|+|.||+|||||+|.+..... -..+|  +.             +|++.....+.+.+.               ..
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~y--pf-------------tTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a   67 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANP--PF-------------TTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPT   67 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCC--CC-------------CCCCCceeEEEechhHHHHHHHHhCCcCcCCc
Confidence            6899999999999999999822221 11111  11             111222223333321               23


Q ss_pred             EEEEEeCCCCccc----chhhh---hcccCceEEEEEEeCCC
Q psy3450         125 KLQLWDTSGQGRF----CTIIR---SYSRGAQGILLVYDITN  159 (432)
Q Consensus       125 ~l~i~Dt~G~e~~----~~l~~---~~~~~ad~iIlV~Dvt~  159 (432)
                      .+++.|.||.-.-    ..+.+   ..++.+|++++|+|..+
T Consensus        68 ~i~~~DiaGlv~gAs~g~Glgn~fL~~ir~~d~l~hVvr~f~  109 (368)
T TIGR00092        68 TTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVVRCFE  109 (368)
T ss_pred             eEEEEeccccccchhcccCcchHHHHHHHhCCEEEEEEeCCC
Confidence            5789999996432    22223   34689999999999854

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>KOG0081|consensus

Probab=97.19  E-value=8.2e-05  Score=66.06  Aligned_cols=59  Identities=32%  Similarity=0.490  Sum_probs=49.5

Q ss_pred             cccccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe---CcccchhH
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV---GDSDVGKQ   74 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv---G~~gvGKS   74 (432)
                      +.+||||+|++.+||+|+||++++.+|.+      ..|.++.-.+.+.++.-|=++-   |+.|+|+-
T Consensus         3 ~GdydylikfLaLGDSGVGKTs~Ly~YTD------~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~   64 (219)
T KOG0081|consen    3 DGDYDYLIKFLALGDSGVGKTSFLYQYTD------GKFNTQFISTVGIDFREKRVVYNSSGPGGGGRG   64 (219)
T ss_pred             CccHHHHHHHHhhccCCCCceEEEEEecC------CcccceeEEEeecccccceEEEeccCCCCCCcc
Confidence            56899999999999999999999999998      7787777788888887766654   66667764

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.16  E-value=0.0086  Score=53.87  Aligned_cols=145  Identities=19%  Similarity=0.248  Sum_probs=78.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCC-CCc--
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTS-GQG--  135 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~-G~e--  135 (432)
                      ..+||.+-|+||||||||+.++          .+.-....  -.+|      -+....+.-+|+.+=+.+.|.. |.+  
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki----------~e~L~~~g--~kvg------Gf~t~EVR~gGkR~GF~Ivdl~tg~~~~   65 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKI----------AEKLREKG--YKVG------GFITPEVREGGKRIGFKIVDLATGEEGI   65 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHH----------HHHHHhcC--ceee------eEEeeeeecCCeEeeeEEEEccCCceEE
Confidence            3579999999999999999987          11000000  1122      4566666777888888888877 321  


Q ss_pred             ------------cc-------c----hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccC
Q psy3450         136 ------------RF-------C----TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHL  191 (432)
Q Consensus       136 ------------~~-------~----~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL  191 (432)
                                  +|       .    ......++.||++|+  |=--+--|. .+++.+.+.+.. .+.|+|.+..+.+.
T Consensus        66 la~~~~~~~rvGkY~V~v~~le~i~~~al~rA~~~aDvIII--DEIGpMElk-s~~f~~~ve~vl~~~kpliatlHrrsr  142 (179)
T COG1618          66 LARVGFSRPRVGKYGVNVEGLEEIAIPALRRALEEADVIII--DEIGPMELK-SKKFREAVEEVLKSGKPLIATLHRRSR  142 (179)
T ss_pred             EEEcCCCCcccceEEeeHHHHHHHhHHHHHHHhhcCCEEEE--ecccchhhc-cHHHHHHHHHHhcCCCcEEEEEecccC
Confidence                        01       0    011223355676654  322221111 144444444433 45788877776552


Q ss_pred             CCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         192 AFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       192 ~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                          ....+    -.+..+.-++.   .+-.|=+.++..+...+
T Consensus       143 ----~P~v~----~ik~~~~v~v~---lt~~NR~~i~~~Il~~L  175 (179)
T COG1618         143 ----HPLVQ----RIKKLGGVYVF---LTPENRNRILNEILSVL  175 (179)
T ss_pred             ----ChHHH----HhhhcCCEEEE---EccchhhHHHHHHHHHh
Confidence                11112    22333433333   46667778888888766

>cd03112 CobW_like The function of this protein family is unkown

Probab=97.13  E-value=0.0017  Score=58.38  Aligned_cols=64  Identities=11%  Similarity=0.089  Sum_probs=38.5

Q ss_pred             EEEEEEEeCCCCcccchhhhh--------cccCceEEEEEEeCCCCCCh-hhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRS--------YSRGAQGILLVYDITNKWSF-DGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~--------~~~~ad~iIlV~Dvt~~~Sf-~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      ..+..++||+|..+-..+...        ..-..|.++.++|..+.... ++...+..++...     =+||.||+|+
T Consensus        86 ~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~a-----d~ivlnk~dl  158 (158)
T cd03112          86 AFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFA-----DRILLNKTDL  158 (158)
T ss_pred             CCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHC-----CEEEEecccC
Confidence            456789999998643333322        22357899999997653221 1113344444432     2668999996

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.12  E-value=0.002  Score=64.58  Aligned_cols=96  Identities=15%  Similarity=0.105  Sum_probs=57.8

Q ss_pred             eEEEEEEEeCCCCcccchh----hhhc--------ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         122 KRVKLQLWDTSGQGRFCTI----IRSY--------SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l----~~~~--------~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                      ..+.+.|+||+|.......    ...+        -...+..++|.|++..  .+.+.. ...+.+..  -+.-+|.||.
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g--~~~~~~-a~~f~~~~--~~~giIlTKl  269 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTG--QNALSQ-AKAFHEAV--GLTGIILTKL  269 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCC--hHHHHH-HHHHHhhC--CCCEEEEECC
Confidence            3467899999997432111    1111        1246778999998853  333332 22222211  2446889999


Q ss_pred             cCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHH
Q psy3450         190 HLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF  228 (432)
Q Consensus       190 DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf  228 (432)
                      |....    .-.+...+...+.|+..++  +|++++++-
T Consensus       270 D~t~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~  302 (318)
T PRK10416        270 DGTAK----GGVVFAIADELGIPIKFIG--VGEGIDDLQ  302 (318)
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCChhhCc
Confidence            95422    2345556677789998888  788887764

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.12  E-value=0.001  Score=59.26  Aligned_cols=22  Identities=23%  Similarity=0.465  Sum_probs=20.2

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...+++++|.+|||||||+|.+
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l  120 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINAL  120 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHH
Confidence            4578999999999999999998

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.

>KOG0466|consensus

Probab=97.10  E-value=0.00039  Score=67.95  Aligned_cols=107  Identities=9%  Similarity=0.160  Sum_probs=68.4

Q ss_pred             EEEEEeCCCCcccch-hhhhcccCceEEEEEEeCCC----CCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--
Q psy3450         125 KLQLWDTSGQGRFCT-IIRSYSRGAQGILLVYDITN----KWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--  197 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~-l~~~~~~~ad~iIlV~Dvt~----~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--  197 (432)
                      .+.|+|.||++-... |.+. ..-.|+.+|+...+.    +++-+++..  -++.+.   ..++++-||+||..+.+.  
T Consensus       126 HVSfVDCPGHDiLMaTMLnG-aAvmDaalLlIA~NEsCPQPQTsEHLaa--veiM~L---khiiilQNKiDli~e~~A~e  199 (466)
T KOG0466|consen  126 HVSFVDCPGHDILMATMLNG-AAVMDAALLLIAGNESCPQPQTSEHLAA--VEIMKL---KHIIILQNKIDLIKESQALE  199 (466)
T ss_pred             EEEeccCCchHHHHHHHhcc-hHHhhhhhhhhhcCCCCCCCchhhHHHH--HHHhhh---ceEEEEechhhhhhHHHHHH
Confidence            467899999875432 2221 122477777776554    333333321  122222   358999999999754432  


Q ss_pred             CHHHHHHHHHhc---CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         198 TTREAEMYAIKN---QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       198 ~~ee~~~~a~~~---~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ..+++..|.+.-   +++++.+||.-++||+-+.+++++.+-.
T Consensus       200 q~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPv  242 (466)
T KOG0466|consen  200 QHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPV  242 (466)
T ss_pred             HHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCC
Confidence            233455555543   5799999999999999999999998843

>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=97.06  E-value=0.00052  Score=61.98  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=19.1

Q ss_pred             EEEEeCcccchhHHHHHhhhcC
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLE   83 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~   83 (432)
                      -++++|.+|||||||+|.|...
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5789999999999999998443

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.05  E-value=0.0048  Score=60.55  Aligned_cols=97  Identities=14%  Similarity=0.083  Sum_probs=59.1

Q ss_pred             EEEEEEEeCCCCcccchhh----hh--------cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         123 RVKLQLWDTSGQGRFCTII----RS--------YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~----~~--------~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      .+.+.|+||+|........    ..        .-...|.+++|.|++..  .+.+. +...+.+..  -+--+|.||.|
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~-~~~~f~~~~--~~~g~IlTKlD  228 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALE-QAKVFNEAV--GLTGIILTKLD  228 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHH-HHHHHHhhC--CCCEEEEEccC
Confidence            4678999999975432211    11        11247899999999743  33332 333333322  14568899999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHH
Q psy3450         191 LAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE  230 (432)
Q Consensus       191 L~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~  230 (432)
                      ....    .-.+..++...+.|+..++  +|.+++++-..
T Consensus       229 e~~~----~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~~  262 (272)
T TIGR00064       229 GTAK----GGIILSIAYELKLPIKFIG--VGEKIDDLAPF  262 (272)
T ss_pred             CCCC----ccHHHHHHHHHCcCEEEEe--CCCChHhCccC
Confidence            7432    2344555667788888888  78888776443

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.04  E-value=0.0018  Score=47.97  Aligned_cols=44  Identities=25%  Similarity=0.375  Sum_probs=31.7

Q ss_pred             CceEEEEEEeCCCCC--ChhhHHHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         147 GAQGILLVYDITNKW--SFDGIDRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       147 ~ad~iIlV~Dvt~~~--Sf~~l~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      -.+++++++|++...  +.++...++++++...++.|+++|.||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQLSLFKEIKPLFPNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHTTTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHcCCCCEEEEEeccC
Confidence            368999999998754  55666778899999988999999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.04  E-value=0.00098  Score=66.99  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=19.7

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|+|-||||||||||+|
T Consensus       132 ~~~v~vvG~PNVGKSslIN~L  152 (322)
T COG1161         132 KIRVGVVGYPNVGKSTLINRL  152 (322)
T ss_pred             ceEEEEEcCCCCcHHHHHHHH
Confidence            478999999999999999998

>KOG0092|consensus

Probab=97.03  E-value=0.0015  Score=59.95  Aligned_cols=139  Identities=14%  Similarity=0.253  Sum_probs=90.3

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCC
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGS   94 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~   94 (432)
                      .-+|++++|+.++||++|+.||..      +.|.+...++.+..+..|.+-+++..+      . |       +.|    
T Consensus         4 ~~~KvvLLG~~~VGKSSlV~Rfvk------~~F~e~~e~TIGaaF~tktv~~~~~~i------k-f-------eIW----   59 (200)
T KOG0092|consen    4 REFKVVLLGDSGVGKSSLVLRFVK------DQFHENIEPTIGAAFLTKTVTVDDNTI------K-F-------EIW----   59 (200)
T ss_pred             ceEEEEEECCCCCCchhhhhhhhh------CccccccccccccEEEEEEEEeCCcEE------E-E-------EEE----
Confidence            457999999999999999999998      888888899999999999999987611      1 1       000    


Q ss_pred             CcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhhhcc-----cCceEEEEE----EeCCC--CCCh
Q psy3450          95 SESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYS-----RGAQGILLV----YDITN--KWSF  163 (432)
Q Consensus        95 ~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~-----~~ad~iIlV----~Dvt~--~~Sf  163 (432)
                          .+.+.+.     ......+++.|-..-|.++|..-.+.|...-...-     ..-|++|.+    .|+.+  .-.+
T Consensus        60 ----DTAGQER-----y~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~  130 (200)
T KOG0092|consen   60 ----DTAGQER-----YHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEF  130 (200)
T ss_pred             ----EcCCccc-----ccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccH
Confidence                1112210     11123456778888899999998877755433221     124555544    35555  3455


Q ss_pred             hhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         164 DGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       164 ~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      ++.+.+.+.     .+.+.+-.-.|...
T Consensus       131 ~ea~~yAe~-----~gll~~ETSAKTg~  153 (200)
T KOG0092|consen  131 EEAQAYAES-----QGLLFFETSAKTGE  153 (200)
T ss_pred             HHHHHHHHh-----cCCEEEEEeccccc
Confidence            555554443     34566666667653

>PRK12288 GTPase RsgA; Reviewed

Probab=97.03  E-value=0.001  Score=67.60  Aligned_cols=19  Identities=37%  Similarity=0.698  Sum_probs=17.7

Q ss_pred             EEEeCcccchhHHHHHhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~   81 (432)
                      ++++|.+|||||||||+|.
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll  226 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALL  226 (347)
T ss_pred             EEEECCCCCCHHHHHHHhc
Confidence            7899999999999999983

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.03  E-value=0.0053  Score=65.19  Aligned_cols=91  Identities=22%  Similarity=0.226  Sum_probs=54.6

Q ss_pred             EEEEEEEeCCCCcccchhhhh---ccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRS---YSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~---~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      .+.+.|+||+|..........   .+.  .....++|++.+.  +..++...+..+...   .+.-+|.||+|...    
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAts--s~~Dl~eii~~f~~~---~~~gvILTKlDEt~----  498 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANA--HFSDLDEVVRRFAHA---KPQGVVLTKLDETG----  498 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCC--ChhHHHHHHHHHHhh---CCeEEEEecCcCcc----
Confidence            467899999996432211000   010  1234567777653  355555555555443   36779999999632    


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNI  224 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI  224 (432)
                      ..-.+...+...+.++..++  +|.+|
T Consensus       499 ~lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        499 RFGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             chhHHHHHHHHhCCCEEEEe--CCCCc
Confidence            34566677777788877776  56666

>cd03727 SOCS_ASB8 SOCS (suppressors of cytokine signaling) box of ASB8-like proteins

Probab=97.02  E-value=0.0003  Score=48.81  Aligned_cols=33  Identities=36%  Similarity=0.432  Sum_probs=27.1

Q ss_pred             hhHhhhhhhhhhcccce----eeccCCCChHHHHHhh
Q psy3450         317 ISLQELCCRAIVARTTV----YAINQLPLPNLIKSHL  349 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~  349 (432)
                      -+||++|+++|-.-...    .+|++||||.+||..|
T Consensus         4 ~~Lq~LcR~aiR~~lg~~~l~~aI~~LpLP~sLK~YL   40 (43)
T cd03727           4 GTLKALARYAVRRSLGVQYLPEAVKQLPLPRSVKEYL   40 (43)
T ss_pred             cCHHHHHHHHHHHHHhhhhHHhhcccCCCCHHHHHHH
Confidence            47999999998765533    3899999999999876

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. Human ASB8 is highly transcribed in skeletal muscle and in lung carcinoma cell lines. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=97.00  E-value=0.003  Score=65.64  Aligned_cols=94  Identities=12%  Similarity=0.068  Sum_probs=54.3

Q ss_pred             EEEEEEEeCCCCcccch-hhh---hc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         123 RVKLQLWDTSGQGRFCT-IIR---SY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~-l~~---~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      .+.+.|+||+|...... +..   .+  ..+.+-++||.|++-...-   ......+.+..  .+--+|.||.|....  
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a---~~~a~~F~~~~--~~~g~IlTKlD~~ar--  254 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAA---EAQAKAFKDSV--DVGSVIITKLDGHAK--  254 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhH---HHHHHHHHhcc--CCcEEEEECccCCCC--
Confidence            46789999999653321 111   11  2356889999998654222   22333333321  256788999997421  


Q ss_pred             cCHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         197 VTTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       197 v~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                        .-.+...+...+.|+..++  +|++++++
T Consensus       255 --gG~aLs~~~~t~~PI~fig--~Ge~v~Dl  281 (429)
T TIGR01425       255 --GGGALSAVAATKSPIIFIG--TGEHIDDF  281 (429)
T ss_pred             --ccHHhhhHHHHCCCeEEEc--CCCChhhc
Confidence              1223445556677776665  56666655

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>KOG0463|consensus

Probab=96.98  E-value=0.0062  Score=61.25  Aligned_cols=102  Identities=11%  Similarity=0.052  Sum_probs=55.3

Q ss_pred             EEEEEeCCCCcccchhhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHH
Q psy3450         125 KLQLWDTSGQGRFCTIIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREA  202 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~  202 (432)
                      .+.|+|.+|+|+|-...-.-+  .-.|..++++-.+-.- .-..++.+-....  -.+|+.+|.+|+|..... +..|..
T Consensus       220 viTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGI-iGmTKEHLgLALa--L~VPVfvVVTKIDMCPAN-iLqEtm  295 (641)
T KOG0463|consen  220 VITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGI-IGMTKEHLGLALA--LHVPVFVVVTKIDMCPAN-ILQETM  295 (641)
T ss_pred             eEEEEeccchhhhhheeeeccccCCCCceEEEecccccc-eeccHHhhhhhhh--hcCcEEEEEEeeccCcHH-HHHHHH
Confidence            378999999998855322211  2235555555433210 0111222222222  248999999999985422 222222


Q ss_pred             H---HHHHh--------------------------cCCcEEEEcCCCCCCHHHHHHH
Q psy3450         203 E---MYAIK--------------------------NQMAFFEVSPLCDFNIRESFTE  230 (432)
Q Consensus       203 ~---~~a~~--------------------------~~~~~~evSAktg~nI~elf~~  230 (432)
                      .   ++.+.                          .-|++|.+|..+|.|++-+...
T Consensus       296 Kll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmF  352 (641)
T KOG0463|consen  296 KLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMF  352 (641)
T ss_pred             HHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHHH
Confidence            2   22222                          1267999999999998644433

>PRK13695 putative NTPase; Provisional

Probab=96.96  E-value=0.0085  Score=54.36  Aligned_cols=79  Identities=15%  Similarity=0.068  Sum_probs=44.5

Q ss_pred             hcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         143 SYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       143 ~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      ..++++++  +++|=-  ...+.. ..+.+.+.... .+.|+|++.+|...       ...+.++....+..++++   +
T Consensus        92 ~~l~~~~~--lllDE~--~~~e~~~~~~~~~l~~~~~~~~~~i~v~h~~~~-------~~~~~~i~~~~~~~i~~~---~  157 (174)
T PRK13695         92 RALEEADV--IIIDEI--GKMELKSPKFVKAVEEVLDSEKPVIATLHRRSV-------HPFVQEIKSRPGGRVYEL---T  157 (174)
T ss_pred             hccCCCCE--EEEECC--CcchhhhHHHHHHHHHHHhCCCeEEEEECchhh-------HHHHHHHhccCCcEEEEE---c
Confidence            34556777  566721  111121 22333333322 45799999998543       122334444556778888   5


Q ss_pred             CCCHHHHHHHHHHHH
Q psy3450         221 DFNIRESFTELSRRA  235 (432)
Q Consensus       221 g~nI~elf~~L~~~i  235 (432)
                      .+|=+++...+.+.+
T Consensus       158 ~~~r~~~~~~~~~~~  172 (174)
T PRK13695        158 PENRDSLPFEILNRL  172 (174)
T ss_pred             chhhhhHHHHHHHHH
Confidence            567778888887765

>KOG0467|consensus

Probab=96.95  E-value=0.0024  Score=69.17  Aligned_cols=130  Identities=20%  Similarity=0.212  Sum_probs=78.7

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      +....-+++++-.-.-|||||...|...+-.....+.+...--... ..+....|..+...|..-.+.+.++++|+||+-
T Consensus         5 ~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~r-edeq~rgitmkss~is~~~~~~~~nlidspghv   83 (887)
T KOG0467|consen    5 GSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTR-EDEQTRGITMKSSAISLLHKDYLINLIDSPGHV   83 (887)
T ss_pred             CCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeecccc-chhhhhceeeeccccccccCceEEEEecCCCcc
Confidence            3445567899999999999999998443322111111111100000 000001123333344444466889999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECcc
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLH  190 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~D  190 (432)
                      +|.+......+-+|++++.+|+...-.-+..    ..+++.. .+...++|.||+|
T Consensus        84 df~sevssas~l~d~alvlvdvvegv~~qt~----~vlrq~~~~~~~~~lvinkid  135 (887)
T KOG0467|consen   84 DFSSEVSSASRLSDGALVLVDVVEGVCSQTY----AVLRQAWIEGLKPILVINKID  135 (887)
T ss_pred             chhhhhhhhhhhcCCcEEEEeeccccchhHH----HHHHHHHHccCceEEEEehhh
Confidence            9999998999999999999998765332221    1111111 3466899999999

>cd03718 SOCS_SSB1_4 SOCS (suppressors of cytokine signaling) box of SSB1 and SSB4 (SPRY domain-containing SOCS box proteins)-like proteins

Probab=96.95  E-value=0.00059  Score=47.46  Aligned_cols=34  Identities=35%  Similarity=0.578  Sum_probs=29.3

Q ss_pred             hhHhhhhhhhhhccc---ceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVART---TVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  350 (432)
                      -|||++|+.+|..+.   ....|++||||..||..|.
T Consensus         4 ~sLq~LCR~~Ir~~lg~~~~~~I~~LpLP~~Lk~yLl   40 (42)
T cd03718           4 LPLMDLCRRRVRVALGRDRLEEIEQLPLPPSLKNYLL   40 (42)
T ss_pred             CCHHHHHHHHHHHHhCcccccccccCCCCHHHHHHHc
Confidence            589999999997766   3569999999999998875

SSB proteins contain a central SPRY domain and a C-terminal SOCS. SSB1 and SSB4 has been shown to bind to MET, the receptor protein-tyrosine kinase for hepatocyte growth factor (HGF) and also interacts with prostate apoptosis response protein-4. Both types of interactions are mediated through the SPRY domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=96.92  E-value=0.0024  Score=60.81  Aligned_cols=90  Identities=18%  Similarity=0.062  Sum_probs=48.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCC-CCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLES-RFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~-~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..-|.|+|++++|||+|+|+++... .|....   .. ...  +.|     +......+.. +....+.++||+|....
T Consensus         6 ~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~---~~-~~~--T~g-----i~~~~~~~~~-~~~~~v~~lDteG~~~~   73 (224)
T cd01851           6 PVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMD---TS-QQT--TKG-----IWMWSVPFKL-GKEHAVLLLDTEGTDGR   73 (224)
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhCCCCCeEecC---CC-CCC--ccc-----eEEEeccccC-CCcceEEEEecCCcCcc
Confidence            34568899999999999999984431 443111   10 000  111     1222111111 23467899999997543


Q ss_pred             ch------hhhhcccC--ceEEEEEEeCCCC
Q psy3450         138 CT------IIRSYSRG--AQGILLVYDITNK  160 (432)
Q Consensus       138 ~~------l~~~~~~~--ad~iIlV~Dvt~~  160 (432)
                      ..      ..-..+..  ++++|+..+....
T Consensus        74 ~~~~~~~~~~~~~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          74 ERGEFEDDARLFALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             ccCchhhhhHHHHHHHHHhCEEEEeccCccc
Confidence            22      11122223  7888887776543

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

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=96.92  E-value=0.0059  Score=64.18  Aligned_cols=138  Identities=19%  Similarity=0.220  Sum_probs=79.2

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      +..+++=|+|+|+||+|||||+..+ + .+|...        ......|          -...+.|+.-++.|..++  .
T Consensus        65 d~PPPfIvavvGPpGtGKsTLirSl-V-rr~tk~--------ti~~i~G----------PiTvvsgK~RRiTflEcp--~  122 (1077)
T COG5192          65 DLPPPFIVAVVGPPGTGKSTLIRSL-V-RRFTKQ--------TIDEIRG----------PITVVSGKTRRITFLECP--S  122 (1077)
T ss_pred             cCCCCeEEEeecCCCCChhHHHHHH-H-HHHHHh--------hhhccCC----------ceEEeecceeEEEEEeCh--H
Confidence            4456677889999999999999987 1 111110        0000011          111245677788999988  2


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhh-HHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHH-----h-
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDG-IDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----K-  208 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~-l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~-  208 (432)
                      ....++ ...+-||.+||+.|.+-.  |+- ..+++..+..+. -.-++-|.+..||-.. +-....+....+     + 
T Consensus       123 Dl~~mi-DvaKIaDLVlLlIdgnfG--fEMETmEFLnil~~HG-mPrvlgV~ThlDlfk~-~stLr~~KKrlkhRfWtEi  197 (1077)
T COG5192         123 DLHQMI-DVAKIADLVLLLIDGNFG--FEMETMEFLNILISHG-MPRVLGVVTHLDLFKN-PSTLRSIKKRLKHRFWTEI  197 (1077)
T ss_pred             HHHHHH-hHHHhhheeEEEeccccC--ceehHHHHHHHHhhcC-CCceEEEEeecccccC-hHHHHHHHHHHhhhHHHHH
Confidence            333333 234668999999997643  332 134555444443 2346778999999543 222233322111     1 


Q ss_pred             -cCCcEEEEcCCC
Q psy3450         209 -NQMAFFEVSPLC  220 (432)
Q Consensus       209 -~~~~~~evSAkt  220 (432)
                       .|+.+|.+|-..
T Consensus       198 yqGaKlFylsgV~  210 (1077)
T COG5192         198 YQGAKLFYLSGVE  210 (1077)
T ss_pred             cCCceEEEecccc
Confidence             267888888753

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=96.83  E-value=0.0022  Score=61.97  Aligned_cols=19  Identities=32%  Similarity=0.586  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|.+|||||||+|++
T Consensus       122 ~~~~~G~sgvGKStLiN~L  140 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINAL  140 (245)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999998

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=96.83  E-value=0.0021  Score=65.30  Aligned_cols=19  Identities=32%  Similarity=0.564  Sum_probs=17.8

Q ss_pred             EEEeCcccchhHHHHHhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~   81 (432)
                      ++|+|.+|||||||||.|.
T Consensus       175 ~v~iG~SgVGKSSLIN~L~  193 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLI  193 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHc
Confidence            7999999999999999983

>KOG0394|consensus

Probab=96.80  E-value=0.00036  Score=63.58  Aligned_cols=141  Identities=18%  Similarity=0.267  Sum_probs=92.8

Q ss_pred             cceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCC
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDG   93 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~   93 (432)
                      -.|+|++++||+|+||+++..+|..      ..|..++..+.+.++.-|=+.|.    ||+-.++.|          ...
T Consensus         7 ~~lLKViiLGDsGVGKtSLmn~yv~------~kF~~qykaTIgadFltKev~Vd----~~~vtlQiW----------DTA   66 (210)
T KOG0394|consen    7 RTLLKVIILGDSGVGKTSLMNQYVN------KKFSQQYKATIGADFLTKEVQVD----DRSVTLQIW----------DTA   66 (210)
T ss_pred             ccceEEEEeCCCCccHHHHHHHHHH------HHHHHHhccccchhheeeEEEEc----CeEEEEEEE----------ecc
Confidence            4689999999999999999999998      77778888899999988888877    555555554          111


Q ss_pred             CCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh---hhhcccCc-----eEE--EEE---EeCCC-
Q psy3450          94 SSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI---IRSYSRGA-----QGI--LLV---YDITN-  159 (432)
Q Consensus        94 ~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l---~~~~~~~a-----d~i--IlV---~Dvt~-  159 (432)
                      ..++-  ..+|           .-.+.|..+-+..+|..-.+.|..+   +..++..|     +.+  |++   .|+.+ 
T Consensus        67 GQERF--qsLg-----------~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~  133 (210)
T KOG0394|consen   67 GQERF--QSLG-----------VAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGG  133 (210)
T ss_pred             cHHHh--hhcc-----------cceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCC
Confidence            11111  1111           1123566777888898887766554   23344333     333  333   46644 


Q ss_pred             ---CCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         160 ---KWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       160 ---~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                         ..|....+.|...-    .++|.+-.--|-+.
T Consensus       134 ~~r~VS~~~Aq~WC~s~----gnipyfEtSAK~~~  164 (210)
T KOG0394|consen  134 KSRQVSEKKAQTWCKSK----GNIPYFETSAKEAT  164 (210)
T ss_pred             ccceeeHHHHHHHHHhc----CCceeEEecccccc
Confidence               34666777786542    46888888878764

>cd03722 SOCS_ASB3 SOCS (suppressors of cytokine signaling) box of ASB3-like proteins

Probab=96.77  E-value=0.00078  Score=48.79  Aligned_cols=36  Identities=39%  Similarity=0.438  Sum_probs=31.4

Q ss_pred             hhhhHhhhhhhhhhccccee------eccCCCChHHHHHhhh
Q psy3450         315 SVISLQELCCRAIVARTTVY------AINQLPLPNLIKSHLK  350 (432)
Q Consensus       315 ~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~  350 (432)
                      +|-|||.+|+.+|..+....      .|++||||..|+..|.
T Consensus         2 ~~~sLqhLCRl~IR~~lg~~~l~~~~~i~~LpLP~~Lk~YL~   43 (51)
T cd03722           2 SVPSLTHLCRLEIRSSLKSERLRSDSFICQLPLPRSLQDYLL   43 (51)
T ss_pred             CCccHHHHHHHHHHHHcchhhcccccccccCCCCHHHHHHHh
Confidence            46899999999999998755      4899999999998875

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. ABS3 has been shown to be negative regulator of TNF-R2-mediated cellular responses to TNF-alpha by direct targeting of tumor necrosis factor receptor II (TNF-R2) for ubiquitination and proteasome-mediated degradation. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>KOG1491|consensus

Probab=96.74  E-value=0.0034  Score=62.46  Aligned_cols=86  Identities=16%  Similarity=0.118  Sum_probs=52.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE---------------CCeE
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL---------------DGKR  123 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i---------------~~~~  123 (432)
                      ..+|+-|||-||||||||+|.+....--+.++..               .||+...-.+.+               ....
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF---------------~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vp   83 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPF---------------CTIDPNEARVEVPDSRFDLLCPIYGPKSKVP   83 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCc---------------ceeccccceeecCchHHHHHHHhcCCcceee
Confidence            4579999999999999999998332221221111               112222222222               1234


Q ss_pred             EEEEEEeCCCCcc----cchhhhhc---ccCceEEEEEEeCCC
Q psy3450         124 VKLQLWDTSGQGR----FCTIIRSY---SRGAQGILLVYDITN  159 (432)
Q Consensus       124 v~l~i~Dt~G~e~----~~~l~~~~---~~~ad~iIlV~Dvt~  159 (432)
                      ..|+++|++|.-+    -..+-+.|   +|.+|+++.|+++..
T Consensus        84 a~l~v~DIAGLvkGAs~G~GLGN~FLs~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen   84 AFLTVYDIAGLVKGASAGEGLGNKFLSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             eeEEEEeecccccCcccCcCchHHHHHhhhhccceeEEEEecC
Confidence            6789999998643    23344444   588999999988753

>PRK14974 cell division protein FtsY; Provisional

Probab=96.71  E-value=0.0055  Score=61.90  Aligned_cols=96  Identities=10%  Similarity=0.021  Sum_probs=56.9

Q ss_pred             EEEEEEeCCCCcccch-hh---hhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         124 VKLQLWDTSGQGRFCT-II---RSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~-l~---~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      +.+.++||+|.-.... +.   ..+.  -..|.++||.|++...   +.......+....  -.--+|.||.|....   
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~---d~~~~a~~f~~~~--~~~giIlTKlD~~~~---  294 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGN---DAVEQAREFNEAV--GIDGVILTKVDADAK---  294 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccch---hHHHHHHHHHhcC--CCCEEEEeeecCCCC---
Confidence            4589999999753211 11   1121  2578899999986542   2222223232211  134678899997432   


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE  230 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~  230 (432)
                       .-.+...+...+.|+..++  +|.+++++...
T Consensus       295 -~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~  324 (336)
T PRK14974        295 -GGAALSIAYVIGKPILFLG--VGQGYDDLIPF  324 (336)
T ss_pred             -ccHHHHHHHHHCcCEEEEe--CCCChhhcccC
Confidence             2234455556788888887  79998877543

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.66  E-value=0.015  Score=59.62  Aligned_cols=96  Identities=17%  Similarity=0.122  Sum_probs=53.3

Q ss_pred             EEEEEEEeCCCCcccchhhhh---cc---cCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CC--C--cEEEEEECcc
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRS---YS---RGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PG--V--PKVLVGNRLH  190 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~---~~---~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~--i--PiILVgNK~D  190 (432)
                      ...+.++||+|...+......   .+   ....-.+||.+.+..  .+.+...+..+....  +.  .  +-=+|.+|.|
T Consensus       215 ~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~--~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlD  292 (374)
T PRK14722        215 NKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSH--GDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLD  292 (374)
T ss_pred             CCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccC--hHHHHHHHHHHHHhhcccccccCCCCEEEEeccc
Confidence            346799999997543322111   12   223456889998764  233333333333321  10  0  2246779999


Q ss_pred             CCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         191 LAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       191 L~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                      -..    ..-.+..++...+.|+..++  +|.+|.+
T Consensus       293 Et~----~~G~~l~~~~~~~lPi~yvt--~Gq~VPe  322 (374)
T PRK14722        293 EAS----NLGGVLDTVIRYKLPVHYVS--TGQKVPE  322 (374)
T ss_pred             cCC----CccHHHHHHHHHCcCeEEEe--cCCCCCc
Confidence            632    33456667777787776666  5665544

>KOG0093|consensus

Probab=96.65  E-value=0.0017  Score=57.19  Aligned_cols=56  Identities=25%  Similarity=0.459  Sum_probs=47.2

Q ss_pred             ccccccccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCc
Q psy3450           7 VATQKQYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGD   68 (432)
Q Consensus         7 ~~~~~~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~   68 (432)
                      -+..++.||++|++++||+.+||++++.||..      .+|.+..-.+.+.++..|-+.=++
T Consensus        12 ~s~dqnFDymfKlliiGnssvGKTSfl~ry~d------dSFt~afvsTvGidFKvKTvyr~~   67 (193)
T KOG0093|consen   12 DSIDQNFDYMFKLLIIGNSSVGKTSFLFRYAD------DSFTSAFVSTVGIDFKVKTVYRSD   67 (193)
T ss_pred             ccccccccceeeEEEEccCCccchhhhHHhhc------cccccceeeeeeeeEEEeEeeecc
Confidence            34566899999999999999999999999998      888887778888888777655554

>KOG0094|consensus

Probab=96.63  E-value=0.0018  Score=59.74  Aligned_cols=48  Identities=19%  Similarity=0.317  Sum_probs=42.3

Q ss_pred             cceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      -..+|++++||.+||||+|+.||..      +.|...+..+.+.|+..|-+.+-
T Consensus        20 ~k~~KlVflGdqsVGKTslItRf~y------d~fd~~YqATIGiDFlskt~~l~   67 (221)
T KOG0094|consen   20 LKKYKLVFLGDQSVGKTSLITRFMY------DKFDNTYQATIGIDFLSKTMYLE   67 (221)
T ss_pred             ceEEEEEEEccCccchHHHHHHHHH------hhhcccccceeeeEEEEEEEEEc
Confidence            3458999999999999999999998      88888999999999988866654

>cd03730 SOCS_ASB14 SOCS (suppressors of cytokine signaling) box of ASB14-like proteins

Probab=96.61  E-value=0.0013  Score=48.61  Aligned_cols=38  Identities=32%  Similarity=0.335  Sum_probs=32.3

Q ss_pred             hhhHhhhhhhhhhccccee------eccCCCChHHHHHhhhhhh
Q psy3450         316 VISLQELCCRAIVARTTVY------AINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~  353 (432)
                      +-|||.||+.+|..|...-      .|.+||||..||..|.-+.
T Consensus         3 P~sLQHLCRl~IR~~lg~~~l~~~~~i~~LpLP~~LK~YLly~~   46 (57)
T cd03730           3 PRSLKHLCRLKIRACMGRLRLRCPVFMSFLPLPNRLKAYILYKE   46 (57)
T ss_pred             CCCHHHHHHHHHHHHcCccccccccccccCCCCHHHHHHHHHhh
Confidence            4689999999999998653      4789999999999987664

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd03725 SOCS_ASB6 SOCS (suppressors of cytokine signaling) box of ASB6-like proteins

Probab=96.60  E-value=0.0014  Score=46.00  Aligned_cols=33  Identities=30%  Similarity=0.384  Sum_probs=28.8

Q ss_pred             hhHhhhhhhhhhcccce----eeccCCCChHHHHHhh
Q psy3450         317 ISLQELCCRAIVARTTV----YAINQLPLPNLIKSHL  349 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~  349 (432)
                      .|||.||+++|..|...    ..|.+||||..||..|
T Consensus         4 ~sLqhLCR~~Ir~~lg~~~~~~~i~~LpLP~~Lk~yL   40 (44)
T cd03725           4 PPLKHLCRVFIRLCLRPWPVDVKVKALPLPDRLKWYL   40 (44)
T ss_pred             cCHHHHHHHHHHHhcCccccccccccCCCCHHHHHHh
Confidence            58999999999999753    4789999999998876

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. ASB6 interacts with the adaptor protein APS and recruits elongin B/C to the insulin receptor signaling complex. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.57  E-value=0.02  Score=58.63  Aligned_cols=90  Identities=14%  Similarity=0.190  Sum_probs=54.3

Q ss_pred             EEEEEEEeCCCCcccchhh----hhcccC--ceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcE-EEEEECccCCCCc
Q psy3450         123 RVKLQLWDTSGQGRFCTII----RSYSRG--AQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK-VLVGNRLHLAFNR  195 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~----~~~~~~--ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPi-ILVgNK~DL~~~r  195 (432)
                      .+.+.++||.|...+....    ..|+..  ..-+.||++++..  .+++++.++.+...    |+ =++.+|.|-.   
T Consensus       281 ~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~~----~i~~~I~TKlDET---  351 (407)
T COG1419         281 DCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSLF----PIDGLIFTKLDET---  351 (407)
T ss_pred             cCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhccC----CcceeEEEccccc---
Confidence            4468999999976554322    223322  3445667777765  45666666655543    33 4778999953   


Q ss_pred             ccCHHHHHHHHHhcCCcEEEEcCCCCCCH
Q psy3450         196 TVTTREAEMYAIKNQMAFFEVSPLCDFNI  224 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~evSAktg~nI  224 (432)
                       -+.-....++.+.+.|+-.++  +|.+|
T Consensus       352 -~s~G~~~s~~~e~~~PV~YvT--~GQ~V  377 (407)
T COG1419         352 -TSLGNLFSLMYETRLPVSYVT--NGQRV  377 (407)
T ss_pred             -CchhHHHHHHHHhCCCeEEEe--CCCCC
Confidence             344556666666666655554  56665

>cd03716 SOCS_ASB_like SOCS (suppressors of cytokine signaling) box of ASB (ankyrin repeat and SOCS box) and SSB (SPRY domain-containing SOCS box proteins) protein families

Probab=96.56  E-value=0.0014  Score=45.58  Aligned_cols=35  Identities=40%  Similarity=0.438  Sum_probs=30.1

Q ss_pred             hhhHhhhhhhhhhcccc---eeeccCCCChHHHHHhhh
Q psy3450         316 VISLQELCCRAIVARTT---VYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       316 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~  350 (432)
                      .-|||++|+.+|-.+..   ...|++||||..||..|.
T Consensus         3 P~sLq~LCR~~Ir~~lg~~~~~~i~~LplP~~Lk~yLl   40 (42)
T cd03716           3 PRSLQHLCRLAIRRCLGRRRLELIKKLPLPPRLKDYLL   40 (42)
T ss_pred             CCCHHHHHHHHHHHHhCccccccCccCCCCHHHHHHHc
Confidence            36899999999998875   458999999999998774

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence of a variable number of repeats. SSB proteins contain a central SPRY domain and a C-terminal SOCS. Recently, it has been shown that all four SSB proteins interact with the MET, the receptor protein-tyrosine kinase for hepatocyte growth factor (HGF), and that SSB-1, SSB-2, and SSB-4 interact with prostate apoptosis response protein-4. Both types of interactions are mediated through the SPRY domain.

>PRK13796 GTPase YqeH; Provisional

Probab=96.52  E-value=0.0035  Score=64.08  Aligned_cols=21  Identities=24%  Similarity=0.507  Sum_probs=19.1

Q ss_pred             EEEEEeCcccchhHHHHHhhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~   81 (432)
                      .++.++|.+|||||||+|+|.
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~  181 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRII  181 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHH
Confidence            379999999999999999983

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=96.51  E-value=0.0094  Score=52.22  Aligned_cols=65  Identities=14%  Similarity=0.068  Sum_probs=46.3

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      +.+.++|+++..  .......+..+|.++++.+.+ ..++..+...++.+.+.....++.+|.|+.+-
T Consensus        45 yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~-~~s~~~~~~~l~~l~~~~~~~~~~lVvN~~~~  109 (139)
T cd02038          45 YDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE-PTSITDAYALIKKLAKQLRVLNFRVVVNRAES  109 (139)
T ss_pred             CCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC-hhHHHHHHHHHHHHHHhcCCCCEEEEEeCCCC
Confidence            668999999753  233346788999999999865 44566655556666554445678899999974

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>cd03723 SOCS_ASB4_ASB18 SOCS (suppressors of cytokine signaling) box of ASB4 and ASB18 proteins

Probab=96.50  E-value=0.0016  Score=46.64  Aligned_cols=34  Identities=38%  Similarity=0.383  Sum_probs=29.0

Q ss_pred             hhHhhhhhhhhhcccce---eeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVARTTV---YAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~  350 (432)
                      -|||.+|+.+|..+...   ..|++||||..||..|.
T Consensus         4 ~SLqhLCR~~IR~~lg~~~~~~I~~LpLP~~Lk~YLl   40 (48)
T cd03723           4 RSLQHLCRCAIRKLLGSRCHKLVPQLSLPTSLKNYLL   40 (48)
T ss_pred             CCHHHHHHHHHHHHhcccccccCccCCCCHHHHHHHc
Confidence            58999999999987643   68999999999998774

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. Asb4 was identified as imprinted gene in mice. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=96.50  E-value=0.0026  Score=64.91  Aligned_cols=21  Identities=29%  Similarity=0.542  Sum_probs=19.3

Q ss_pred             EEEEEeCcccchhHHHHHhhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~   81 (432)
                      .+++++|.+|||||||+|+++
T Consensus       155 ~~v~~vG~~nvGKStliN~l~  175 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLL  175 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999983

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=96.49  E-value=0.0037  Score=61.66  Aligned_cols=19  Identities=37%  Similarity=0.656  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -.+++|.+|||||||+|+|
T Consensus       166 ~svl~GqSGVGKSSLiN~L  184 (301)
T COG1162         166 ITVLLGQSGVGKSTLINAL  184 (301)
T ss_pred             eEEEECCCCCcHHHHHHhh
Confidence            4679999999999999998

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=96.45  E-value=0.02  Score=51.78  Aligned_cols=83  Identities=13%  Similarity=0.025  Sum_probs=45.9

Q ss_pred             EEEEEEEeCCCCcccch----hhhhc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         123 RVKLQLWDTSGQGRFCT----IIRSY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~----l~~~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      ...+.|.||+|...+..    ....+  ....+.+++|+|.....   +..++...+.+..+  ..-+|.||.|....  
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~---~~~~~~~~~~~~~~--~~~viltk~D~~~~--  154 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQ---DAVNQAKAFNEALG--ITGVILTKLDGDAR--  154 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCCh---HHHHHHHHHHhhCC--CCEEEEECCcCCCC--
Confidence            34578899999742211    11111  13489999999985432   33345555543322  24577799997432  


Q ss_pred             cCHHHHHHHHHhcCCcEE
Q psy3450         197 VTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       197 v~~ee~~~~a~~~~~~~~  214 (432)
                        ...+...+...+.|+.
T Consensus       155 --~g~~~~~~~~~~~p~~  170 (173)
T cd03115         155 --GGAALSIRAVTGKPIK  170 (173)
T ss_pred             --cchhhhhHHHHCcCeE
Confidence              2223335556666554

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.42  E-value=0.029  Score=58.29  Aligned_cols=94  Identities=17%  Similarity=0.109  Sum_probs=55.3

Q ss_pred             EEEEEEeCCCCcccch----hhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         124 VKLQLWDTSGQGRFCT----IIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~----l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      ..+.++||+|......    ....+.  ....-.+||.|.+..  .+.+.+++..+...   -+-=+|.+|.|-..    
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~--~~~~~~~~~~f~~~---~~~~~I~TKlDEt~----  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSS--GDTLDEVISAYQGH---GIHGCIITKVDEAA----  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCC--HHHHHHHHHHhcCC---CCCEEEEEeeeCCC----
Confidence            4578999999654322    111221  223457888888744  34445444444322   12347789999642    


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCH-HHHH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNI-RESF  228 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI-~elf  228 (432)
                      ..-.+..++...+.++..++  +|.+| +++.
T Consensus       341 ~~G~~l~~~~~~~lPi~yvt--~Gq~VP~Dl~  370 (420)
T PRK14721        341 SLGIALDAVIRRKLVLHYVT--NGQKVPEDLH  370 (420)
T ss_pred             CccHHHHHHHHhCCCEEEEE--CCCCchhhhh
Confidence            33455667777888877776  67777 4443

>KOG0465|consensus

Probab=96.40  E-value=0.019  Score=61.19  Aligned_cols=67  Identities=19%  Similarity=0.296  Sum_probs=51.5

Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      +.++++++||||+-.|.--....++--|+.++|+|....-.-+...-|.+. +++  ++|.|...||.|.
T Consensus       102 ~~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~-~ry--~vP~i~FiNKmDR  168 (721)
T KOG0465|consen  102 RDYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQM-KRY--NVPRICFINKMDR  168 (721)
T ss_pred             ccceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhHHHHHHH-Hhc--CCCeEEEEehhhh
Confidence            368899999999998887778888999999999997765433444555443 333  4899999999996

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.36  E-value=0.031  Score=58.53  Aligned_cols=91  Identities=16%  Similarity=0.073  Sum_probs=52.7

Q ss_pred             EEEEEeCCCCcccchh-h---hh--cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcE-EEEEECccCCCCccc
Q psy3450         125 KLQLWDTSGQGRFCTI-I---RS--YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK-VLVGNRLHLAFNRTV  197 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~l-~---~~--~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPi-ILVgNK~DL~~~r~v  197 (432)
                      .+.|+||+|....... .   ..  ....+|.+++|+|.+...   +.......+.+   .+++ -+|.||.|...    
T Consensus       177 DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~---~l~i~gvIlTKlD~~a----  246 (437)
T PRK00771        177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHE---AVGIGGIIITKLDGTA----  246 (437)
T ss_pred             CEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHh---cCCCCEEEEecccCCC----
Confidence            6799999997543211 1   11  133678999999987642   22223333332   2333 47789999632    


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                      ..-.+...+...+.|+..++  +|++++++
T Consensus       247 ~~G~~ls~~~~~~~Pi~fig--~Ge~v~Dl  274 (437)
T PRK00771        247 KGGGALSAVAETGAPIKFIG--TGEKIDDL  274 (437)
T ss_pred             cccHHHHHHHHHCcCEEEEe--cCCCcccC
Confidence            12345556667777777666  35555444

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.34  E-value=0.013  Score=60.19  Aligned_cols=92  Identities=11%  Similarity=0.073  Sum_probs=54.6

Q ss_pred             EEEEEEeCCCCcccch--h--hhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         124 VKLQLWDTSGQGRFCT--I--IRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~--l--~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      +.+.|+||+|......  +  ...++  ...+.++||.|++-.  ..++..++..+...   -.-=+|.+|.|-..    
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk--~~d~~~i~~~F~~~---~idglI~TKLDET~----  391 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKDI---HIDGIVFTKFDETA----  391 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccC--hHHHHHHHHHhcCC---CCCEEEEEcccCCC----
Confidence            5789999999743211  1  12222  234678899887643  23445555555432   12357789999643    


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                      ..-.+..++...+.|+..++  +|.+|.+
T Consensus       392 k~G~iLni~~~~~lPIsyit--~GQ~VPe  418 (436)
T PRK11889        392 SSGELLKIPAVSSAPIVLMT--DGQDVKK  418 (436)
T ss_pred             CccHHHHHHHHHCcCEEEEe--CCCCCCc
Confidence            23445667777788777665  5666543

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.33  E-value=0.03  Score=62.04  Aligned_cols=106  Identities=19%  Similarity=0.115  Sum_probs=59.4

Q ss_pred             EEEEEEeCCCCcccch-h---hhhc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         124 VKLQLWDTSGQGRFCT-I---IRSY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~-l---~~~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      ..+.|+||+|...... +   ....  ....+-++||.|.+..  .+.+.+....+.....--+-=+|.+|.|-..    
T Consensus       264 ~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~--~~~l~~i~~~f~~~~~~~i~glIlTKLDEt~----  337 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASH--GDTLNEVVHAYRHGAGEDVDGCIITKLDEAT----  337 (767)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCc--HHHHHHHHHHHhhcccCCCCEEEEeccCCCC----
Confidence            4689999999432211 1   1111  1234567899998753  3344444444433211012347789999643    


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCH-HHHH----HHHHHHHhh
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNI-RESF----TELSRRALQ  237 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI-~elf----~~L~~~i~~  237 (432)
                      ..-.+..+....+.|+..++  +|.+| +++.    +.+++.++.
T Consensus       338 ~~G~iL~i~~~~~lPI~yit--~GQ~VPdDL~~a~~~~lv~~ll~  380 (767)
T PRK14723        338 HLGPALDTVIRHRLPVHYVS--TGQKVPEHLELAQADELVDRAFA  380 (767)
T ss_pred             CccHHHHHHHHHCCCeEEEe--cCCCChhhcccCCHHHHHHHHhc
Confidence            23345666777788877776  67777 5553    345555554

>cd03729 SOCS_ASB13 SOCS (suppressors of cytokine signaling) box of ASB13-like proteins

Probab=96.31  E-value=0.0024  Score=44.38  Aligned_cols=34  Identities=32%  Similarity=0.439  Sum_probs=29.0

Q ss_pred             hhHhhhhhhhhhcccc---eeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVARTT---VYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~  350 (432)
                      -|||.+|+.+|..+..   ...|++||||..|+..|.
T Consensus         4 ~sLqhLCR~~Ir~~lg~~~~~~i~~L~LP~~Lk~yL~   40 (42)
T cd03729           4 LSLQQLCRINLRKALGTRALEKIAKLNIPNRIIDYLS   40 (42)
T ss_pred             CCHHHHHHHHHHHHhchhhhccCccCCCCHHHHHHHc
Confidence            5899999999998764   456899999999998774

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 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=96.31  E-value=0.0028  Score=59.16  Aligned_cols=92  Identities=14%  Similarity=0.093  Sum_probs=52.9

Q ss_pred             EEEEEEeCCCCcccchh----hhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         124 VKLQLWDTSGQGRFCTI----IRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l----~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      +.+.++||+|...+...    ...++  ...+-++||.|++...  +.+..+.. ..+..+  +-=+|.+|.|...    
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~--~~~~~~~~-~~~~~~--~~~lIlTKlDet~----  154 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQ--EDLEQALA-FYEAFG--IDGLILTKLDETA----  154 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGG--HHHHHHHH-HHHHSS--TCEEEEESTTSSS----
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccCh--HHHHHHHH-Hhhccc--CceEEEEeecCCC----
Confidence            56899999996543221    11222  2467889999987653  33333222 222211  2346689999632    


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                      ..-.+..++...+.|+-.++  +|.+|++
T Consensus       155 ~~G~~l~~~~~~~~Pi~~it--~Gq~V~D  181 (196)
T PF00448_consen  155 RLGALLSLAYESGLPISYIT--TGQRVDD  181 (196)
T ss_dssp             TTHHHHHHHHHHTSEEEEEE--SSSSTTG
T ss_pred             CcccceeHHHHhCCCeEEEE--CCCChhc
Confidence            33456677777888877776  5666643

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 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>cd01854 YjeQ_engC YjeQ/EngC

Probab=96.28  E-value=0.0072  Score=59.74  Aligned_cols=21  Identities=38%  Similarity=0.612  Sum_probs=18.8

Q ss_pred             EEEEEeCcccchhHHHHHhhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~   81 (432)
                      -.++++|.+|||||||+|.+.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~  182 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALL  182 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHh
Confidence            368999999999999999983

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.27  E-value=0.032  Score=58.21  Aligned_cols=94  Identities=13%  Similarity=0.150  Sum_probs=54.8

Q ss_pred             EEEEEEEeCCCCcccc----hhhhhccc---CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc
Q psy3450         123 RVKLQLWDTSGQGRFC----TIIRSYSR---GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR  195 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~----~l~~~~~~---~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r  195 (432)
                      .+.+.|+||+|.....    .....++.   .-.-+++|.+.+-.  ..++...+..+....   +-=+|.+|.|-..  
T Consensus       299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~~~---~~~vI~TKlDet~--  371 (424)
T PRK05703        299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSRLP---LDGLIFTKLDETS--  371 (424)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCCCC---CCEEEEecccccc--
Confidence            3578999999974332    11222333   23456777887643  334444444443221   2258899999632  


Q ss_pred             ccCHHHHHHHHHhcCCcEEEEcCCCCCCH-HHH
Q psy3450         196 TVTTREAEMYAIKNQMAFFEVSPLCDFNI-RES  227 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~evSAktg~nI-~el  227 (432)
                        ..-.+..++...+.++..++  +|.+| +++
T Consensus       372 --~~G~i~~~~~~~~lPv~yit--~Gq~VpdDl  400 (424)
T PRK05703        372 --SLGSILSLLIESGLPISYLT--NGQRVPDDI  400 (424)
T ss_pred             --cccHHHHHHHHHCCCEEEEe--CCCCChhhh
Confidence              33456777778888887776  57775 444

>cd03726 SOCS_ASB7 SOCS (suppressors of cytokine signaling) box of ASB7-like proteins

Probab=96.27  E-value=0.0025  Score=44.96  Aligned_cols=34  Identities=29%  Similarity=0.507  Sum_probs=29.7

Q ss_pred             hhHhhhhhhhhhccc---ceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVART---TVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  350 (432)
                      -+||++|+.+|-.|.   ....|++||||..+|..|.
T Consensus         4 ~sL~~LCRl~IR~~lG~~~l~~I~~L~lP~~Lk~yLl   40 (45)
T cd03726           4 RTLQDLCRIKIRHCIGLQNLKLLDELPIAKVMKDYLK   40 (45)
T ss_pred             cCHHHHHHHHHHHHHhhhhcccCccCCCCHHHHHHHh
Confidence            589999999998777   5568999999999998875

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>KOG0079|consensus

Probab=96.24  E-value=0.00093  Score=58.84  Aligned_cols=49  Identities=29%  Similarity=0.439  Sum_probs=42.0

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV   66 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv   66 (432)
                      ++|.|||+++|||+|+||++++.+|.+      +.|...+-.+.+.|+.+|-+=|
T Consensus         4 ~~dhLfkllIigDsgVGKssLl~rF~d------dtFs~sYitTiGvDfkirTv~i   52 (198)
T KOG0079|consen    4 DYDHLFKLLIIGDSGVGKSSLLLRFAD------DTFSGSYITTIGVDFKIRTVDI   52 (198)
T ss_pred             cHHHHHHHHeecCCcccHHHHHHHHhh------cccccceEEEeeeeEEEEEeec
Confidence            678899999999999999999999998      6777777788888887776544

>KOG0085|consensus

Probab=96.21  E-value=0.0059  Score=57.77  Aligned_cols=118  Identities=14%  Similarity=0.154  Sum_probs=67.1

Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCC----------CCCChhhHHHHHHHHHhhC--CCCcEEEEEECc
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDIT----------NKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRL  189 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt----------~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~  189 (432)
                      .++.+.+.|.+||..-+..|-..+.+.-.+++++.++          +....++...++..|..+.  .+.++|+..||.
T Consensus       197 ~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNKk  276 (359)
T KOG0085|consen  197 QKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKK  276 (359)
T ss_pred             hhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEechh
Confidence            3445667777777655555555555555555544332          1222233333333333332  468999999999


Q ss_pred             cCCCCc----------------ccCHHHHHHHHHhc----C-----C-cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         190 HLAFNR----------------TVTTREAEMYAIKN----Q-----M-AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       190 DL~~~r----------------~v~~ee~~~~a~~~----~-----~-~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ||.++.                +-..+.+.+|.-++    +     + ---.+.|.+-.||.-+|..+-..+++.+
T Consensus       277 DlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~  352 (359)
T KOG0085|consen  277 DLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  352 (359)
T ss_pred             hhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhh
Confidence            985421                12233444554432    2     1 1123567788899999999988887643

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.16  E-value=0.0079  Score=69.24  Aligned_cols=118  Identities=21%  Similarity=0.251  Sum_probs=65.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc-----
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG-----  135 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e-----  135 (432)
                      .=.+|||++|+||||++..  .+..|+-....+   ..-..+.| +. ..|.     -+.+   +-.++||+|..     
T Consensus       126 PWy~viG~pgsGKTtal~~--sgl~Fpl~~~~~---~~~~~~~g-T~-~cdw-----wf~d---eaVlIDtaGry~~q~s  190 (1188)
T COG3523         126 PWYMVIGPPGSGKTTALLN--SGLQFPLAEQMG---ALGLAGPG-TR-NCDW-----WFTD---EAVLIDTAGRYITQDS  190 (1188)
T ss_pred             CceEEecCCCCCcchHHhc--ccccCcchhhhc---cccccCCC-Cc-ccCc-----cccc---ceEEEcCCcceecccC
Confidence            4578999999999999985  455555322111   11111111 00 0011     1122   24788999842     


Q ss_pred             ---ccchhhhhc---------ccCceEEEEEEeCCCCCChhh---------HHHHHHHHHhhC-CCCcEEEEEECccCCC
Q psy3450         136 ---RFCTIIRSY---------SRGAQGILLVYDITNKWSFDG---------IDRWLKEVEEHA-PGVPKVLVGNRLHLAF  193 (432)
Q Consensus       136 ---~~~~l~~~~---------~~~ad~iIlV~Dvt~~~Sf~~---------l~~~l~~i~~~~-~~iPiILVgNK~DL~~  193 (432)
                         .-...|..+         .+-.|+||+..|+.+.-+-+.         ++.-++++.+.- -..||.|++||.|+..
T Consensus       191 ~~~~~~~~W~~fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         191 ADEVDRAEWLGFLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             cchhhHHHHHHHHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence               122233333         255799999999875322221         222344444433 4799999999999853

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=96.15  E-value=0.054  Score=54.49  Aligned_cols=98  Identities=17%  Similarity=0.125  Sum_probs=57.4

Q ss_pred             EEEEEEeCCCCcccchhhhhcc--------cCceEEEEEEeCCCCCChhh-H-HHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYS--------RGAQGILLVYDITNKWSFDG-I-DRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~--------~~ad~iIlV~Dvt~~~Sf~~-l-~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      +...++.|.|...-......+.        -..|+++-|+|+.+-..... + ....+++..     -=+||.||.|+.+
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~-----AD~ivlNK~Dlv~  159 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAF-----ADVIVLNKTDLVD  159 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHh-----CcEEEEecccCCC
Confidence            5567888988765434333332        23588999999876533222 2 222233322     2378899999976


Q ss_pred             CcccCHHHHHHHHHhcC--CcEEEEcCCCCCCHHHHHH
Q psy3450         194 NRTVTTREAEMYAIKNQ--MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       194 ~r~v~~ee~~~~a~~~~--~~~~evSAktg~nI~elf~  229 (432)
                      ..+  .+..++..++.+  +++++++.. +....+++.
T Consensus       160 ~~~--l~~l~~~l~~lnp~A~i~~~~~~-~~~~~~ll~  194 (323)
T COG0523         160 AEE--LEALEARLRKLNPRARIIETSYG-DVDLAELLD  194 (323)
T ss_pred             HHH--HHHHHHHHHHhCCCCeEEEcccc-CCCHHHhhc
Confidence            543  455566666665  588888873 334443433

>KOG0464|consensus

Probab=96.11  E-value=0.0022  Score=65.14  Aligned_cols=129  Identities=16%  Similarity=0.206  Sum_probs=81.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhc-CCCCc--ccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYL-ESRFP--RFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~-~~~~~--~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..-+|-++..-.+||||...|++- .+..-  ..-.++.+...+- .++ ....+....--+.++.+..+++++||||+-
T Consensus        36 kirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfl-a~e-rergitiqsaav~fdwkg~rinlidtpghv  113 (753)
T KOG0464|consen   36 KIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFL-AIE-RERGITIQSAAVNFDWKGHRINLIDTPGHV  113 (753)
T ss_pred             hhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHH-HHH-HhcCceeeeeeeecccccceEeeecCCCcc
Confidence            344678888889999999988721 11110  0000111110000 000 001123333444556666778999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      .|+-.....++--|+++.|||.+-.-.-+.+..|.+.-+   -++|-+...||+|..
T Consensus       114 df~leverclrvldgavav~dasagve~qtltvwrqadk---~~ip~~~finkmdk~  167 (753)
T KOG0464|consen  114 DFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQADK---FKIPAHCFINKMDKL  167 (753)
T ss_pred             eEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhccc---cCCchhhhhhhhhhh
Confidence            998888899999999999999987655566677765322   358999999999963

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.11  E-value=0.0097  Score=54.17  Aligned_cols=19  Identities=26%  Similarity=0.588  Sum_probs=16.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      ||++-|++|+|||||++++
T Consensus         1 ~i~iTG~pG~GKTTll~k~   19 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKV   19 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHH
Confidence            6899999999999999997

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=96.11  E-value=0.044  Score=55.02  Aligned_cols=95  Identities=11%  Similarity=0.081  Sum_probs=51.8

Q ss_pred             EEEEEEeCCCCcccchhhhhccc--------CceEEEEEEeCCCCCChh-hHHHHHHHHHhhCCCCcEEEEEECccCCCC
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSR--------GAQGILLVYDITNKWSFD-GIDRWLKEVEEHAPGVPKVLVGNRLHLAFN  194 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~--------~ad~iIlV~Dvt~~~Sf~-~l~~~l~~i~~~~~~iPiILVgNK~DL~~~  194 (432)
                      ....++.|.|..+-..+...++.        ..++++-|+|+.+..... +......++..     -=+||.||+|+..+
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~-----AD~IvlnK~Dl~~~  165 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGY-----ADRILLTKTDVAGE  165 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHHh-----CCEEEEeccccCCH
Confidence            45678889997655444443321        248899999987532211 11112223332     23788899999653


Q ss_pred             cccCHHHHHHHHHhcC--CcEEEEcCCCCCCHHHHH
Q psy3450         195 RTVTTREAEMYAIKNQ--MAFFEVSPLCDFNIRESF  228 (432)
Q Consensus       195 r~v~~ee~~~~a~~~~--~~~~evSAktg~nI~elf  228 (432)
                          .+...+..+..+  ++++++. ........+|
T Consensus       166 ----~~~~~~~l~~lnp~a~i~~~~-~~~v~~~~l~  196 (318)
T PRK11537        166 ----AEKLRERLARINARAPVYTVV-HGDIDLSLLF  196 (318)
T ss_pred             ----HHHHHHHHHHhCCCCEEEEec-cCCCCHHHHh
Confidence                245555555544  5666654 2223444444

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=96.10  E-value=0.04  Score=49.97  Aligned_cols=86  Identities=21%  Similarity=0.232  Sum_probs=62.3

Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHH
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTRE  201 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee  201 (432)
                      ..+.+.|+||++...  ......+..+|.+|++...+ ..+...+..+++.+++.  +.|+.+|.||.|...   ...++
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~--~~~~~vV~N~~~~~~---~~~~~  162 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHF--GIPVGVVINKYDLND---EIAEE  162 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc--CCCEEEEEeCCCCCc---chHHH
Confidence            457789999997642  22335568899999999876 45677777887777654  467899999999642   23456


Q ss_pred             HHHHHHhcCCcEEE
Q psy3450         202 AEMYAIKNQMAFFE  215 (432)
Q Consensus       202 ~~~~a~~~~~~~~e  215 (432)
                      +.+++++.+++++.
T Consensus       163 ~~~~~~~~~~~vl~  176 (179)
T cd03110         163 IEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHcCCCeEE
Confidence            77788888887653

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=96.07  E-value=0.12  Score=53.43  Aligned_cols=173  Identities=20%  Similarity=0.160  Sum_probs=92.7

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccc----cCCCCcCccccCCCccccc-----cceeEEEEEE-CCeEEEEEEE
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFW----LDGSSESPFCSGSGKYDDM-----LAYKTTTILL-DGKRVKLQLW  129 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~----~~~~~~~~~~~~ig~~~~t-----id~~~~~i~i-~~~~v~l~i~  129 (432)
                      .+=+-|||+-.+|||||++||+---..|...    .....+.-+..+.|.+-.|     +.-....+.+ ++-.+++.++
T Consensus        17 dIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLi   96 (492)
T PF09547_consen   17 DIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLI   96 (492)
T ss_pred             ceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEE
Confidence            3557899999999999999983221111100    0001111112233322211     1222344555 4668899999


Q ss_pred             eCCCC--------c--ccchh--hhh-----------------cccC--ceEEEEEEeCC----CCCChhhH-HHHHHHH
Q psy3450         130 DTSGQ--------G--RFCTI--IRS-----------------YSRG--AQGILLVYDIT----NKWSFDGI-DRWLKEV  173 (432)
Q Consensus       130 Dt~G~--------e--~~~~l--~~~-----------------~~~~--ad~iIlV~Dvt----~~~Sf~~l-~~~l~~i  173 (432)
                      |+.|-        +  .-..+  .++                 .+++  .=++++.-|.+    .++++.+. .+.++++
T Consensus        97 DCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~EL  176 (492)
T PF09547_consen   97 DCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEEL  176 (492)
T ss_pred             eecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHH
Confidence            98772        1  10111  111                 1122  23455555543    24455555 5567777


Q ss_pred             HhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       174 ~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++.  +.|++++.|-.+-.  ..-+.+-+.++.++++++.+.+++..- +-+++..-|-+.+++
T Consensus       177 k~i--gKPFvillNs~~P~--s~et~~L~~eL~ekY~vpVlpvnc~~l-~~~DI~~Il~~vLyE  235 (492)
T PF09547_consen  177 KEI--GKPFVILLNSTKPY--SEETQELAEELEEKYDVPVLPVNCEQL-REEDITRILEEVLYE  235 (492)
T ss_pred             HHh--CCCEEEEEeCCCCC--CHHHHHHHHHHHHHhCCcEEEeehHHc-CHHHHHHHHHHHHhc
Confidence            765  47999999987742  223445566777889999999987533 334444443333433

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=96.07  E-value=0.017  Score=51.35  Aligned_cols=58  Identities=14%  Similarity=0.103  Sum_probs=34.6

Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      .+.+.|+||+|....   ...++..+|-+|+|...+--+.+. +.++ ..+.     .-=++|.||+|
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~-~~k~-~~~~-----~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQ-AIKA-GIME-----IADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHH-Hhhh-hHhh-----hcCEEEEeCCC
Confidence            467899999986532   234788899999987654111111 1111 1122     23478889998

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>KOG0098|consensus

Probab=96.05  E-value=0.0042  Score=56.89  Aligned_cols=48  Identities=25%  Similarity=0.543  Sum_probs=37.2

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV   66 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv   66 (432)
                      ++++||++++||.||||++++.||.+      ..|.+....+.+.++-.+-+-|
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~------krF~~~hd~TiGvefg~r~~~i   50 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTD------KRFQPVHDLTIGVEFGARMVTI   50 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhc------cCccccccceeeeeeceeEEEE
Confidence            57999999999999999999999998      5666666666666555443333

>KOG0460|consensus

Probab=96.04  E-value=0.034  Score=55.58  Aligned_cols=154  Identities=13%  Similarity=0.104  Sum_probs=85.7

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhh---cC---CCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLY---LE---SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~---~~---~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      ..+-.+|--||.-.-|||||-..+.   ..   .++..+..-.........++       ....-.+.+.-..-.+--.|
T Consensus        51 ~KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGI-------TIn~aHveYeTa~RhYaH~D  123 (449)
T KOG0460|consen   51 DKPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGI-------TINAAHVEYETAKRHYAHTD  123 (449)
T ss_pred             CCCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccc-------eEeeeeeeeeccccccccCC
Confidence            3456789999999999999987651   11   11111111111111111122       33333333433334456679


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc---cCHHHHHHHHH
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT---VTTREAEMYAI  207 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~---v~~ee~~~~a~  207 (432)
                      +||+.+|-...-.-...-|+.|||+..+|..- ..-++-+...++..- ..+++..||.|+.++.+   .-+-+++++..
T Consensus       124 CPGHADYIKNMItGaaqMDGaILVVaatDG~M-PQTrEHlLLArQVGV-~~ivvfiNKvD~V~d~e~leLVEmE~RElLs  201 (449)
T KOG0460|consen  124 CPGHADYIKNMITGAAQMDGAILVVAATDGPM-PQTREHLLLARQVGV-KHIVVFINKVDLVDDPEMLELVEMEIRELLS  201 (449)
T ss_pred             CCchHHHHHHhhcCccccCceEEEEEcCCCCC-cchHHHHHHHHHcCC-ceEEEEEecccccCCHHHHHHHHHHHHHHHH
Confidence            99998774322222345799999999998642 222333333333321 24678889999975432   22345667777


Q ss_pred             hcC-----CcEEEEcCC
Q psy3450         208 KNQ-----MAFFEVSPL  219 (432)
Q Consensus       208 ~~~-----~~~~evSAk  219 (432)
                      .++     +|++.=||+
T Consensus       202 e~gf~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  202 EFGFDGDNTPVIRGSAL  218 (449)
T ss_pred             HcCCCCCCCCeeecchh
Confidence            776     467766654

>KOG3859|consensus

Probab=96.04  E-value=0.014  Score=56.76  Aligned_cols=145  Identities=17%  Similarity=0.250  Sum_probs=78.5

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSE   96 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~   96 (432)
                      .+.+.++-+ +|-.++-+...+              ......+.++|+.||..|.|||||+..||... |     .....
T Consensus        14 ~R~l~l~GH-vGFdsLPdQLV~--------------ksv~~GF~FNilCvGETg~GKsTLmdtLFNt~-f-----~~~p~   72 (406)
T KOG3859|consen   14 CRTLQLAGH-VGFDSLPDQLVN--------------KSVSQGFCFNILCVGETGLGKSTLMDTLFNTK-F-----ESEPS   72 (406)
T ss_pred             ceeeeecCc-cCcccChHHHHH--------------HHHhcCceEEEEEeccCCccHHHHHHHHhccc-c-----CCCCC
Confidence            455555544 665555444333              23344678999999999999999999985432 1     11111


Q ss_pred             CccccCCCccccccceeEEE--EEECCeEEEEEEEeCCCC-------cccchhh-------hhc-------------c--
Q psy3450          97 SPFCSGSGKYDDMLAYKTTT--ILLDGKRVKLQLWDTSGQ-------GRFCTII-------RSY-------------S--  145 (432)
Q Consensus        97 ~~~~~~ig~~~~tid~~~~~--i~i~~~~v~l~i~Dt~G~-------e~~~~l~-------~~~-------------~--  145 (432)
                      +...+++       .....+  +.-.+-.+++.|.||.|-       +.|..+.       ..|             +  
T Consensus        73 ~H~~~~V-------~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~iVdyidaQFEaYLQEELKi~Rsl~~~hD  145 (406)
T KOG3859|consen   73 THTLPNV-------KLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPIVDYIDAQFEAYLQEELKIRRSLFTYHD  145 (406)
T ss_pred             ccCCCCc-------eeecchhhhhhcCeeEEEEEEeecccccccCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            1222333       333333  333466788999999983       1222211       111             2  


Q ss_pred             cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         146 RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       146 ~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      ...+++++....+- .++..++-.  .+++...++.||-|+-|.|-.
T Consensus       146 sRiH~CLYFI~PTG-H~LKslDLv--tmk~LdskVNIIPvIAKaDti  189 (406)
T KOG3859|consen  146 SRIHVCLYFISPTG-HSLKSLDLV--TMKKLDSKVNIIPVIAKADTI  189 (406)
T ss_pred             CceEEEEEEecCCC-cchhHHHHH--HHHHHhhhhhhHHHHHHhhhh
Confidence            34577777776653 344444221  122222345666667788863

>PRK00098 GTPase RsgA; Reviewed

Probab=96.03  E-value=0.013  Score=58.15  Aligned_cols=19  Identities=42%  Similarity=0.655  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|.+|||||||+|.+
T Consensus       166 ~~~~~G~sgvGKStlin~l  184 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNAL  184 (298)
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            5889999999999999998

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.03  E-value=0.073  Score=50.80  Aligned_cols=63  Identities=24%  Similarity=0.235  Sum_probs=38.6

Q ss_pred             EEEEEEeC-CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         124 VKLQLWDT-SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       124 v~l~i~Dt-~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      ..+.+.|| +|.|.|.   +...+++|.+|.|.|.+.+ |+....+..+...+. .=.++.+|.||.|-
T Consensus       134 ~e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~~-sl~taeri~~L~~el-g~k~i~~V~NKv~e  197 (255)
T COG3640         134 YEVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSYK-SLRTAERIKELAEEL-GIKRIFVVLNKVDE  197 (255)
T ss_pred             CcEEEEecccchhhhc---cccccCCCEEEEEeCCcHH-HHHHHHHHHHHHHHh-CCceEEEEEeeccc
Confidence            34566666 3444432   3456889999999997643 444444333322222 12589999999995

>cd04121 Rab40 Rab40 subfamily

Probab=95.97  E-value=0.0057  Score=56.60  Aligned_cols=49  Identities=49%  Similarity=0.683  Sum_probs=33.8

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV   66 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv   66 (432)
                      ++++.+||+++|+.|+|||+++.++..      ..+.+.+.++...++..+.+.+
T Consensus         2 ~~~~~~KivviG~~~vGKTsll~~~~~------~~~~~~~~~t~~~~~~~~~i~~   50 (189)
T cd04121           2 AYDYLLKFLLVGDSDVGKGEILASLQD------GSTESPYGYNMGIDYKTTTILL   50 (189)
T ss_pred             CCCceeEEEEECCCCCCHHHHHHHHHc------CCCCCCCCCcceeEEEEEEEEE
Confidence            467889999999999999999999987      4454444444444443333333

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

>cd03743 SOCS_SSB4 SOCS (suppressors of cytokine signaling) box of SSB4 (SPRY domain-containing SOCS box proteins)-like proteins

Probab=95.91  E-value=0.004  Score=43.25  Aligned_cols=34  Identities=32%  Similarity=0.583  Sum_probs=29.0

Q ss_pred             hhHhhhhhhhhhccc---ceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVART---TVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  350 (432)
                      .||+++|+.+|-.|.   ....|++||||..||..|.
T Consensus         4 ~sL~~lCRl~IR~~lg~~~l~~I~~L~LP~~Lk~yLl   40 (42)
T cd03743           4 LPLMDLCRRSARQALGRHRLHHIQSLPLPQTLKNYLQ   40 (42)
T ss_pred             cCHHHHHHHHHHHHHhHhhhccCccCCCCHHHHHHHc
Confidence            589999999987766   5568999999999998875

SSB proteins contain a central SPRY domain and a C-terminal SOCS. SSB4 has been shown to bind to MET, the receptor protein-tyrosine kinase for hepatocyte growth factor (HGF). SSB4, like SSB2 and SSB1, also interacts with prostate apoptosis response protein-4. Both types of interactions are mediated through the SPRY domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=95.89  E-value=0.023  Score=51.83  Aligned_cols=44  Identities=23%  Similarity=0.135  Sum_probs=29.0

Q ss_pred             eEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         149 QGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       149 d~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      |++++|.|+.++.+..+ ..+.+.+.....+.|+|+|.||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~l~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVLQAGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHHhccCCCCEEEEEehhhcCC
Confidence            78999999988754332 233333211123579999999999954

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

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=95.85  E-value=0.011  Score=53.96  Aligned_cols=81  Identities=17%  Similarity=0.151  Sum_probs=42.9

Q ss_pred             EEEEEEEeCCCCcccchh--hhh-c--ccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         123 RVKLQLWDTSGQGRFCTI--IRS-Y--SRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l--~~~-~--~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      .....|+.+.|......+  ... +  .-..+.+|.|+|+.+......+ ..+..++...     =+||.||+|+..+. 
T Consensus        84 ~~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~A-----DvIvlnK~D~~~~~-  157 (178)
T PF02492_consen   84 RPDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAFA-----DVIVLNKIDLVSDE-  157 (178)
T ss_dssp             C-SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT------SEEEEE-GGGHHHH-
T ss_pred             CcCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchhc-----CEEEEeccccCChh-
Confidence            355677888886544443  010 0  1246889999998765333444 3333444332     27788999986433 


Q ss_pred             cCHHHHHHHHHhc
Q psy3450         197 VTTREAEMYAIKN  209 (432)
Q Consensus       197 v~~ee~~~~a~~~  209 (432)
                      ...+..++..++.
T Consensus       158 ~~i~~~~~~ir~l  170 (178)
T PF02492_consen  158 QKIERVREMIREL  170 (178)
T ss_dssp             --HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH
Confidence            1224445555544

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.84  E-value=0.018  Score=59.01  Aligned_cols=93  Identities=13%  Similarity=0.099  Sum_probs=52.8

Q ss_pred             EEEEEEEeCCCCcccch----hhhhccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         123 RVKLQLWDTSGQGRFCT----IIRSYSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~----l~~~~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      .+.+.|+||+|......    ....+..  ..+.++||.+.+.  ...++..++..+...   -+--+|.+|.|-..   
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~--~~~d~~~i~~~f~~l---~i~glI~TKLDET~---  356 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGM--KSADVMTILPKLAEI---PIDGFIITKMDETT---  356 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcc--cHHHHHHHHHhcCcC---CCCEEEEEcccCCC---
Confidence            36789999999743321    1122222  3466677776532  234444433332221   13357799999632   


Q ss_pred             cCHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         197 VTTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       197 v~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                       ..-.+..++...+.|+..++  +|.+|.+
T Consensus       357 -~~G~~Lsv~~~tglPIsylt--~GQ~Vpd  383 (407)
T PRK12726        357 -RIGDLYTVMQETNLPVLYMT--DGQNITE  383 (407)
T ss_pred             -CccHHHHHHHHHCCCEEEEe--cCCCCCc
Confidence             33456667777888877776  5666654

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.79  E-value=0.051  Score=57.51  Aligned_cols=102  Identities=18%  Similarity=0.109  Sum_probs=55.9

Q ss_pred             EEEEEeCCCCcccchh-h--hhcccC---ceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC
Q psy3450         125 KLQLWDTSGQGRFCTI-I--RSYSRG---AQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT  198 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~l-~--~~~~~~---ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~  198 (432)
                      .+.++||+|....... .  ...+.+   ..-.+||.|.+..  ...+.+....+...   ..--+|.||.|-..    .
T Consensus       336 d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~--~~~l~~i~~~f~~~---~~~g~IlTKlDet~----~  406 (484)
T PRK06995        336 HIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSH--GDTLNEVVQAYRGP---GLAGCILTKLDEAA----S  406 (484)
T ss_pred             CeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCc--HHHHHHHHHHhccC---CCCEEEEeCCCCcc----c
Confidence            5789999995432211 0  111111   1226788887643  23333333333222   23356789999532    3


Q ss_pred             HHHHHHHHHhcCCcEEEEcCCCCCCH-HHHHH----HHHHHHhh
Q psy3450         199 TREAEMYAIKNQMAFFEVSPLCDFNI-RESFT----ELSRRALQ  237 (432)
Q Consensus       199 ~ee~~~~a~~~~~~~~evSAktg~nI-~elf~----~L~~~i~~  237 (432)
                      .-.+..++...+.++..++  +|.+| +++..    .+++.++.
T Consensus       407 ~G~~l~i~~~~~lPI~yvt--~GQ~VPeDL~~a~~~~lv~~ll~  448 (484)
T PRK06995        407 LGGALDVVIRYKLPLHYVS--NGQRVPEDLHLANKKFLLHRAFC  448 (484)
T ss_pred             chHHHHHHHHHCCCeEEEe--cCCCChhhhccCCHHHHHHHHhc
Confidence            3456677778888877776  67787 55543    34455544

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.78  E-value=0.086  Score=54.35  Aligned_cols=96  Identities=11%  Similarity=0.038  Sum_probs=56.4

Q ss_pred             EEEEEEEeCCCCcccchh----hhhcccC--ce-EEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc
Q psy3450         123 RVKLQLWDTSGQGRFCTI----IRSYSRG--AQ-GILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR  195 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l----~~~~~~~--ad-~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r  195 (432)
                      .+.+.++||+|......+    ...++..  .+ -.+||.|++..  ..++.+.+..+...   -+-=+|.+|.|-..  
T Consensus       254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~~~---~~~~~I~TKlDet~--  326 (388)
T PRK12723        254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFSPF---SYKTVIFTKLDETT--  326 (388)
T ss_pred             CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhcCC---CCCEEEEEeccCCC--
Confidence            467899999996533211    1122222  13 57899998865  34444444443322   13457789999632  


Q ss_pred             ccCHHHHHHHHHhcCCcEEEEcCCCCCCH-HHHHH
Q psy3450         196 TVTTREAEMYAIKNQMAFFEVSPLCDFNI-RESFT  229 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~evSAktg~nI-~elf~  229 (432)
                        ..-.+..++...+.|+..++  +|.+| +++..
T Consensus       327 --~~G~~l~~~~~~~~Pi~yit--~Gq~vPeDl~~  357 (388)
T PRK12723        327 --CVGNLISLIYEMRKEVSYVT--DGQIVPHNISI  357 (388)
T ss_pred             --cchHHHHHHHHHCCCEEEEe--CCCCChhhhhh
Confidence              23445666777788776665  67777 45443

>cd03721 SOCS_ASB2 SOCS (suppressors of cytokine signaling) box of ASB2-like proteins

Probab=95.60  E-value=0.006  Score=43.05  Aligned_cols=34  Identities=26%  Similarity=0.392  Sum_probs=29.1

Q ss_pred             hhHhhhhhhhhhcccc---eeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVARTT---VYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~  350 (432)
                      -+||.+|+.+|..+..   ...|++||||..|+..|.
T Consensus         4 ~sLq~LCRl~IR~~lg~~~l~~I~~L~LP~~Lk~YLl   40 (45)
T cd03721           4 RPLAHLCRLKVRTLIGINRIKLIDTLPLPPRLIRYLN   40 (45)
T ss_pred             CCHHHHHHHHHHHHHhHHhhccCccCCCCHHHHHHHc
Confidence            5899999999998874   357899999999998774

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. ASB2 targets specific proteins to destruction by the proteasome in leukemia cells that have been induced to differentiate. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>TIGR00959 ffh signal recognition particle protein

Probab=95.57  E-value=0.081  Score=55.24  Aligned_cols=94  Identities=15%  Similarity=0.043  Sum_probs=55.5

Q ss_pred             EEEEEEEeCCCCcccch-hhh---hc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         123 RVKLQLWDTSGQGRFCT-IIR---SY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~-l~~---~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      .+.+.|+||+|...... +..   .+  .-..+.++||.|.+..   ++...+...+....+  ..=+|.||.|-..   
T Consensus       182 ~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg---q~~~~~a~~f~~~v~--i~giIlTKlD~~~---  253 (428)
T TIGR00959       182 GFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG---QDAVNTAKTFNERLG--LTGVVLTKLDGDA---  253 (428)
T ss_pred             CCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch---HHHHHHHHHHHhhCC--CCEEEEeCccCcc---
Confidence            35689999999643221 111   11  2347888999998643   444455555543321  2347789999532   


Q ss_pred             cCHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         197 VTTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       197 v~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                       ..-.+...+...+.|+..+..  |++++++
T Consensus       254 -~~G~~lsi~~~~~~PI~fi~~--Ge~i~dl  281 (428)
T TIGR00959       254 -RGGAALSVRSVTGKPIKFIGV--GEKIDDL  281 (428)
T ss_pred             -cccHHHHHHHHHCcCEEEEeC--CCChhhC
Confidence             122366677778888777663  5555554

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.49  E-value=0.055  Score=53.08  Aligned_cols=93  Identities=12%  Similarity=0.076  Sum_probs=55.8

Q ss_pred             EEEEEEEeCCCCcccch-h---hhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         123 RVKLQLWDTSGQGRFCT-I---IRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~-l---~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      .+.+.|+||+|...... .   +..++  -..+-++||.|++..  .+++..++..+...   .+-=+|.+|.|-..   
T Consensus       154 ~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~--~~d~~~~~~~f~~~---~~~~~I~TKlDet~---  225 (270)
T PRK06731        154 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMK--SKDMIEIITNFKDI---HIDGIVFTKFDETA---  225 (270)
T ss_pred             CCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccC--HHHHHHHHHHhCCC---CCCEEEEEeecCCC---
Confidence            46789999999753211 1   11222  234668999997643  34455555555432   23357789999643   


Q ss_pred             cCHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         197 VTTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       197 v~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                       ..-.+..++...+.|+..++  +|.+|.+
T Consensus       226 -~~G~~l~~~~~~~~Pi~~it--~Gq~vp~  252 (270)
T PRK06731        226 -SSGELLKIPAVSSAPIVLMT--DGQDVKK  252 (270)
T ss_pred             -CccHHHHHHHHHCcCEEEEe--CCCCCCc
Confidence             23345566777788877776  5666643

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=95.48  E-value=0.17  Score=47.39  Aligned_cols=88  Identities=16%  Similarity=0.096  Sum_probs=51.7

Q ss_pred             EEEEEEEeCCCCcccchhhh-hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcE-EEEEECccCCCCcccC
Q psy3450         123 RVKLQLWDTSGQGRFCTIIR-SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPK-VLVGNRLHLAFNRTVT  198 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~-~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPi-ILVgNK~DL~~~r~v~  198 (432)
                      .+.+.++|++|......+.. ...+.+|.+|++.+.+ ..++..+...++.+++..  .+.++ .+|.||.|..    ..
T Consensus       116 ~yD~ilID~~g~~~~~~~~~~l~~~~ad~vliv~~p~-~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~----~~  190 (212)
T cd02117         116 DLDVVLYDVLGDVVCGGFAMPIREGKADEIYIVTSGE-FMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD----RE  190 (212)
T ss_pred             CCCEEEEecCCCceecccccccccccCcEEEEEeccc-HHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc----cH
Confidence            47789999976542222211 1124799999999763 445555555545444432  24443 4899999853    23


Q ss_pred             HHHHHHHHHhcCCcEEE
Q psy3450         199 TREAEMYAIKNQMAFFE  215 (432)
Q Consensus       199 ~ee~~~~a~~~~~~~~e  215 (432)
                      .+..+++.+.++.+.+.
T Consensus       191 ~~~~~~~~~~~~~~vl~  207 (212)
T cd02117         191 TELIDAFAERLGTQVIH  207 (212)
T ss_pred             HHHHHHHHHHcCCCEEE
Confidence            44566777777765543

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=95.42  E-value=0.25  Score=44.29  Aligned_cols=84  Identities=15%  Similarity=-0.048  Sum_probs=52.6

Q ss_pred             EEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH
Q psy3450         125 KLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM  204 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~  204 (432)
                      .+.|+|+++....  .....+..+|.+|++.+.+ ..++..+..+++.+.... .....+|.|+.|-...  ...+....
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~~~~~~-~~~~~iv~N~~~~~~~--~~~~~~~~  137 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPE-ISSLRDADRVKGLLEALG-IKVVGVIVNRVRPDMV--EGGDMVED  137 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCC-cchHHHHHHHHHHHHHcC-CceEEEEEeCCccccc--chhhHHHH
Confidence            5799999976432  2334567899999999865 446777777777666532 2346789999986321  12222334


Q ss_pred             HHHhcCCcEE
Q psy3450         205 YAIKNQMAFF  214 (432)
Q Consensus       205 ~a~~~~~~~~  214 (432)
                      +.+.++.+++
T Consensus       138 ~~~~~~~~v~  147 (179)
T cd02036         138 IEEILGVPLL  147 (179)
T ss_pred             HHHHhCCCEE
Confidence            4455566554

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=95.38  E-value=0.013  Score=52.17  Aligned_cols=43  Identities=35%  Similarity=0.601  Sum_probs=32.0

Q ss_pred             cceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEE
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLK   62 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iK   62 (432)
                      |+.+||+++|+.++|||+++.++..      ..+.+.+.++...++..+
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~~~------~~f~~~~~~t~~~~~~~~   43 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRFSE------DSFNPSFISTIGIDFKIR   43 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhh------CcCCcccccCccceEEEE
Confidence            5779999999999999999999987      555555455554444433

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

>cd03731 SOCS_ASB15 SOCS (suppressors of cytokine signaling) box of ASB15-like proteins

Probab=95.37  E-value=0.009  Score=44.14  Aligned_cols=34  Identities=26%  Similarity=0.392  Sum_probs=29.2

Q ss_pred             hhHhhhhhhhhhcccc------eeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVARTT------VYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~  350 (432)
                      -|||++|+.+|-.|..      ...|++||||..||..|.
T Consensus         4 ~sL~~LCRl~IR~~lG~~~l~~~~~I~~LpLP~~Lk~YLl   43 (56)
T cd03731           4 RPLKHLCRLKIRKLMGLQKLQQPSSMKKLPLPPALKRYIL   43 (56)
T ss_pred             CCHHHHHHHHHHHHHhHHhhccccccccCCCCHHHHHHHh
Confidence            5799999999988874      346999999999998875

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. Human ASB15 is expressed predominantly in skeletal muscle and participates in the regulation of protein turnover and muscle cell development by stimulating protein synthesis and regulating differentiation of muscle cells. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>PRK10867 signal recognition particle protein; Provisional

Probab=95.36  E-value=0.043  Score=57.35  Aligned_cols=93  Identities=13%  Similarity=0.067  Sum_probs=52.6

Q ss_pred             EEEEEEEeCCCCcccch-hhh---hc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCc
Q psy3450         123 RVKLQLWDTSGQGRFCT-IIR---SY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNR  195 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~-l~~---~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r  195 (432)
                      .+.+.|+||+|...... +..   .+  .-..+.+++|.|....   +++..+...+.+.   ++ .-+|.||.|-... 
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g---q~av~~a~~F~~~---~~i~giIlTKlD~~~r-  255 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG---QDAVNTAKAFNEA---LGLTGVILTKLDGDAR-  255 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH---HHHHHHHHHHHhh---CCCCEEEEeCccCccc-
Confidence            36689999999543211 111   11  1246778999997542   3444444444432   22 2467799996321 


Q ss_pred             ccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         196 TVTTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                         .-.+...+...+.|+..++.  |++++++
T Consensus       256 ---gG~alsi~~~~~~PI~fig~--Ge~v~DL  282 (433)
T PRK10867        256 ---GGAALSIRAVTGKPIKFIGT--GEKLDDL  282 (433)
T ss_pred             ---ccHHHHHHHHHCcCEEEEeC--CCccccC
Confidence               12356666777888766653  5555443

>cd04127 Rab27A Rab27a subfamily

Probab=95.35  E-value=0.014  Score=52.56  Aligned_cols=48  Identities=38%  Similarity=0.533  Sum_probs=34.0

Q ss_pred             cceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      ++.+|++++|++++|||+++.++..      ..+.....++...+...+.+.++
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~------~~~~~~~~~t~~~~~~~~~~~~~   49 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTD------NKFNPKFITTVGIDFREKRVVYN   49 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhc------CCCCccCCCccceEEEEEEEEEc
Confidence            5789999999999999999999876      44544444454444444444444

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=95.18  E-value=0.0049  Score=57.77  Aligned_cols=46  Identities=20%  Similarity=0.143  Sum_probs=34.3

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGD   68 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~   68 (432)
                      +||+++|++++|||+++.++..      ..+.+.+.++.+.+...|.+-++.
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~------~~f~~~~~~Tig~~~~~k~~~~~~   46 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICK------NQVLGRPSWTVGCSVDVKHHTYKE   46 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHc------CCCCCCCCcceeeeEEEEEEEEcC
Confidence            5999999999999999999987      555555555665555556555543

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.

>PLN03110 Rab GTPase; Provisional

Probab=95.13  E-value=0.017  Score=54.37  Aligned_cols=49  Identities=37%  Similarity=0.551  Sum_probs=33.8

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV   66 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv   66 (432)
                      ++++.+||+++|+.|+|||+++.++..      ..+...+.++.+.++..+.+.+
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~------~~~~~~~~~t~g~~~~~~~v~~   56 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTR------NEFCLESKSTIGVEFATRTLQV   56 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhc------CCCCCCCCCceeEEEEEEEEEE
Confidence            467899999999999999999999876      4443333444444444343333

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=95.11  E-value=0.05  Score=46.00  Aligned_cols=19  Identities=26%  Similarity=0.536  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+++.|++|+|||+|++.+
T Consensus        21 ~v~i~G~~G~GKT~l~~~i   39 (151)
T cd00009          21 NLLLYGPPGTGKTTLARAI   39 (151)
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            5889999999999999987

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=95.03  E-value=0.24  Score=50.20  Aligned_cols=98  Identities=13%  Similarity=0.129  Sum_probs=53.8

Q ss_pred             EEEEEEeCCCCcccchhhhhcc-------cCceEEEEEEeCCCCCC--h--------------------hhH-HHHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYS-------RGAQGILLVYDITNKWS--F--------------------DGI-DRWLKEV  173 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~-------~~ad~iIlV~Dvt~~~S--f--------------------~~l-~~~l~~i  173 (432)
                      ....+++|.|......+...+.       -..|++|-|+|+.+...  +                    ..+ ..+..++
T Consensus        93 ~d~IvIEtsG~a~P~~i~~~~~~~~l~~~~~l~~vvtvVDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Qi  172 (341)
T TIGR02475        93 PDHILIETSGLALPKPLVQAFQWPEIRSRVTVDGVVTVVDGPAVAAGRFAADPDALDAQRAADDNLDHETPLEELFEDQL  172 (341)
T ss_pred             CCEEEEeCCCCCCHHHHHHHhcCccccceEEeeeEEEEEECchhhhhccccchhhhhhhccccccccccchHHHHHHHHH
Confidence            4567889999766545444331       14688999999874321  0                    001 1122333


Q ss_pred             HhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh-cC--CcEEEEcCCCCCCHHHHHH
Q psy3450         174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQ--MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       174 ~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-~~--~~~~evSAktg~nI~elf~  229 (432)
                      ..     .=+||.||+|+..+.+  .+..++..+. ++  ++++++. ........+|.
T Consensus       173 ~~-----AD~IvlnK~Dl~~~~~--l~~~~~~l~~~~~~~a~i~~~~-~~~v~~~~ll~  223 (341)
T TIGR02475       173 AC-----ADLVILNKADLLDAAG--LARVRAEIAAELPRAVKIVEAS-HGEVDARVLLG  223 (341)
T ss_pred             Hh-----CCEEEEeccccCCHHH--HHHHHHHHHHhCCCCCEEEEcc-cCCCCHHHHhC
Confidence            32     2378899999965432  2334444544 33  2566654 33445666654

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>cd04110 Rab35 Rab35 subfamily

Probab=94.97  E-value=0.021  Score=52.92  Aligned_cols=26  Identities=46%  Similarity=0.807  Sum_probs=23.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +|+.+||+++|+.|+|||+++.++..
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~   28 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFAD   28 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhc
Confidence            56789999999999999999999976

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

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=94.83  E-value=0.094  Score=42.99  Aligned_cols=45  Identities=18%  Similarity=0.241  Sum_probs=32.1

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK  171 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~  171 (432)
                      +.+.++|+++...  ......+..+|.++++.+.+ ..++..+.++++
T Consensus        40 ~d~viiD~p~~~~--~~~~~~l~~ad~viv~~~~~-~~s~~~~~~~~~   84 (104)
T cd02042          40 YDYIIIDTPPSLG--LLTRNALAAADLVLIPVQPS-PLDLDGLEKLLE   84 (104)
T ss_pred             CCEEEEeCcCCCC--HHHHHHHHHCCEEEEeccCC-HHHHHHHHHHHH
Confidence            6789999998643  22336677899999999764 456666666665

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>cd03728 SOCS_ASB_9_11 SOCS (suppressors of cytokine signaling) box of ASB9 and 11 proteins

Probab=94.73  E-value=0.016  Score=40.20  Aligned_cols=34  Identities=32%  Similarity=0.353  Sum_probs=28.1

Q ss_pred             hhHhhhhhhhhhccc---ceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVART---TVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  350 (432)
                      -+|+++|+.+|-.+-   ....|++||||..|+..|.
T Consensus         4 ~sL~~LCRl~iR~~lg~~~~~~I~~L~lP~~Lk~yLl   40 (42)
T cd03728           4 PSLMQLCRLCIRKCFGRKQHHKIHKLHLPEPLKHFLL   40 (42)
T ss_pred             cCHHHHHHHHHHHHHhHHHHccCccCCCCHHHHHHHc
Confidence            479999998876554   6678999999999998773

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>KOG2485|consensus

Probab=94.71  E-value=0.028  Score=55.57  Aligned_cols=23  Identities=26%  Similarity=0.541  Sum_probs=20.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...+.+.|+|-||||||||+|.+
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~  163 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINAL  163 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHH
Confidence            45689999999999999999986

>cd03719 SOCS_SSB2 SOCS (suppressors of cytokine signaling) box of SSB2 (SPRY domain-containing SOCS box proteins)-like proteins

Probab=94.70  E-value=0.017  Score=40.07  Aligned_cols=34  Identities=29%  Similarity=0.325  Sum_probs=27.4

Q ss_pred             hhHhhhhhhhhhc---ccceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVA---RTTVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~  350 (432)
                      -+|+.+|+.+|-.   ......|++||||..|+..|.
T Consensus         4 ~sL~~LcRl~IR~~lg~~~l~~i~~L~LP~~Lk~YLl   40 (42)
T cd03719           4 HSLLHLSRLCVRHALGDTRLGQVSALPLPPAMKRYLL   40 (42)
T ss_pred             CCHHHHHHHHHHHHHhHHHhccCccCCCCHHHHHHHc
Confidence            4788898877644   457789999999999998774

SSB proteins contain a central SPRY domain and a C-terminal SOCS. SSB2 has been shown to bind to MET, the receptor protein-tyrosine kinase for hepatocyte growth factor (HGF). SSB2, like SSB4 and SSB1, also interacts with prostate apoptosis response protein-4. Both types of interactions are mediated through the SPRY domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=94.70  E-value=0.021  Score=48.07  Aligned_cols=19  Identities=21%  Similarity=0.424  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|.|.+||||||+.+.|
T Consensus         1 vI~I~G~~gsGKST~a~~L   19 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKEL   19 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHH
Confidence            4889999999999999998

...

>cd01892 Miro2 Miro2 subfamily

Probab=94.69  E-value=0.026  Score=50.73  Aligned_cols=46  Identities=13%  Similarity=0.182  Sum_probs=34.2

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcC-ccccccccccceEEEEEeC
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETK-PVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~-~~~~~~~~~~~~iKVvvvG   67 (432)
                      .+|++++|+.|+|||+++.++..      ..+. ..+.++...++..+.+.++
T Consensus         4 ~~kv~~vG~~~vGKTsli~~~~~------~~f~~~~~~~T~~~~~~~~~~~~~   50 (169)
T cd01892           4 VFLCFVLGAKGSGKSALLRAFLG------RSFSLNAYSPTIKPRYAVNTVEVY   50 (169)
T ss_pred             EEEEEEECCCCCcHHHHHHHHhC------CCCCcccCCCccCcceEEEEEEEC
Confidence            47999999999999999999987      5555 4555666655555555443

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.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=94.68  E-value=0.43  Score=46.26  Aligned_cols=67  Identities=22%  Similarity=0.117  Sum_probs=41.3

Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEE-EEEECccC
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKV-LVGNRLHL  191 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiI-LVgNK~DL  191 (432)
                      .+.+.|+||+|...... ....+..+|.+|++... +..++..+...++.+...  ..+++++ +|.|+.|.
T Consensus       115 ~yD~vIIDt~g~~~~~~-~~~al~~aD~vlip~~p-~~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~  184 (267)
T cd02032         115 EYDVILFDVLGDVVCGG-FAAPLNYADYALIVTDN-DFDSIFAANRIAAAVREKAKTYKVRLAGLIANRTDK  184 (267)
T ss_pred             cCCEEEEeCCCCccccc-chhhhhhcCEEEEEecC-CcccHHHHHHHHHHHHHHhhccCCceEEEEEeCCCH
Confidence            46789999977532211 12336789999998865 444566655555444432  2455543 78899884

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>cd01864 Rab19 Rab19 subfamily

Probab=94.68  E-value=0.029  Score=49.79  Aligned_cols=25  Identities=44%  Similarity=0.881  Sum_probs=22.8

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      |+.+||+++|+.|+|||+++.++..
T Consensus         1 ~~~~kv~vvG~~~~GKTsli~~l~~   25 (165)
T cd01864           1 DFLFKIILIGDSNVGKTCVVQRFKS   25 (165)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhh
Confidence            5779999999999999999999865

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.

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=94.65  E-value=1.2  Score=40.58  Aligned_cols=89  Identities=12%  Similarity=0.054  Sum_probs=66.2

Q ss_pred             CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         147 GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       147 ~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                      ..|.|+|++|..+..|++.++.=+..+...+---.+.++++-..-.+...+..++..+++..+.++++.+--.+..+...
T Consensus        64 rIDlIVFvinl~sk~SL~~ve~SL~~vd~~fflGKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~~~  143 (176)
T PF11111_consen   64 RIDLIVFVINLHSKYSLQSVEASLSHVDPSFFLGKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGRTS  143 (176)
T ss_pred             eeEEEEEEEecCCcccHHHHHHHHhhCChhhhccceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHHHH
Confidence            58999999999999999988776666654432224556666665555577889999999999999999887666666666


Q ss_pred             HHHHHHHHH
Q psy3450         227 SFTELSRRA  235 (432)
Q Consensus       227 lf~~L~~~i  235 (432)
                      +=+.|.+.+
T Consensus       144 lAqRLL~~l  152 (176)
T PF11111_consen  144 LAQRLLRML  152 (176)
T ss_pred             HHHHHHHHH
Confidence            666666555

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>cd01866 Rab2 Rab2 subfamily

Probab=94.65  E-value=0.028  Score=50.22  Aligned_cols=26  Identities=38%  Similarity=0.852  Sum_probs=23.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +++.+||+++|+.++|||+++.++..
T Consensus         1 ~~~~~ki~vvG~~~vGKSsLl~~l~~   26 (168)
T cd01866           1 YAYLFKYIIIGDTGVGKSCLLLQFTD   26 (168)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHc
Confidence            46889999999999999999999876

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

>KOG0099|consensus

Probab=94.62  E-value=0.071  Score=51.52  Aligned_cols=76  Identities=16%  Similarity=0.187  Sum_probs=52.2

Q ss_pred             EEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC-------CChhhHHHHHHH---HHhhC--CCCcE
Q psy3450         115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK-------WSFDGIDRWLKE---VEEHA--PGVPK  182 (432)
Q Consensus       115 ~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~-------~Sf~~l~~~l~~---i~~~~--~~iPi  182 (432)
                      +.+.++  .++++++|.+||..-+.-|-+.+.+..++|+|...++-       .+-..+++-+..   +.+..  ..+.+
T Consensus       195 t~FqVd--kv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisv  272 (379)
T KOG0099|consen  195 TKFQVD--KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISV  272 (379)
T ss_pred             EEEecc--ccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhhe
Confidence            344444  46789999999998888899999999999999877641       111222222222   22222  35789


Q ss_pred             EEEEECccCC
Q psy3450         183 VLVGNRLHLA  192 (432)
Q Consensus       183 ILVgNK~DL~  192 (432)
                      ||..||.|+.
T Consensus       273 IlFLNKqDll  282 (379)
T KOG0099|consen  273 ILFLNKQDLL  282 (379)
T ss_pred             eEEecHHHHH
Confidence            9999999983

>PLN00023 GTP-binding protein; Provisional

Probab=94.62  E-value=0.013  Score=58.83  Aligned_cols=49  Identities=20%  Similarity=0.164  Sum_probs=37.6

Q ss_pred             cceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeCc
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVGD   68 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG~   68 (432)
                      ...+||+++|+.|+|||+++.++..      ..+...+.++.+.+..+|.+-++.
T Consensus        19 ~~~iKIVLLGdsGVGKTSLI~rf~~------g~F~~~~~pTIG~d~~ik~I~~~~   67 (334)
T PLN00023         19 CGQVRVLVVGDSGVGKSSLVHLIVK------GSSIARPPQTIGCTVGVKHITYGS   67 (334)
T ss_pred             ccceEEEEECCCCCcHHHHHHHHhc------CCcccccCCceeeeEEEEEEEECC
Confidence            3458999999999999999999987      555555566666666667666653

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=94.62  E-value=0.18  Score=39.68  Aligned_cols=77  Identities=19%  Similarity=0.234  Sum_probs=45.7

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh-h
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI-I  141 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l-~  141 (432)
                      +++.|.+|+|||++...+..          .-..      .|         .+...++    .+.++|+++.-..... .
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~----------~l~~------~g---------~~v~~~~----d~iivD~~~~~~~~~~~~   52 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAA----------ALAK------RG---------KRVLLID----DYVLIDTPPGLGLLVLLC   52 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHH----------HHHH------CC---------CeEEEEC----CEEEEeCCCCccchhhhh
Confidence            57889999999999988610          0000      01         1222233    5789999986432221 1


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHH
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRW  169 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~  169 (432)
                      ......+|.++++.+.... +.......
T Consensus        53 ~~~~~~~~~vi~v~~~~~~-~~~~~~~~   79 (99)
T cd01983          53 LLALLAADLVIIVTTPEAL-AVLGARRL   79 (99)
T ss_pred             hhhhhhCCEEEEecCCchh-hHHHHHHH
Confidence            3556788999999886543 34444433

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>cd03744 SOCS_SSB1 SOCS (suppressors of cytokine signaling) box of SSB1 (SPRY domain-containing SOCS box proteins)-like proteins

Probab=94.60  E-value=0.019  Score=39.85  Aligned_cols=34  Identities=32%  Similarity=0.572  Sum_probs=27.8

Q ss_pred             hhHhhhhhhhhhccc---ceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVART---TVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  350 (432)
                      .+|+++|+.+|-.+-   ....|++||||..|+..|.
T Consensus         4 ~sL~~LCRl~iR~~lg~~~l~~I~~L~LP~~Lk~YLl   40 (42)
T cd03744           4 LPLMDLCRRSVRLALGRERLSEIHTLPLPASLKNYLL   40 (42)
T ss_pred             CCHHHHHHHHHHHHHhHhhhccCcCCCCCHHHHHHHc
Confidence            579999998886554   5578999999999998773

SSB proteins contain a central SPRY domain and a C-terminal SOCS. SSB1 has been shown to bind to MET, the receptor protein-tyrosine kinase for hepatocyte growth factor (HGF), both the absence and the presence of HGF and enhances the HGF-MET-induced mitogen-activated protein kinases Erk-transcription factor Elk-1-serum response elements (SRE) pathway. SSB1, like SSB2 and SSB4, also interacts with prostate apoptosis response protein-4. Both types of interactions are mediated through the SPRY domain. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd04122 Rab14 Rab14 subfamily

Probab=94.59  E-value=0.027  Score=50.08  Aligned_cols=24  Identities=33%  Similarity=0.805  Sum_probs=21.9

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +.+|++++|+.++|||+++.++..
T Consensus         1 ~~~ki~iiG~~~vGKTsli~~~~~   24 (166)
T cd04122           1 YIFKYIIIGDMGVGKSCLLHQFTE   24 (166)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhc
Confidence            358999999999999999999986

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

>KOG1424|consensus

Probab=94.57  E-value=0.06  Score=56.43  Aligned_cols=72  Identities=19%  Similarity=0.255  Sum_probs=0.0

Q ss_pred             HhhhcCccccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe
Q psy3450          43 WLMETKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK  122 (432)
Q Consensus        43 ~~~~~~~~~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~  122 (432)
                      .+.+..........+...+.|-+||-|||||||+||.|....+......++.+.              .|.+..+.-.- 
T Consensus       297 ~~~s~~~~~~t~~~~~~~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTK--------------HFQTi~ls~~v-  361 (562)
T KOG1424|consen  297 RLISAMEPTPTGERYKDVVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTK--------------HFQTIFLSPSV-  361 (562)
T ss_pred             hhhhccccCCCCcCCCceeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCcc--------------eeEEEEcCCCc-


Q ss_pred             EEEEEEEeCCC
Q psy3450         123 RVKLQLWDTSG  133 (432)
Q Consensus       123 ~v~l~i~Dt~G  133 (432)
                          .+.|+||
T Consensus       362 ----~LCDCPG  368 (562)
T KOG1424|consen  362 ----CLCDCPG  368 (562)
T ss_pred             ----eecCCCC

>cd04128 Spg1 Spg1p

Probab=94.54  E-value=0.026  Score=51.62  Aligned_cols=45  Identities=22%  Similarity=0.318  Sum_probs=33.4

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      +|++++|+.++|||+++.++..      ..+.+.+.++.+.++..+.+-++
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~------~~f~~~~~~T~g~~~~~~~i~~~   45 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVE------GEFDEDYIQTLGVNFMEKTISIR   45 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHh------CCCCCCCCCccceEEEEEEEEEC
Confidence            5999999999999999999987      55655556666555544444444

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=94.42  E-value=0.033  Score=51.10  Aligned_cols=40  Identities=23%  Similarity=0.218  Sum_probs=31.0

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccce
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYL   60 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~   60 (432)
                      ..+|++++|+.++|||+++.++..      ..+.+.+.++...++.
T Consensus         4 ~~~KivvvGd~~vGKTsli~~~~~------~~f~~~~~pT~~~~~~   43 (182)
T cd04172           4 VKCKIVVVGDSQCGKTALLHVFAK------DCFPENYVPTVFENYT   43 (182)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHh------CCCCCccCCceeeeeE
Confidence            557999999999999999999987      5565555555554443

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

>cd03724 SOCS_ASB5 SOCS (suppressors of cytokine signaling) box of ASB5-like proteins

Probab=94.41  E-value=0.023  Score=39.43  Aligned_cols=34  Identities=38%  Similarity=0.519  Sum_probs=27.9

Q ss_pred             hhHhhhhhhhhhcc---cceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVAR---TTVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~  350 (432)
                      -||+++|+.+|-.|   .....|++||||..|+..|.
T Consensus         4 ~sL~~lCRl~iR~~lg~~~~~~I~~L~lP~~Lk~yLl   40 (42)
T cd03724           4 SSLCQLCRLCIRNYIGRSRLHLIPQLQLPTLLKNFLQ   40 (42)
T ss_pred             cCHHHHHHHHHHHHHhHhhhccCccCCCCHHHHHHHc
Confidence            57899999877554   46789999999999998774

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. ASB5 has been implicated in the initiation of arteriogenesis. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.39  E-value=0.097  Score=54.38  Aligned_cols=92  Identities=20%  Similarity=0.087  Sum_probs=51.6

Q ss_pred             EEEEEEEeCCCCcccch----hhhhccc-----CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         123 RVKLQLWDTSGQGRFCT----IIRSYSR-----GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~----l~~~~~~-----~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      .+.+.++||+|......    .+..+++     ...-.+||.|++..  .+++...+..+...   -+-=+|.+|.|-..
T Consensus       299 ~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~--~~~~~~~~~~f~~~---~~~glIlTKLDEt~  373 (432)
T PRK12724        299 GSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSS--YHHTLTVLKAYESL---NYRRILLTKLDEAD  373 (432)
T ss_pred             CCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCC--HHHHHHHHHHhcCC---CCCEEEEEcccCCC
Confidence            45679999999642211    1122222     23467889998765  23444444433222   12357789999632


Q ss_pred             CcccCHHHHHHHHHhcCCcEEEEcCCCCCCHH
Q psy3450         194 NRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR  225 (432)
Q Consensus       194 ~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~  225 (432)
                          ..-.+..++...+.|+..++  +|.+|.
T Consensus       374 ----~~G~il~i~~~~~lPI~ylt--~GQ~VP  399 (432)
T PRK12724        374 ----FLGSFLELADTYSKSFTYLS--VGQEVP  399 (432)
T ss_pred             ----CccHHHHHHHHHCCCEEEEe--cCCCCC
Confidence                22345666777788776665  455543

>PLN03108 Rab family protein; Provisional

Probab=94.39  E-value=0.036  Score=51.85  Aligned_cols=49  Identities=24%  Similarity=0.539  Sum_probs=33.8

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      +++.+||+++|+.++|||+++.++..      ..+.+...++...++..+.+.++
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~------~~~~~~~~~ti~~~~~~~~i~~~   51 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTD------KRFQPVHDLTIGVEFGARMITID   51 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHh------CCCCCCCCCCccceEEEEEEEEC
Confidence            46789999999999999999999876      44444444444444444444443

>cd04133 Rop_like Rop subfamily

Probab=94.38  E-value=0.029  Score=51.21  Aligned_cols=39  Identities=23%  Similarity=0.266  Sum_probs=30.9

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccce
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYL   60 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~   60 (432)
                      ++|++++|+.++|||+++.++..      ..|...+.++.+..+.
T Consensus         1 ~~kivv~G~~~vGKTsli~~~~~------~~f~~~~~~Ti~~~~~   39 (176)
T cd04133           1 FIKCVTVGDGAVGKTCMLICYTS------NKFPTDYIPTVFDNFS   39 (176)
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc------CCCCCCCCCcceeeeE
Confidence            47999999999999999999997      6666556666655543

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,

>PRK08118 topology modulation protein; Reviewed

Probab=94.27  E-value=0.031  Score=50.69  Aligned_cols=19  Identities=32%  Similarity=0.615  Sum_probs=18.3

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      ||+|+|++|+|||||.+.+
T Consensus         3 rI~I~G~~GsGKSTlak~L   21 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQL   21 (167)
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            8999999999999999987

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=94.24  E-value=0.028  Score=50.30  Aligned_cols=19  Identities=21%  Similarity=0.630  Sum_probs=15.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      ||+|.|.+++|||||++.|
T Consensus         1 rI~i~G~~stGKTTL~~~L   19 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEAL   19 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHH
Confidence            7999999999999999998

>COG1161 Predicted GTPases [General function prediction only]

Probab=94.23  E-value=0.083  Score=53.14  Aligned_cols=92  Identities=17%  Similarity=0.152  Sum_probs=62.6

Q ss_pred             CCC-cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         132 SGQ-GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       132 ~G~-e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      +|+ .++.......+..+|+++-|.|+.++.+...     ..+.+...+.|.++|+||.||.+. .+..+-.+.+.++.+
T Consensus        18 ~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~-----~~l~~~v~~k~~i~vlNK~DL~~~-~~~~~W~~~~~~~~~   91 (322)
T COG1161          18 PGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRN-----PELERIVKEKPKLLVLNKADLAPK-EVTKKWKKYFKKEEG   91 (322)
T ss_pred             CCchHHHHHHHHHhcccCCEEEEEEeccccccccC-----ccHHHHHccCCcEEEEehhhcCCH-HHHHHHHHHHHhcCC
Confidence            553 4556666778899999999999999876542     222333334567999999999653 233344444555556


Q ss_pred             CcEEEEcCCCCCCHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~  229 (432)
                      ...+.++++.+.+...+..
T Consensus        92 ~~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          92 IKPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             CccEEEEeecccCccchHH
Confidence            6778888888887766664

>cd03720 SOCS_ASB1 SOCS (suppressors of cytokine signaling) box of ASB1-like proteins

Probab=94.21  E-value=0.025  Score=39.27  Aligned_cols=34  Identities=38%  Similarity=0.478  Sum_probs=27.5

Q ss_pred             hhHhhhhhhhhhcc---cceeeccCCCChHHHHHhhh
Q psy3450         317 ISLQELCCRAIVAR---TTVYAINQLPLPNLIKSHLK  350 (432)
Q Consensus       317 ~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~  350 (432)
                      -+|+++|+.+|-.+   .....|++||||..+|..|.
T Consensus         4 ~sL~~LcR~~iR~~lG~~~l~~I~~L~lP~~lk~yLl   40 (42)
T cd03720           4 RSLLSLCRIAVRRALGKQRLSLICSLPLPDPIKKFLL   40 (42)
T ss_pred             CCHHHHHHHHHHHHHHHhHhccCcCCCCCHHHHHHHc
Confidence            57899999887544   45678999999999998774

ASB family members have a C-terminal SOCS box and an N-terminal ankyrin-related sequence. The general function of the SOCS box is the recruitment of the ubiquitin-transferase system. The SOCS box interacts with Elongins B and C, Cullin-5 or Cullin-2, Rbx-1, and E2. Therefore, SOCS-box-containing proteins probably function as E3 ubiquitin ligases and mediate the degradation of proteins associated through their N-terminal regions.

>cd01868 Rab11_like Rab11-like

Probab=94.13  E-value=0.043  Score=48.53  Aligned_cols=25  Identities=52%  Similarity=0.939  Sum_probs=22.8

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++.+|++++|++++|||+++.++..
T Consensus         1 ~~~~ki~vvG~~~~GKSsli~~l~~   25 (165)
T cd01868           1 DYLFKIVLIGDSGVGKSNLLSRFTR   25 (165)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhc
Confidence            4678999999999999999999976

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

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=94.01  E-value=0.033  Score=48.23  Aligned_cols=18  Identities=28%  Similarity=0.516  Sum_probs=17.0

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+++|.+|+|||||++.+
T Consensus         2 ii~~G~pgsGKSt~a~~l   19 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRL   19 (143)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            689999999999999997

...

>PRK07261 topology modulation protein; Provisional

Probab=94.01  E-value=0.037  Score=50.34  Aligned_cols=19  Identities=32%  Similarity=0.496  Sum_probs=18.1

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      ||+|+|.+|+|||||.+.+
T Consensus         2 ri~i~G~~GsGKSTla~~l   20 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKL   20 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            7999999999999999987

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	432
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		5e-34
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-31
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		6e-31
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		6e-31
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-30
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		2e-30
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		1e-29
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		1e-29
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-29
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		3e-29
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		3e-29
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		3e-29
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		4e-29
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		6e-29
4fmc_B	171	Espg-Rab1 Complex Length = 171		8e-29
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		2e-28
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		2e-28
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-28
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		3e-28
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		4e-28
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		4e-28
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		7e-28
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		9e-28
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		2e-27
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		8e-27
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-26
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		3e-26
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		7e-26
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-25
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		2e-25
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		4e-25
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		4e-25
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		1e-24
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-24
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		2e-24
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		3e-24
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-24
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		3e-24
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		3e-24
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		9e-24
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		1e-23
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		2e-23
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		3e-23
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		5e-23
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		6e-23
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		7e-23
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		8e-23
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-22
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		2e-22
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		2e-22
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-22
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		2e-22
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		2e-22
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		4e-22
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		4e-22
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		4e-22
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		4e-22
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-21
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-21
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-21
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		2e-21
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		3e-21
4fmc_F	117	Espg-Rab1 Complex Length = 117		3e-21
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		4e-21
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		9e-21
2efc_B	181	Ara7-GdpATVPS9A Length = 181		2e-19
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		4e-19
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-18
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-18
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		5e-18
1vg1_A	185	Gdp-bound Rab7 Length = 185		8e-18
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		1e-17
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		1e-17
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		1e-17
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-17
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		1e-17
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		2e-17
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		5e-17
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		6e-17
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		7e-17
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		9e-17
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		1e-16
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		1e-16
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-16
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-16
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		2e-16
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		3e-16
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-16
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		4e-16
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		6e-16
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		7e-16
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		1e-15
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		2e-15
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		2e-15
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		2e-15
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		1e-14
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-14
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		8e-13
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		8e-13
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		1e-12
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		1e-12
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		5e-12
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		7e-12
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-11
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		2e-11
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		5e-11
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		7e-11
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		7e-11
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		7e-11
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		8e-11
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		8e-11
2bku_A	177	Kap95p:rangtp Complex Length = 177		8e-11
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		9e-11
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		1e-10
4q21_A	189	Molecular Switch For Signal Transduction: Structura		1e-10
1byu_A	216	Canine Gdp-Ran Length = 216		1e-10
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		1e-10
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		1e-10
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		2e-10
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		2e-10
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		2e-10
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		2e-10
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		2e-10
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		2e-10
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		2e-10
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-10
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		2e-10
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-10
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-10
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		2e-10
6q21_A	171	Molecular Switch For Signal Transduction: Structura		2e-10
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		2e-10
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		2e-10
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		2e-10
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		2e-10
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-10
1wq1_R	166	Ras-Rasgap Complex Length = 166		2e-10
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		2e-10
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-10
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		2e-10
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-10
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		3e-10
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-10
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		3e-10
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		3e-10
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		5e-10
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		5e-10
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		6e-10
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		7e-10
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		7e-10
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		7e-10
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-10
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-10
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		8e-10
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		8e-10
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		9e-10
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		9e-10
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		9e-10
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		1e-09
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		1e-09
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		1e-09
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		1e-09
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		1e-09
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		1e-09
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		1e-09
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		2e-09
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		2e-09
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		2e-09
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		2e-09
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		2e-09
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		2e-09
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-09
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		2e-09
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		2e-09
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		2e-09
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		2e-09
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		2e-09
1s1c_A	183	Crystal Structure Of The Complex Between The Human		2e-09
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		2e-09
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		2e-09
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		2e-09
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		2e-09
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		2e-09
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		3e-09
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		3e-09
3icq_B	171	Karyopherin Nuclear State Length = 171		3e-09
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		3e-09
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		3e-09
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		3e-09
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		4e-09
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		4e-09
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		7e-09
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		7e-09
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		8e-09
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		8e-09
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		9e-09
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		1e-08
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		1e-08
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		1e-08
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		1e-08
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		1e-08
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		1e-08
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		2e-08
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		3e-08
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		3e-08
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		3e-08
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		3e-08
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		4e-08
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		4e-08
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		4e-08
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		4e-08
1mh1_A	186	Small G-Protein Length = 186		4e-08
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		4e-08
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		4e-08
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		4e-08
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		5e-08
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		5e-08
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		5e-08
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		6e-08
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		7e-08
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		7e-08
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		1e-07
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		1e-07
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		1e-07
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		1e-07
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		2e-07
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		2e-07
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		2e-07
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		2e-07
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		2e-07
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		2e-07
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-07
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		3e-07
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		3e-07
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		4e-07
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		5e-07
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		5e-07
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		6e-07
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		6e-07
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		6e-07
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		7e-07
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		8e-07
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		8e-07
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		9e-07
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		1e-06
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		1e-06
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		1e-06
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		1e-06
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		2e-06
2kb0_A	178	Cdc42(T35a) Length = 178		2e-06
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		2e-06
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		3e-06
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		3e-06
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		3e-06
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		3e-06
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		3e-06
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		3e-06
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		3e-06
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		3e-06
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		3e-06
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		4e-06
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		4e-06
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		4e-06
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		4e-06
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		4e-06
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		4e-06
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		5e-06
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		7e-06
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		1e-05
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		1e-05
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		2e-05
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		2e-05
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		3e-05
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		3e-05
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		3e-05
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		3e-05
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		4e-05
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		4e-05
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		4e-05
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		4e-05
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		7e-05
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		9e-05
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		2e-04
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		3e-04
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		4e-04
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		4e-04
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		6e-04
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		7e-04
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		7e-04

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  141 bits (356), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 81/198 (40%), Positives = 113/198 (57%), Gaps = 18/198 (9%)
Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYL K LL+GDS VGK  +L       RF     + +  S F S  G     + +K 
Sbjct: 3   KTYDYLFKLLLIGDSGVGKTCVLF------RFS----EDAFNSTFISTIG-----IDFKI 47
Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            TI LDGKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDITN+ SFD I  W++ +E
Sbjct: 48  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIE 107
Query: 175 EHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EHA   V K+++GN+  +   R V+    E  A+   + F E S   + N+  +F  L+R
Sbjct: 108 EHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLAR 167
Query: 234 RALQRNGMERLWRSNKVG 251
               +  M++ W++   G
Sbjct: 168 DIKAK--MDKNWKATAAG 183

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  134 bits (337), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 77/177 (43%), Positives = 103/177 (58%), Gaps = 16/177 (9%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           DYL K LL+GDS VGK  +L          RF  D  + S F S  G     + +K  TI
Sbjct: 4   DYLFKLLLIGDSGVGKTCVL---------FRFSEDAFN-STFISTIG-----IDFKIRTI 48
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            LDGKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDITN+ SFD I  W++ +EEHA
Sbjct: 49  ELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHA 108
Query: 178 PG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
              V K+++GN+  +   R V+    E  A+   + F E S   + N+  +F  L+R
Sbjct: 109 SADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLAR 165

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  132 bits (331), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 74/180 (41%), Positives = 109/180 (60%), Gaps = 16/180 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+G+S VGK  +L       RF     D +  + + S  G     + +K  
Sbjct: 4   EYDYLFKLLLIGNSGVGKSCLLL------RFS----DDTYTNDYISTIG-----VDFKIK 48
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           T+ LDGK VKLQ+WDT+GQ RF TI  SY RG+ GI++VYD+T++ SF+G+  WL+E++ 
Sbjct: 49  TVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDR 108
Query: 176 HAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   R V    A+ +A  N+M F E S L   N+ ++F  ++R+
Sbjct: 109 YATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQ 168

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  131 bits (330), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 74/180 (41%), Positives = 109/180 (60%), Gaps = 16/180 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+G+S VGK  +L       RF     D +  + + S  G     + +K  
Sbjct: 4   EYDYLFKLLLIGNSGVGKSCLLL------RFS----DDTYTNDYISTIG-----VDFKIK 48
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           T+ LDGK VKLQ+WDT+GQ RF TI  SY RG+ GI++VYD+T++ SF+G+  WL+E++ 
Sbjct: 49  TVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDR 108
Query: 176 HAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   R V    A+ +A  N+M F E S L   N+ ++F  ++R+
Sbjct: 109 YATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQ 168

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  130 bits (328), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 74/180 (41%), Positives = 109/180 (60%), Gaps = 16/180 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+G+S VGK  +L       RF     D +  + + S  G     + +K  
Sbjct: 17  EYDYLFKLLLIGNSGVGKSCLLL------RFS----DDTYTNDYISTIG-----VDFKIK 61
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           T+ LDGK VKLQ+WDT+GQ RF TI  SY RG+ GI++VYD+T++ SF+G+  WL+E++ 
Sbjct: 62  TVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDR 121
Query: 176 HAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   R V    A+ +A  N+M F E S L   N+ ++F  ++R+
Sbjct: 122 YATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQ 181

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  130 bits (326), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 76/192 (39%), Positives = 108/192 (56%), Gaps = 20/192 (10%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T +
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLS------RFTRNEFNLESKSTIG---------VEFATRS 46
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I +DGK +K Q+WDT+GQ R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +H
Sbjct: 47  IQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDH 106
Query: 177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF----TEL 231
           A   +  +LVGN+  L   R V T EA  +A KN ++F E S L   N+ E+F    TE+
Sbjct: 107 ADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEI 166
Query: 232 SRRALQRNGMER 243
            R   Q+   +R
Sbjct: 167 YRIVSQKQIADR 178

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  127 bits (320), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 75/192 (39%), Positives = 112/192 (58%), Gaps = 16/192 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 5   EYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIR 49
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ S+  + +WL+E++ 
Sbjct: 50  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDR 109
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ ++F  ++  
Sbjct: 110 YASENVNKLLVGNKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAE 169
Query: 235 ALQRNGMERLWR 246
             +R G+E L++
Sbjct: 170 IKKRMGLEVLFQ 181

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  127 bits (319), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 76/197 (38%), Positives = 111/197 (56%), Gaps = 16/197 (8%)
Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSG 104
            + +P  +   +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G
Sbjct: 18  FQGRPXSSXNPEYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG 67
Query: 105 KYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD 164
                + +K  TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+
Sbjct: 68  -----VDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 122
Query: 165 GIDRWLKEVEEHAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFN 223
            + +WL+E++ +A   V K+LVGN+  L   + V    A+ +A    + F E S     N
Sbjct: 123 NVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATN 182
Query: 224 IRESFTELSRRALQRNG 240
           + +SF   +    +R G
Sbjct: 183 VEQSFXTXAAEIKKRXG 199

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  126 bits (316), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 75/186 (40%), Positives = 108/186 (58%), Gaps = 16/186 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 12  EYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIR 56
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ 
Sbjct: 57  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR 116
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ +SF  ++  
Sbjct: 117 YASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 176
Query: 235 ALQRNG 240
             +R G
Sbjct: 177 IKKRMG 182

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  126 bits (316), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 73/184 (39%), Positives = 108/184 (58%), Gaps = 16/184 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  ++S + S  G     + +K  
Sbjct: 5   EYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTDS-YISTIG-----VDFKIR 49
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI L+ K VKLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SFD + +W++E++ 
Sbjct: 50  TISLENKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDR 109
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   R VT+ E    A  + + F E S    +N+ ++F  ++  
Sbjct: 110 YAMENVNKLLVGNKCDLVSKRVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGE 169
Query: 235 ALQR 238
             +R
Sbjct: 170 IKKR 173

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  126 bits (316), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 70/174 (40%), Positives = 100/174 (57%), Gaps = 16/174 (9%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T 
Sbjct: 25  EYDYLFKVVLIGDSGVGKSNLLS------RFTRNEFNLESKSTIG---------VEFATR 69
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           +I +DGK +K Q+WDT+GQ R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +
Sbjct: 70  SIQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRD 129
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           HA   +  +LVGN+  L   R V T EA  +A KN ++F E S L   N+  +F
Sbjct: 130 HADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAF 183

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  125 bits (315), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 75/186 (40%), Positives = 108/186 (58%), Gaps = 16/186 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 21  EYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIR 65
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ 
Sbjct: 66  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR 125
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ +SF  ++  
Sbjct: 126 YASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 185
Query: 235 ALQRNG 240
             +R G
Sbjct: 186 IKKRMG 191

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  125 bits (315), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 73/182 (40%), Positives = 103/182 (56%), Gaps = 20/182 (10%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T +
Sbjct: 17  YDYLFKVVLIGDSGVGKSNLLS------RFTRNEFNLESKSTIG---------VEFATRS 61
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I +DGK +K Q+WDT+GQ R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +H
Sbjct: 62  IQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDH 121
Query: 177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF----TEL 231
           A   +  +LVGN+  L   R V T EA  +A KN ++F E S L   N+  +F    TE+
Sbjct: 122 ADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 181
Query: 232 SR 233
            R
Sbjct: 182 YR 183

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  125 bits (313), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 74/184 (40%), Positives = 107/184 (58%), Gaps = 16/184 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 12  EYDYLFKLLLIGDSGVGKNCLL---------LRFADDTYTES-YISTIG-----VDFKIR 56
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ 
Sbjct: 57  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR 116
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ +SF  ++  
Sbjct: 117 YASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 176
Query: 235 ALQR 238
             +R
Sbjct: 177 IKKR 180

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  124 bits (312), Expect = 8e-29,   Method: Compositional matrix adjust.
 Identities = 74/184 (40%), Positives = 107/184 (58%), Gaps = 16/184 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 2   EYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIR 46
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ 
Sbjct: 47  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR 106
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ +SF  ++  
Sbjct: 107 YASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 166
Query: 235 ALQR 238
             +R
Sbjct: 167 IKKR 170

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  123 bits (309), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 72/183 (39%), Positives = 103/183 (56%), Gaps = 20/183 (10%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T 
Sbjct: 4   EYDYLFKVVLIGDSGVGKSNLLS------RFTRNEFNLESKSTIG---------VEFATR 48
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           +I +DGK +K Q+WDT+G  R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +
Sbjct: 49  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRD 108
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF----TE 230
           HA   +  +LVGN+  L   R V T EA  +A KN ++F E S L   N+  +F    TE
Sbjct: 109 HADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTE 168
Query: 231 LSR 233
           + R
Sbjct: 169 IYR 171

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  123 bits (309), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 73/186 (39%), Positives = 107/186 (57%), Gaps = 16/186 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 5   EYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIR 49
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ S+  + +WL+E++ 
Sbjct: 50  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDR 109
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ ++F  ++  
Sbjct: 110 YASENVNKLLVGNKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAE 169
Query: 235 ALQRNG 240
             +R G
Sbjct: 170 IKKRMG 175

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  123 bits (308), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 69/174 (39%), Positives = 99/174 (56%), Gaps = 16/174 (9%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T 
Sbjct: 25  EYDYLFKVVLIGDSGVGKSNLLS------RFTRNEFNLESKSTIG---------VEFATR 69
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           +I +DGK +K Q+WDT+G  R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +
Sbjct: 70  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRD 129
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           HA   +  +LVGN+  L   R V T EA  +A KN ++F E S L   N+  +F
Sbjct: 130 HADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAF 183

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  122 bits (307), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 69/174 (39%), Positives = 98/174 (56%), Gaps = 16/174 (9%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T 
Sbjct: 1   EYDYLFKVVLIGDSGVGKSNLLS------RFTRNEFNLESKSTIG---------VEFATR 45
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           +I +DGK +K Q+WDT+G  R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +
Sbjct: 46  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRD 105
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           HA   +   LVGN+  L   R V T EA  +A KN ++F E S L   N+  +F
Sbjct: 106 HADSNIVIXLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAF 159

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  122 bits (306), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 69/174 (39%), Positives = 98/174 (56%), Gaps = 16/174 (9%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T 
Sbjct: 7   EYDYLFKVVLIGDSGVGKSNLLS------RFTRNEFNLESKSTIG---------VEFATR 51
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           +I +DGK +K Q+WDT+G  R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +
Sbjct: 52  SIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRD 111
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           HA   +   LVGN+  L   R V T EA  +A KN ++F E S L   N+  +F
Sbjct: 112 HADSNIVIXLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAF 165

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  122 bits (306), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 74/186 (39%), Positives = 107/186 (57%), Gaps = 16/186 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YDYL K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 4   EYDYLFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIR 48
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ 
Sbjct: 49  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR 108
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVG +  L   + V    A+ +A    + F E S     N+ +SF  ++  
Sbjct: 109 YASENVNKLLVGIKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 168
Query: 235 ALQRNG 240
             +R G
Sbjct: 169 IKKRMG 174

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  121 bits (304), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 73/184 (39%), Positives = 106/184 (57%), Gaps = 16/184 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
           +YD L K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  
Sbjct: 2   EYDALFKLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIR 46
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ 
Sbjct: 47  TIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR 106
Query: 176 HAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ +SF  ++  
Sbjct: 107 YASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAE 166
Query: 235 ALQR 238
             +R
Sbjct: 167 IKKR 170

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  121 bits (303), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 69/184 (37%), Positives = 103/184 (55%), Gaps = 16/184 (8%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
            YD L K +L+GDS VGK  +LS      RF +   +  S+S            + + T 
Sbjct: 9   DYDLLFKIVLIGDSGVGKSNLLS------RFTKNEFNMDSKSTIG---------VEFATR 53
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           T+ ++GKR+K Q+WDT+GQ R+  I  +Y RGA G L+VYDI+   S++  + WL E+ E
Sbjct: 54  TLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRE 113
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +A   V   L+GN+  LA  R V T E++ +A +NQ+ F E S L   N+ ++F EL   
Sbjct: 114 NADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINT 173
Query: 235 ALQR 238
             Q+
Sbjct: 174 IYQK 177

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  119 bits (299), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 71/177 (40%), Positives = 101/177 (57%), Gaps = 17/177 (9%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YDYL K +L+GDS VGK  +LS      RF R   +  S+S            + + T +
Sbjct: 4   YDYLFKIVLIGDSGVGKSNLLS------RFTRDEFNLESKSTIG---------VEFATKS 48
Query: 117 ILL-DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           I L + K +K Q+WDT+GQ R+  I  +Y RGA G LLVYDIT K SF+ I++WLKE+ +
Sbjct: 49  IQLKNNKIIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRD 108
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           +A   +  +LVGN+  L   R +   +A  YA K ++AF E S L   N+  +F +L
Sbjct: 109 NADSNIVILLVGNKSDLKHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQL 165

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  117 bits (294), Expect = 8e-27,   Method: Compositional matrix adjust.
 Identities = 69/177 (38%), Positives = 100/177 (56%), Gaps = 16/177 (9%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
            YDYL K +L+GDS VGK  +LS      RF     +  S+S            + + T 
Sbjct: 6   DYDYLFKIVLIGDSGVGKSNLLS------RFTTDEFNIESKSTIG---------VEFATR 50
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI ++ K++K Q+WDT+G  R+  I  +Y RGA G L+VYDI+   S++  + WL E+ E
Sbjct: 51  TIEVENKKIKAQIWDTAGLERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRE 110
Query: 176 HA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           +A   V   L+GN+  LA  R V T EA+ +A++NQM F E S L   N+ ++F EL
Sbjct: 111 NADDNVAVGLIGNKSDLAHLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFREL 167

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  117 bits (293), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 71/180 (39%), Positives = 103/180 (57%), Gaps = 17/180 (9%)
Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YD ++K LL+GDS VGK  +L   ++E +F            F +  G     + +K 
Sbjct: 15  KSYDSIMKILLIGDSGVGKSCLLV-RFVEDKF---------NPSFITTIG-----IDFKI 59
Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+ ++GK+VKLQLWDT+GQ RF TI  +Y RGA GI+LVYD+T++ +F  I +W K V 
Sbjct: 60  KTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVN 119
Query: 175 EHAPGVPK-VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EHA    + +LVGN+  +   R VT  + E  A +  + F E S   D N+ E F  L++
Sbjct: 120 EHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAK 178

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  116 bits (290), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 67/188 (35%), Positives = 105/188 (55%), Gaps = 18/188 (9%)
Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + YD+L K L++GDS VGK  +L       RF     D +    + +  G     + +K 
Sbjct: 4   RDYDHLFKLLIIGDSGVGKSSLLL------RFA----DNTFSGSYITTIG-----VDFKI 48
Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+ ++G++VKLQ+WDT+GQ RF TI  +Y RG  G+++VYD+T+  SF  + RWL E+ 
Sbjct: 49  RTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEIN 108
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF---TEL 231
           ++   V ++LVGN+      + V T +A  +A +  +  FE S   + N+ E F   TEL
Sbjct: 109 QNCDDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITEL 168
Query: 232 SRRALQRN 239
             RA + N
Sbjct: 169 VLRAKKDN 176

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  115 bits (287), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 70/178 (39%), Positives = 102/178 (57%), Gaps = 16/178 (8%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  TI LDG
Sbjct: 1   KLLLIGDSGVGKSCLL---------LRFADDTYTES-YISTIG-----VDFKIRTIELDG 45
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-GV 180
           K +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ +A   V
Sbjct: 46  KTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENV 105
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR 238
            K+LVGN+  L   + V    A+ +A    + F E S     N+ +SF  ++    +R
Sbjct: 106 NKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR 163

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  114 bits (285), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 65/183 (35%), Positives = 104/183 (56%), Gaps = 16/183 (8%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD+L KFL++G++  GK  +L   ++E +F         +S    G       + + +  
Sbjct: 7   YDFLFKFLVIGNAGTGKSCLLH-QFIEKKFK-------DDSNHTIG-------VEFGSKI 51
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I + GK VKLQ+WDT+GQ RF ++ RSY RGA G LLVYDIT++ +++ +  WL +    
Sbjct: 52  INVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 111
Query: 177 AP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           A   +  +L GN+  L  +R VT  EA  +A +N++ F E S L   N+ E+F + +R+ 
Sbjct: 112 ASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKI 171
Query: 236 LQR 238
           L +
Sbjct: 172 LNK 174

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  113 bits (283), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 64/194 (32%), Positives = 103/194 (53%), Gaps = 21/194 (10%)
Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSG 104
           M T P       Y Y+ K++++GD  VGK  +L   + E +F        ++ P   G  
Sbjct: 20  MATAPY-----NYSYIFKYIIIGDMGVGKSCLLH-QFTEKKF-------MADCPHTIG-- 64
Query: 105 KYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD 164
                + + T  I + G+++KLQ+WDT+GQGRF  + RSY RGA G L+VYDIT + +++
Sbjct: 65  -----VEFGTRIIEVSGQKIKLQIWDTAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYN 119
Query: 165 GIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFN 223
            +  WL +      P    +L+GN+  L   R VT  EA+ +A +N + F E S     N
Sbjct: 120 HLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGEN 179
Query: 224 IRESFTELSRRALQ 237
           + ++F E +++  Q
Sbjct: 180 VEDAFLEAAKKIYQ 193

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  112 bits (280), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 64/183 (34%), Positives = 105/183 (57%), Gaps = 16/183 (8%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD+L KFL++G++  GK  +L   ++E +F     D S+ +            + + +  
Sbjct: 8   YDFLFKFLVIGNAGTGKSCLLHQ-FIEKKFK----DDSNHTI----------GVEFGSKI 52
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I + GK VKLQ+WDT+GQ RF ++ RSY RGA G LLVYDIT++ +++ +  WL +    
Sbjct: 53  INVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 112
Query: 177 AP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           A   +  +L GN+  L  +R VT  EA  +A +N++ F E S L   ++ E+F + +R+ 
Sbjct: 113 ASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKI 172
Query: 236 LQR 238
           L +
Sbjct: 173 LNK 175

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  112 bits (280), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 69/177 (38%), Positives = 101/177 (57%), Gaps = 17/177 (9%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D ++K LL+GDS VGK  +L   ++E +F            F +  G     + +K  T+
Sbjct: 1   DSIMKILLIGDSGVGKSCLLV-RFVEDKF---------NPSFITTIG-----IDFKIKTV 45
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            ++GK+VKLQ+WDT+GQ RF TI  +Y RGA GI+LVYDIT++ +F  I +W K V EHA
Sbjct: 46  DINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHA 105
Query: 178 PGVPK-VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
               + +LVGN+  +   R VT  + E  A +  + F E S   D N+ E F  L++
Sbjct: 106 NDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAK 161

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  110 bits (276), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 69/186 (37%), Positives = 102/186 (54%), Gaps = 19/186 (10%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD   K +LVGDS VGK  +L       RF     DG+    F +G+      + ++   
Sbjct: 7   YDVAFKVMLVGDSGVGKTCLLV------RFK----DGA----FLAGTFISTVGIDFRNKV 52
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           + +DG +VKLQ+WDT+GQ RF ++  +Y R A  +LL+YD+TNK SFD I  WL E+ E+
Sbjct: 53  LDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEY 112
Query: 177 AP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFT----EL 231
           A   V  +L+GN++  A  R V   + E  A +  + F E S     N+  +FT    EL
Sbjct: 113 AQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 172
Query: 232 SRRALQ 237
            RR+++
Sbjct: 173 KRRSMK 178

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  110 bits (275), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 68/175 (38%), Positives = 100/175 (57%), Gaps = 17/175 (9%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           ++K LL+GDS VGK  +L   ++E +F            F +  G     + +K  T+ +
Sbjct: 7   IMKILLIGDSGVGKSCLLV-RFVEDKF---------NPSFITTIG-----IDFKIKTVDI 51
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPG 179
           +GK+VKLQLWDT+GQ RF TI  +Y RGA GI+LVYD+T++ +F  I +W K V EHA  
Sbjct: 52  NGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHAND 111
Query: 180 VPK-VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
             + +LVGN+  +   R VT  + E  A +  + F E S   D N+ E F  L++
Sbjct: 112 EAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAK 165

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  110 bits (274), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/182 (32%), Positives = 99/182 (54%), Gaps = 16/182 (8%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           Y Y+ K++++GD  VGK  +L   + E +F        ++ P   G       + + T  
Sbjct: 12  YSYIFKYIIIGDMGVGKSCLLH-QFTEKKF-------MADCPHTIG-------VEFGTRI 56
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I + G+++KLQ+WDT+GQ RF  + RSY RGA G L+VYDIT + +++ +  WL +    
Sbjct: 57  IEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNL 116
Query: 177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
             P    +L+GN+  L   R VT  EA+ +A +N + F E S     N+ ++F E +++ 
Sbjct: 117 TNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176
Query: 236 LQ 237
            Q
Sbjct: 177 YQ 178

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  109 bits (273), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 64/182 (35%), Positives = 103/182 (56%), Gaps = 16/182 (8%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D+L KFL++G +  GK  +L   ++E++F +       +S    G       + + +  +
Sbjct: 23  DFLFKFLVIGSAGTGKSCLLH-QFIENKFKQ-------DSNHTIG-------VEFGSRVV 67
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            + GK VKLQ+WDT+GQ RF ++ RSY RGA G LLVYDIT++ +++ +  WL +    A
Sbjct: 68  NVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLA 127
Query: 178 -PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRAL 236
            P +  +L GN+  L   R VT  EA  +A +N++ F E S L   N+ E+F + +R  L
Sbjct: 128 SPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTIL 187
Query: 237 QR 238
            +
Sbjct: 188 NK 189

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  109 bits (273), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 63/183 (34%), Positives = 104/183 (56%), Gaps = 16/183 (8%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD+L KFL++G++  GK  +L   ++E +F     D S+ +            + + +  
Sbjct: 5   YDFLFKFLVIGNAGTGKSCLLHQ-FIEKKFK----DDSNHTI----------GVEFGSKI 49
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I + GK VKLQ+WDT+G  RF ++ RSY RGA G LLVYDIT++ +++ +  WL +    
Sbjct: 50  INVGGKYVKLQIWDTAGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 109
Query: 177 AP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           A   +  +L GN+  L  +R VT  EA  +A +N++ F E S L   ++ E+F + +R+ 
Sbjct: 110 ASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKI 169
Query: 236 LQR 238
           L +
Sbjct: 170 LNK 172

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  109 bits (273), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 69/177 (38%), Positives = 99/177 (55%), Gaps = 17/177 (9%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D + K LL+GDS VGK  +L   ++E +F            F +  G     + +K  T+
Sbjct: 1   DSIXKILLIGDSGVGKSCLLV-RFVEDKF---------NPSFITTIG-----IDFKIKTV 45
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            ++GK+VKLQLWDT+GQ RF TI  +Y RGA GI+LVYD+T++ +F  I +W K V EHA
Sbjct: 46  DINGKKVKLQLWDTAGQERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHA 105
Query: 178 PGVPK-VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
               + +LVGN+      R VT  + E  A +  + F E S   D N+ E F  L++
Sbjct: 106 NDEAQLLLVGNKSDXE-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAK 161

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  109 bits (272), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 69/177 (38%), Positives = 99/177 (55%), Gaps = 17/177 (9%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D + K LL+GDS VGK  +L   ++E +F            F +  G     + +K  T+
Sbjct: 1   DSIXKILLIGDSGVGKSCLLV-RFVEDKF---------NPSFITTIG-----IDFKIKTV 45
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            ++GK+VKLQ+WDT+GQ RF TI  +Y RGA GI+LVYDIT++ +F  I +W K V EHA
Sbjct: 46  DINGKKVKLQIWDTAGQERFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHA 105
Query: 178 PGVPK-VLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
               + +LVGN+      R VT  + E  A +  + F E S   D N+ E F  L++
Sbjct: 106 NDEAQLLLVGNKSDXE-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAK 161

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  107 bits (268), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 62/175 (35%), Positives = 95/175 (54%), Gaps = 16/175 (9%)
Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + Y+++ K +L+G+S VGK  +LS      RF R      S +            + + T
Sbjct: 5   EDYNFVFKVVLIGESGVGKTNLLS------RFTRNEFSHDSRTTIG---------VEFST 49
Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T++L    VK Q+WDT+G  R+  I  +Y RGA G LLV+D+T   ++  ++RWLKE+ 
Sbjct: 50  RTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELY 109
Query: 175 EHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           +HA   +  +LVGN+  L+  R V T EA M+A  N + F E S L   N+  +F
Sbjct: 110 DHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAF 164

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  107 bits (268), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 62/175 (35%), Positives = 95/175 (54%), Gaps = 16/175 (9%)
Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + Y+++ K +L+G+S VGK  +LS      RF R      S +            + + T
Sbjct: 20  EDYNFVFKVVLIGESGVGKTNLLS------RFTRNEFSHDSRTTIG---------VEFST 64
Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T++L    VK Q+WDT+G  R+  I  +Y RGA G LLV+D+T   ++  ++RWLKE+ 
Sbjct: 65  RTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELY 124
Query: 175 EHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           +HA   +  +LVGN+  L+  R V T EA M+A  N + F E S L   N+  +F
Sbjct: 125 DHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAF 179

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  106 bits (265), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 60/179 (33%), Positives = 96/179 (53%), Gaps = 16/179 (8%)
Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           Q  +DY+ K L++G+S VGK   L            + D +    F S  G     + +K
Sbjct: 17  QGNFDYMFKLLIIGNSSVGKTSFLFR----------YADDTFTPAFVSTVG-----IDFK 61
Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
             T+    KRVKLQ+WDT+GQ R+ TI  +Y RGA G +L+YDITN+ SF+ +  W  ++
Sbjct: 62  VKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQI 121
Query: 174 EEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           + ++      +LVGN+  +   R V T + ++ A +    FFE S   + ++R++F  L
Sbjct: 122 KTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERL 180

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  106 bits (264), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 64/186 (34%), Positives = 104/186 (55%), Gaps = 16/186 (8%)
Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
            + + YD+L K +L+G++ VGK   L   + +  FP          P    +   D M+ 
Sbjct: 18  GSMEDYDFLFKIVLIGNAGVGKT-CLVRRFTQGLFP----------PGQGATIGVDFMIK 66
Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
               T+ ++G++VKLQ+WDT+GQ RF +I +SY R A  ++L YDIT + SF  +  WL+
Sbjct: 67  ----TVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLR 122
Query: 172 EVEEHAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           E+E++A   V  VLVGN++ LA  R V+ + AE ++    M + E S     N+ + F +
Sbjct: 123 EIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLD 182
Query: 231 LSRRAL 236
           L+ R +
Sbjct: 183 LACRLI 188

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  105 bits (262), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 62/183 (33%), Positives = 105/183 (57%), Gaps = 17/183 (9%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D+ L+ +++G   VGK  ++          RF     ++  FC    K    + +K  T+
Sbjct: 24  DFKLQVIIIGSRGVGKTSLME---------RF-----TDDTFCEAC-KSTVGVDFKIKTV 68
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            L GK+++LQ+WDT+GQ RF +I  +Y R A+GI+LVYDIT K +FD + +W+K ++++A
Sbjct: 69  ELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYA 128
Query: 178 PGVPK-VLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTELSRRA 235
               + +LVGN+L    +R +T ++ E +A +   M F E S   +FN+ E F +L    
Sbjct: 129 SEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI 188
Query: 236 LQR 238
           L++
Sbjct: 189 LKK 191

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  105 bits (261), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 62/183 (33%), Positives = 98/183 (53%), Gaps = 16/183 (8%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           Y YL K++++GD+ VGK    S L L+    RF            G       + +    
Sbjct: 7   YAYLFKYIIIGDTGVGK----SCLLLQFTDKRF----QPVHDLTIG-------VEFGARM 51
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I +DGK++KLQ+WDT+GQ  F +I RSY RGA G LLVYDIT + +F+ +  WL++  +H
Sbjct: 52  ITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQH 111
Query: 177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           +   +  +L+GN+  L   R V   E E +A ++ + F E S     N+ E+F   ++  
Sbjct: 112 SNSNMVIMLIGNKSDLESRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEI 171
Query: 236 LQR 238
            ++
Sbjct: 172 YEK 174

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  105 bits (261), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 60/177 (33%), Positives = 94/177 (53%), Gaps = 16/177 (9%)
Query: 56  QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT 115
            +DY+ K L++G+S VGK   L            + D S    F S  G     + +K  
Sbjct: 1   NFDYMFKILIIGNSSVGKTSFLFR----------YADDSFTPAFVSTVG-----IDFKVK 45
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
           TI  + KR+KLQ+WDT+GQ R+ TI  +Y RGA G +L+YDITN+ SF+ +  W  +++ 
Sbjct: 46  TIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKT 105
Query: 176 HAPGVPKV-LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++    +V LVGN+  +   R V++      A      FFE S   + N++++F  L
Sbjct: 106 YSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL 162

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  104 bits (260), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 93/175 (53%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S+VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 7   FKLVLLGESEVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 52  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 112 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  103 bits (258), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 92/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 7   FKLVLLGESKVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 52  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 112 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  103 bits (257), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 92/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 8   FKLVLLGESAVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 52
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 53  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 112
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 113 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 167

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  103 bits (257), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 92/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 7   FKLVLLGESAVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 52  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 112 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  103 bits (256), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 92/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 7   FKLVLLGESRVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 52  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 112 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  103 bits (256), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 64/192 (33%), Positives = 102/192 (53%), Gaps = 25/192 (13%)
Query: 55  KQYDYLLKFLLVGDSDVGK----QEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +QYD+L K +LVGD+ VGK    Q   +G + E +     +D                  
Sbjct: 24  EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVD------------------ 65
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            +   T+ + GKRVKLQ+WDT+GQ RF TI +SY R A G +L YDIT + SF  +  W+
Sbjct: 66  -FTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWI 124
Query: 171 KEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESF 228
           ++V ++A   + ++L+GN+  L+  R V+  EA+  A   + +   E S     N+ E+F
Sbjct: 125 EDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAF 184
Query: 229 TELSRRALQRNG 240
             ++   + R+G
Sbjct: 185 LRVATELIMRHG 196

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  103 bits (256), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 92/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 7   FKLVLLGESPVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 52  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 112 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  102 bits (255), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 92/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 8   FKLVLLGESAVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 52
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 53  DTTVKFEIWDTAGQERYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 112
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 113 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAIAKK 167

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  102 bits (255), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 62/175 (35%), Positives = 91/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 6   FKLVLLGESAVGK----SSLVL--RFVKGQFHEYQESTIQA---------AFLTQTVCLD 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN  +F     W+KE++  A P 
Sbjct: 51  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPN 110
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 111 IVIALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKK 165

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  102 bits (254), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 63/175 (36%), Positives = 92/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 7   FKLVLLGESLVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 52  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 112 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 166

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  102 bits (254), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 62/175 (35%), Positives = 91/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 4   FKLVLLGESAVGK----SSLVL--RFVKGQFHEYQESTIGA---------AFLTQTVCLD 48
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN  +F     W+KE++  A P 
Sbjct: 49  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPN 108
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 109 IVIALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKK 163

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  101 bits (251), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 61/178 (34%), Positives = 97/178 (54%), Gaps = 20/178 (11%)
Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTT 116
           YL K++++GD+ VGK    S L L+    RF        P       +D  +   +    
Sbjct: 20  YLFKYIIIGDTGVGK----SCLLLQFTDKRF-------QPV------HDLTIGVEFGARM 62
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           + +DGK++KLQ+WDT+GQ  F +I RSY RGA G LLVYDIT + +F+ +  WL++  +H
Sbjct: 63  VNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQH 122
Query: 177 -APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
            +  +  +L+GN+  L   R V   E E +A ++ + F E S     N+ E+F   ++
Sbjct: 123 SSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAK 180

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  100 bits (250), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 70/197 (35%), Positives = 102/197 (51%), Gaps = 23/197 (11%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK L++G+S VGK  +L       RF     D + +    +  G     + +K  TI +D
Sbjct: 16  LKILIIGESGVGKSSLLL------RFT----DDTFDPELAATIG-----VDFKVKTISVD 60
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-- 178
           G + KL +WDT+GQ RF T+  SY RGAQG++LVYD+T + +F  +D WL E+E +    
Sbjct: 61  GNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRN 120
Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP-LCDFNIRESFTELSRRALQ 237
            +   LVGN++    NR V   E   +A K+   F E S   CD  ++ +F EL  + +Q
Sbjct: 121 DIVNXLVGNKIDKE-NREVDRNEGLKFARKHSXLFIEASAKTCD-GVQCAFEELVEKIIQ 178
Query: 238 RNGMERLWRSNKVGRKP 254
             G   LW S      P
Sbjct: 179 TPG---LWESENQNSGP 192

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  100 bits (249), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 62/175 (35%), Positives = 91/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 6   FKLVLLGESAVGK----SSLVL--RFVKGQFHEFQESTIGA---------AFLTQTVCLD 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+G  R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE++  A P 
Sbjct: 51  DTTVKFEIWDTAGLERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN 110
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 111 IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK 165

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 99.8 bits (247), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 60/175 (34%), Positives = 87/175 (49%), Gaps = 16/175 (9%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           DY+ K LL+G+S VGK   L            + D S    F S  G     + +K  T+
Sbjct: 20  DYMFKLLLIGNSSVGKTSFLFR----------YADDSFTPAFVSTVG-----IDFKVKTV 64
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
               KR+KLQ+WDT+GQ R+ TI  +Y RGA G LL+YDI N+ SF  +  W  +++ ++
Sbjct: 65  YRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYS 124
Query: 178 -PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
                 +LVGN+  L   R V   +    A      FFE S   + N+++ F  L
Sbjct: 125 WDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERL 179

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 99.8 bits (247), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 60/175 (34%), Positives = 91/175 (52%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T ++ LD
Sbjct: 9   FKLVLLGESAVGK----SSLVL--RFVKGQFHEYQESTIGA---------AFLTQSVCLD 53
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ +F     W+KE++  A P 
Sbjct: 54  DTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPS 113
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V   EA+ YA  N + F E S     N+ + F  ++++
Sbjct: 114 IVIALAGNKADLANKRMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLFLAIAKK 168

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 99.8 bits (247), Expect = 3e-21,   Method: Composition-based stats.
 Identities = 59/130 (45%), Positives = 82/130 (63%), Gaps = 16/130 (12%)
Query: 63  FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK 122
            LL+GDS VGK  +L          RF  D  +ES + S  G     + +K  TI LDGK
Sbjct: 1   LLLIGDSGVGKSCLLL---------RFADDTYTES-YISTIG-----VDFKIRTIELDGK 45
Query: 123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-GVP 181
            +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+E++ +A   V 
Sbjct: 46  TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVN 105
Query: 182 KVLVGNRLHL 191
           K+LVGN+  L
Sbjct: 106 KLLVGNKCDL 115

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 99.4 bits (246), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 61/175 (34%), Positives = 90/175 (51%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +L+G+S VGK    S L L  RF +       ES   +         A+ T T+ LD
Sbjct: 6   FKLVLLGESAVGK----SSLVL--RFVKGQFHEYQESTIGA---------AFLTQTVCLD 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PG 179
              VK ++WDT+G  R+ ++   Y RGAQ  ++VYDITN  +F     W+KE++  A P 
Sbjct: 51  DTTVKFEIWDTAGLERYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPN 110
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++
Sbjct: 111 IVIALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKK 165

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score = 98.2 bits (243), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 59/176 (33%), Positives = 90/176 (51%), Gaps = 16/176 (9%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           +DY  K L++G+S VGK   L            + D S    F S  G     + +K  T
Sbjct: 5   FDYXFKILIIGNSSVGKTSFLFR----------YADDSFTPAFVSTVG-----IDFKVKT 49
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I  + KR+KLQ+WDT+G  R+ TI  +Y RGA G +L YDITN+ SF+ +  W  +++ +
Sbjct: 50  IYRNDKRIKLQIWDTAGLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTY 109
Query: 177 APGVPKV-LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           +    +V LVGN+      R V++      A      FFE S   + N++++F  L
Sbjct: 110 SWDNAQVLLVGNKCDXEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERL 165

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 94.0 bits (232), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 53/174 (30%), Positives = 94/174 (54%), Gaps = 16/174 (9%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +L+GD   GK  ++   +++ +F  F      ES   +         A+ + T+ ++ 
Sbjct: 14  KLVLLGDVGAGKSSLVL-RFVKDQFVEF-----QESTIGA---------AFFSQTLAVND 58
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGV 180
             VK ++WDT+GQ R+ ++   Y RGA   ++V+D+TN+ SF+   +W++E++    P +
Sbjct: 59  ATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNM 118
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
              L GN+  L   R VT  +A+ YA +N + F E S     N++E F E++RR
Sbjct: 119 VMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARR 172

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 92.4 bits (228), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 52/161 (32%), Positives = 89/161 (55%), Gaps = 18/161 (11%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           + K +++GDS+VGK   L+  +   RFP       +E+            + ++   + +
Sbjct: 20  IFKIIVIGDSNVGKT-CLTYRFCAGRFP-----DRTEATIG---------VDFRERAVDI 64
Query: 120 DGKRVKLQLWDTSGQGRF-CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH-- 176
           DG+R+K+QLWDT+GQ RF  ++++ Y R    ++ VYD+TN  SF  +  W++E ++H  
Sbjct: 65  DGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLL 124
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
           A  +P++LVGN+  L     V T  A+ +A  + M  FE S
Sbjct: 125 ANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETS 165

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 90.9 bits (224), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 66/200 (33%), Positives = 99/200 (49%), Gaps = 23/200 (11%)
Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGK--YDDML 110
           +   YDYL+KFL +GDS VGK  +L            + DG   S F +  G    +  +
Sbjct: 4   SDGDYDYLIKFLALGDSGVGKTSVLYQ----------YTDGKFNSKFITTVGIDFREKRV 53
Query: 111 AYKTTT---ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
            Y+       +  G+R+ LQLWDT+G  RF ++  ++ R A G LL++D+TN+ SF  + 
Sbjct: 54  VYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVR 113
Query: 168 RWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFN 223
            W+ +++ HA    P +  VL GN+  L   R V   EA   A K  + +FE S     N
Sbjct: 114 NWISQLQMHAYSENPDI--VLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTN 171
Query: 224 IRESFTELSRRALQRNGMER 243
           I  +   L    ++R  MER
Sbjct: 172 ISHAIEMLLDLIMKR--MER 189

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score = 90.1 bits (222), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 87/161 (54%), Gaps = 18/161 (11%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           + K +++GDS+VGK   L+  +   RFP       +E+            + ++   + +
Sbjct: 29  IFKIIVIGDSNVGKT-CLTYRFCAGRFP-----DRTEATI---------GVDFRERAVDI 73
Query: 120 DGKRVKLQLWDTSGQGRF-CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH-- 176
           DG+R+K+QLWDT+GQ RF  ++++ Y R    ++ VYD TN  SF  +  W++E ++H  
Sbjct: 74  DGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLL 133
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
           A  +P++LVGN+  L     V T  A+ +A  +    FE S
Sbjct: 134 ANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSXPLFETS 174

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 88.6 bits (218), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 57/194 (29%), Positives = 101/194 (52%), Gaps = 26/194 (13%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTTI 117
           LLK +++GDS VGK  +++  Y+  +F                S +Y   +   + T  +
Sbjct: 8   LLKVIILGDSGVGKTSLMNQ-YVNKKF----------------SNQYKATIGADFLTKEV 50
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
           ++D + V +Q+WDT+GQ RF ++  ++ RGA   +LV+D+T   +F  +D W  E    A
Sbjct: 51  MVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQA 110
Query: 178 -----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQMAFFEVSPLCDFNIRESFTEL 231
                   P V++GN++ L  NR V T+ A+ +   KN + +FE S     N+ ++F  +
Sbjct: 111 SPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169
Query: 232 SRRALQRNGMERLW 245
           +R AL++     L+
Sbjct: 170 ARNALKQETEVELY 183

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 88.2 bits (217), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 56/187 (29%), Positives = 99/187 (52%), Gaps = 26/187 (13%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTTI 117
           LLK +++GDS VGK  +++  Y+  +F                S +Y   +   + T  +
Sbjct: 8   LLKVIILGDSGVGKTSLMNQ-YVNKKF----------------SNQYKATIGADFLTKEV 50
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
           ++D + V +Q+WDT+GQ RF ++  ++ RGA   +LV+D+T   +F  +D W  E    A
Sbjct: 51  MVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQA 110
Query: 178 -----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQMAFFEVSPLCDFNIRESFTEL 231
                   P V++GN++ L  NR V T+ A+ +   KN + +FE S     N+ ++F  +
Sbjct: 111 SPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169
Query: 232 SRRALQR 238
           +R AL++
Sbjct: 170 ARNALKQ 176

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 87.8 bits (216), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 56/178 (31%), Positives = 94/178 (52%), Gaps = 16/178 (8%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K + +G+  VGK  +++         RF  D S ++ + +  G     + + + T+ L+
Sbjct: 3   FKLVFLGEQSVGKTSLIT---------RFMYD-SFDNTYQATIG-----IDFLSKTMYLE 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-EHAPG 179
            + V+LQLWDT+GQ RF ++I SY R +   ++VYDITN  SF    +W+ +V  E    
Sbjct: 48  DRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSD 107
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
           V  +LVGN+  LA  R +T  E E  A +  + F E S    +N+++ F  ++   L+
Sbjct: 108 VIIMLVGNKTDLADKRQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASALLE 165

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 87.4 bits (215), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 58/177 (32%), Positives = 85/177 (48%), Gaps = 20/177 (11%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK  L+GD+ VGK  I+     +S  P         +P    S        + T T+   
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNI-------NPTIGAS--------FMTKTVQYQ 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
            +  K  +WDT+GQ RF  +   Y RG+   ++VYDIT + +F  +  W++E+ +H P  
Sbjct: 51  NELHKFLIWDTAGQERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGP-- 108
Query: 181 PKVLV---GNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           P ++V   GN+  L   R V  R+A+ YA      F E S     NI E F E+SRR
Sbjct: 109 PSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRR 165

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 87.4 bits (215), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 56/194 (28%), Positives = 100/194 (51%), Gaps = 26/194 (13%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTTI 117
           LLK +++GDS VGK  +++  Y+  +F                S +Y   +   + T  +
Sbjct: 8   LLKVIILGDSGVGKTSLMNQ-YVNKKF----------------SNQYKATIGADFLTKEV 50
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
           ++D + V +Q+WDT+GQ RF ++  ++ RGA   +LV+D+T   +F  +D W  E    A
Sbjct: 51  MVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQA 110
Query: 178 -----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQMAFFEVSPLCDFNIRESFTEL 231
                   P V++GN++    NR V T+ A+ +   KN + +FE S     N+ ++F  +
Sbjct: 111 SPRDPENFPFVVLGNKIDFE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169
Query: 232 SRRALQRNGMERLW 245
           +R AL++     L+
Sbjct: 170 ARNALKQETEVELY 183

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 87.4 bits (215), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 55/169 (32%), Positives = 91/169 (53%), Gaps = 16/169 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K + +G+  VGK  +++         RF  D S ++ + +  G     + + + T+ L+
Sbjct: 15  FKLVFLGEQSVGKTSLIT---------RFMYD-SFDNTYQATIG-----IDFLSKTMYLE 59
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-EHAPG 179
            + V+LQLWDT+GQ RF ++I SY R +   ++VYDITN  SF    +W+ +V  E    
Sbjct: 60  DRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSD 119
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           V  +LVGN+  L+  R V+T E E  A +  + F E S    +N+++ F
Sbjct: 120 VIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLF 168

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 87.4 bits (215), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/173 (31%), Positives = 92/173 (53%), Gaps = 16/173 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K + +G+  VGK  +++         RF  D S ++ + +  G     + + + T+ L+
Sbjct: 7   FKLVFLGEQSVGKTSLIT---------RFMYD-SFDNTYQATIG-----IDFLSKTMYLE 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-EHAPG 179
            + ++LQLWDT+GQ RF ++I SY R +   ++VYDITN  SF    +W+ +V  E    
Sbjct: 52  DRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSD 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
           V  +LVGN+  LA  R V+  E E  A +  + F E S    +N+++ F  ++
Sbjct: 112 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVA 164

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score = 86.7 bits (213), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 55/169 (32%), Positives = 90/169 (53%), Gaps = 16/169 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K + +G+  VGK  +++         RF  D S ++ + +  G     + + + T+ L+
Sbjct: 2   FKLVFLGEQSVGKTSLIT---------RFMYD-SFDNTYQATIG-----IDFLSKTMYLE 46
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-EHAPG 179
            + V+LQLWDT+GQ RF ++I SY R +   ++VYDITN  SF    +W+ +V  E    
Sbjct: 47  DRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSD 106
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           V  +LVGN+  LA  R V+  E E  A +  + F E S    +N+++ F
Sbjct: 107 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLF 155

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 85.5 bits (210), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 56/194 (28%), Positives = 100/194 (51%), Gaps = 26/194 (13%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTTI 117
           LLK +++GDS VGK  +++  Y+  +F                S +Y   +   + T  +
Sbjct: 8   LLKVIILGDSGVGKTSLMNQ-YVNKKF----------------SNQYKATIGADFLTKEV 50
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
           ++D + V +Q+WDT+G  RF ++  ++ RGA   +LV+D+T   +F  +D W  E    A
Sbjct: 51  MVDDRLVTMQIWDTAGLERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQA 110
Query: 178 -----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQMAFFEVSPLCDFNIRESFTEL 231
                   P V++GN++ L  NR V T+ A+ +   KN + +FE S     N+ ++F  +
Sbjct: 111 SPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169
Query: 232 SRRALQRNGMERLW 245
           +R AL++     L+
Sbjct: 170 ARNALKQETEVELY 183

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 85.1 bits (209), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 65/203 (32%), Positives = 102/203 (50%), Gaps = 15/203 (7%)
Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRF-PRFWLDGSSESPFCSGSGKYDDMLA 111
           T   YDYL+K L +GDS VGK   L   Y +++F P+F    +    F      YD   A
Sbjct: 4   TDGDYDYLIKLLALGDSGVGKTTFLY-RYTDNKFNPKFIT--TVGIDFREKRVVYDTQGA 60
Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
              +       +V LQLWDT+G  RF ++  ++ R A G LL++D+T++ SF  +  W+ 
Sbjct: 61  DGASGKAF---KVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMS 117
Query: 172 EVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRES 227
           +++ +A    P +  VL+GN+  L   R V  R+A   A K  + +FE S     N+ +S
Sbjct: 118 QLQANAYCENPDI--VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKS 175
Query: 228 FTELSRRALQRNGMERLWRSNKV 250
              L    ++R  ME+     +V
Sbjct: 176 VETLLDLIMKR--MEKCVEKTQV 196

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score = 85.1 bits (209), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 57/177 (32%), Positives = 84/177 (47%), Gaps = 20/177 (11%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK  L+GD+ VGK  I+     +S  P         +P    S        + T T+   
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNI-------NPTIGAS--------FMTKTVQYQ 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
            +  K  +WDT+G  RF  +   Y RG+   ++VYDIT + +F  +  W++E+ +H P  
Sbjct: 52  NELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGP-- 109
Query: 181 PKVLV---GNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           P ++V   GN+  L   R V  R+A+ YA      F E S     NI E F E+SRR
Sbjct: 110 PSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRR 166

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 84.7 bits (208), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 67/205 (32%), Positives = 104/205 (50%), Gaps = 19/205 (9%)
Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRF-PRFWLDGSSESPFCSGSGKYDDMLA 111
           T   YDYL+K L +GDS VGK   L   Y +++F P+F    +    F      YD   A
Sbjct: 4   TDGDYDYLIKLLALGDSGVGKTTFLY-RYTDNKFNPKFIT--TVGIDFREKRVVYDTQGA 60
Query: 112 YKTTTILLDGK--RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW 169
              +     GK  +V LQLWDT+G  RF ++  ++ R A G LL++D+T++ SF  +  W
Sbjct: 61  DGAS-----GKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNW 115
Query: 170 LKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR 225
           + +++ +A    P +  VL+GN+  L   R V  R+A   A K  + +FE S     N+ 
Sbjct: 116 MSQLQANAYCENPDI--VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVE 173
Query: 226 ESFTELSRRALQRNGMERLWRSNKV 250
           +S   L    ++R  ME+     +V
Sbjct: 174 KSVETLLDLIMKR--MEKCVEKTQV 196

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 84.7 bits (208), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 55/174 (31%), Positives = 86/174 (49%), Gaps = 16/174 (9%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K + +G+  VGK  I++      RF     D + +S            + + + T+ LD 
Sbjct: 3   KLVFLGEQAVGKTSIIT------RFXYDTFDNNYQSTIG---------IDFLSKTLYLDE 47
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV-EEHAPGV 180
             V+LQLWDT+GQ RF ++I SY R +   ++VYDITN+ SF+   +W++++  E    V
Sbjct: 48  GPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDV 107
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
              LVGN+  L   R VT  E    A +    F E S     NI+  F + + +
Sbjct: 108 IIALVGNKTDLGDLRKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFKKTASK 161

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 84.3 bits (207), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/186 (29%), Positives = 88/186 (47%), Gaps = 31/186 (16%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT---- 116
           +K ++VG+  VGK  ++                     +C G    D    YK T     
Sbjct: 6   IKMVVVGNGAVGKSSMIQ-------------------RYCKGIFTKD----YKKTIGVDF 42
Query: 117 ----ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
               I ++ + V+L LWDT+GQ  F  I ++Y RGAQ  +LV+  T++ SF+ I  W ++
Sbjct: 43  LERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREK 102
Query: 173 VEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
           V      +P  LV N++ L  +  +   EAE  A + ++ F+  S   D N+ E F  L+
Sbjct: 103 VVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLA 162
Query: 233 RRALQR 238
            + LQ+
Sbjct: 163 EKHLQK 168

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 84.3 bits (207), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 94/183 (51%), Gaps = 19/183 (10%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K + +G+  VGK  +++         RF  D S ++ + +  G     + + + T+ L+
Sbjct: 14  FKLVFLGEQSVGKTSLIT---------RFMYD-SFDNTYQATIG-----IDFLSKTMYLE 58
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-EHAPG 179
            + ++LQLWDT+G  RF ++I SY R +   ++VYDITN  SF    +W+ +V  E    
Sbjct: 59  DRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSD 118
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN 239
           V  +LVGN+  LA  R V+  E E  A +  + F E S    +N+++ F    R A    
Sbjct: 119 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLF---RRVAAALP 175
Query: 240 GME 242
           GME
Sbjct: 176 GME 178

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 84.0 bits (206), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 65/198 (32%), Positives = 103/198 (52%), Gaps = 35/198 (17%)
Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRF-PRF----WLDG-------SSESPFCSGSG 104
           YDYL+K L +GDS VGK   L   Y +++F P+F     +D        +++ P  S SG
Sbjct: 22  YDYLIKLLALGDSGVGKTTFLY-RYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGS-SG 79
Query: 105 KYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD 164
           K     A+K          V LQLWDT+GQ RF ++  ++ R A G LL++D+T++ SF 
Sbjct: 80  K-----AFK----------VHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFL 124
Query: 165 GIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC 220
            +  W+ +++ +A    P +  VL+GN+  L   R V  R+A   A K  + +FE S   
Sbjct: 125 NVRNWMSQLQANAYCENPDI--VLIGNKADLPDQREVNERQARELADKYGIPYFETSAAT 182
Query: 221 DFNIRESFTELSRRALQR 238
             N+ ++   L    ++R
Sbjct: 183 GQNVEKAVETLLDLIMKR 200

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 83.6 bits (205), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 59/183 (32%), Positives = 94/183 (51%), Gaps = 19/183 (10%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K + +G+  VGK  +++         RF  D S ++ + +  G     + + + T+ L+
Sbjct: 7   FKLVFLGEQSVGKTSLIT---------RFMYD-SFDNTYQATIG-----IDFLSKTMYLE 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-EHAPG 179
            + V+LQLWDT+G  RF ++I SY R +   ++VYDITN  SF    +W+ +V  E    
Sbjct: 52  DRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSD 111
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN 239
           V  +LVGN+  LA  R V+  E E  A +  + F E S    +N+++ F    R A    
Sbjct: 112 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLF---RRVAAALP 168
Query: 240 GME 242
           GME
Sbjct: 169 GME 171

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 83.2 bits (204), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 57/175 (32%), Positives = 87/175 (49%), Gaps = 16/175 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK  L+GD+ VGK  I+       RF +   D  + SP    S        + T T+   
Sbjct: 24  LKVCLLGDTGVGKSSIVC------RFVQDHFD-HNISPTIGAS--------FMTKTVPCG 68
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-G 179
            +  K  +WDT+GQ RF ++   Y RG+   ++VYDIT + SF  + +W+KE++EH P  
Sbjct: 69  NELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPEN 128
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +   + GN+  L+  R V  ++A+ YA        E S     NI E F  +SR+
Sbjct: 129 IVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQ 183

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 83.2 bits (204), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 59/183 (32%), Positives = 94/183 (51%), Gaps = 19/183 (10%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K + +G+  VGK  +++         RF  D S ++ + +  G     + + + T+ L+
Sbjct: 17  FKLVFLGEQSVGKTSLIT---------RFMYD-SFDNTYQATIG-----IDFLSKTMYLE 61
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-EHAPG 179
            + V+LQLWDT+G  RF ++I SY R +   ++VYDITN  SF    +W+ +V  E    
Sbjct: 62  DRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSD 121
Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN 239
           V  +LVGN+  LA  R V+  E E  A +  + F E S    +N+++ F    R A    
Sbjct: 122 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLF---RRVAAALP 178
Query: 240 GME 242
           GME
Sbjct: 179 GME 181

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 82.8 bits (203), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 63/199 (31%), Positives = 94/199 (47%), Gaps = 34/199 (17%)
Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGL----YLESRFPRFWLDGSSESPFCSGSGKYD 107
           ++QK Y    K +L GD+ VGK   L  L    + E+      +D               
Sbjct: 24  SSQKAY----KIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVD--------------- 64
Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
               ++  T+++DG+R  LQLWDT+GQ RF +I +SY R A G+LL+YD+T + SF  I 
Sbjct: 65  ----FQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIR 120
Query: 168 RWLKEVEEHA-PGVPKVLVGNRLHL------AFNRTVTTREAEMYAIKNQMAFFEVSPLC 220
            W+  +E+ A   VP +LVGN+  +         + V     E  A+     F E S   
Sbjct: 121 EWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKD 180
Query: 221 DFNIRESFTELSRRALQRN 239
             NI E+   L+R   +R 
Sbjct: 181 GSNIVEAVLHLAREVKKRT 199

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 82.0 bits (201), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 63/186 (33%), Positives = 94/186 (50%), Gaps = 17/186 (9%)
Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRF-PRFWLDGSSESPFCSGSGKYDDMLA 111
           T   YDYL+K L +GDS VGK   L   Y +++F P+F    +    F      YD   A
Sbjct: 4   TDGDYDYLIKLLALGDSGVGKTTFLY-RYTDNKFNPKFIT--TVGIDFREKRVVYDTQGA 60
Query: 112 YKTTTILLDGK--RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW 169
              +     GK  +V LQLWDT+G  RF ++  ++ R A G LL +D+T++ SF  +  W
Sbjct: 61  DGAS-----GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNW 115
Query: 170 LKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR 225
             +++ +A    P +  VL+GN+  L   R V  R+A   A K  + +FE S     N+ 
Sbjct: 116 XSQLQANAYCENPDI--VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVE 173
Query: 226 ESFTEL 231
           +S   L
Sbjct: 174 KSVETL 179

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 81.6 bits (200), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 63/186 (33%), Positives = 94/186 (50%), Gaps = 17/186 (9%)
Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRF-PRFWLDGSSESPFCSGSGKYDDMLA 111
           T   YDYL+K L +GDS VGK   L   Y +++F P+F    +    F      YD   A
Sbjct: 4   TDGDYDYLIKLLALGDSGVGKTTFLY-RYTDNKFNPKFIT--TVGIDFREKRVVYDTQGA 60
Query: 112 YKTTTILLDGK--RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW 169
              +     GK  +V LQLWDT+G  RF ++  ++ R A G LL +D+T++ SF  +  W
Sbjct: 61  DGAS-----GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNW 115
Query: 170 LKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR 225
             +++ +A    P +  VL+GN+  L   R V  R+A   A K  + +FE S     N+ 
Sbjct: 116 XSQLQANAYCENPDI--VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVE 173
Query: 226 ESFTEL 231
           +S   L
Sbjct: 174 KSVETL 179

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 80.9 bits (198), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 54/190 (28%), Positives = 96/190 (50%), Gaps = 27/190 (14%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTTI 117
           +LK +++GDS VGK  ++   Y+  ++                S +Y   +   + T  +
Sbjct: 8   ILKVIILGDSGVGKTSLMH-RYVNDKY----------------SQQYKATIGADFLTKEV 50
Query: 118 LLDGKRVK-LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
            +DG +V  +Q+WDT+GQ RF ++  ++ RGA   +LVYD+TN  SF+ I  W  E   H
Sbjct: 51  TVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVH 110
Query: 177 A-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN--QMAFFEVSPLCDFNIRESFT 229
           A        P V++GN++    ++ + + ++     K+   +  F  S     N+  +F 
Sbjct: 111 ANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFE 170
Query: 230 ELSRRALQRN 239
           E++R ALQ+N
Sbjct: 171 EIARSALQQN 180

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 55/180 (30%), Positives = 89/180 (49%), Gaps = 16/180 (8%)
Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           Y  K +L+G+  VGK  ++   Y E++F    +     S              + T  + 
Sbjct: 5   YSFKVVLLGEGCVGKTSLVL-RYCENKFNDKHITTLGAS--------------FLTKKLN 49
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH-A 177
           + GKRV L +WDT+GQ RF  +   Y R + G +LVYDIT++ SF  +  W+KE+ +   
Sbjct: 50  IGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG 109
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             +   +VGN++ L   R V+ +EAE YA       +  S   +  I E F +L +R ++
Sbjct: 110 NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 55/180 (30%), Positives = 89/180 (49%), Gaps = 16/180 (8%)
Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           Y  K +L+G+  VGK  ++   Y E++F    +     S              + T  + 
Sbjct: 19  YSFKVVLLGEGCVGKTSLVL-RYCENKFNDKHITTLQAS--------------FLTKKLN 63
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH-A 177
           + GKRV L +WDT+GQ RF  +   Y R + G +LVYDIT++ SF  +  W+KE+ +   
Sbjct: 64  IGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG 123
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             +   +VGN++ L   R V+ +EAE YA       +  S   +  I E F +L +R ++
Sbjct: 124 NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 183

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 55/180 (30%), Positives = 89/180 (49%), Gaps = 16/180 (8%)
Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           Y  K +L+G+  VGK  ++   Y E++F    +     S              + T  + 
Sbjct: 5   YSFKVVLLGEGCVGKTSLVL-RYCENKFNDKHITTLQAS--------------FLTKKLN 49
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH-A 177
           + GKRV L +WDT+GQ RF  +   Y R + G +LVYDIT++ SF  +  W+KE+ +   
Sbjct: 50  IGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG 109
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             +   +VGN++ L   R V+ +EAE YA       +  S   +  I E F +L +R ++
Sbjct: 110 NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 77.4 bits (189), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 55/183 (30%), Positives = 95/183 (51%), Gaps = 22/183 (12%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           LLK +L+GD  VGK  +++  Y+ ++F        S++    G       + +    + +
Sbjct: 7   LLKVILLGDGGVGKSSLMN-RYVTNKF-------DSQAFHTIG-------VEFLNRDLEV 51
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
           DG+ V LQ+WDT+GQ RF ++   + RGA   LL + + ++ SF+ +  W KE   +A  
Sbjct: 52  DGRFVTLQIWDTAGQERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADV 111
Query: 178 ---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDFNIRESFTELSR 233
                 P V++GN++    +R VTT EA+ + ++N    + E S   D N+  +F E  R
Sbjct: 112 KDPEHFPFVVLGNKVDKE-DRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVR 170
Query: 234 RAL 236
           + L
Sbjct: 171 QVL 173

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 76.6 bits (187), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 53/176 (30%), Positives = 81/176 (46%), Gaps = 27/176 (15%)
Query: 61  LKFLLVGDSDVGKQEIL----SGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           +K +L+G++ VGK  I+    S  + E++ P                       A+ T  
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGA-------------------AFLTQR 44
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           + ++   VK ++WDT+GQ RF ++   Y R AQ  L+VYD+T   SF     W+KE+ E 
Sbjct: 45  VTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQ 104
Query: 177 AP-GVPKVLVGNR---LHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           A   +   LVGN+   L     R V   E E  A +  + FFE S     N+ + F
Sbjct: 105 ASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF 160

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 71.6 bits (174), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 51/183 (27%), Positives = 89/183 (48%), Gaps = 22/183 (12%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K +L+GD  VGK  +++  Y+ ++F         ++      G     + +    + +
Sbjct: 7   LFKVILLGDGGVGKSSLMN-RYVTNKF---------DTQLFHTIG-----VEFLNKDLEV 51
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
           DG  V +Q+WDT+GQ RF ++   + RG+   LL + + +  SF  +  W KE   +A  
Sbjct: 52  DGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADV 111
Query: 178 ---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDFNIRESFTELSR 233
                 P V++GN++ ++  R V+T EA+ +   N    +FE S     N+  +F E  R
Sbjct: 112 KEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVR 170
Query: 234 RAL 236
           R L
Sbjct: 171 RVL 173

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score = 71.6 bits (174), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 51/183 (27%), Positives = 89/183 (48%), Gaps = 22/183 (12%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K +L+GD  VGK  +++  Y+ ++F         ++      G     + +    + +
Sbjct: 9   LFKVILLGDGGVGKSSLMN-RYVTNKF---------DTQLFHTIG-----VEFLNKDLEV 53
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
           DG  V +Q+WDT+GQ RF ++   + RG+   LL + + +  SF  +  W KE   +A  
Sbjct: 54  DGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADV 113
Query: 178 ---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDFNIRESFTELSR 233
                 P V++GN++ ++  R V+T EA+ +   N    +FE S     N+  +F E  R
Sbjct: 114 KEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVR 172
Query: 234 RAL 236
           R L
Sbjct: 173 RVL 175

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 71.2 bits (173), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 52/183 (28%), Positives = 87/183 (47%), Gaps = 22/183 (12%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K +L+GD  VGK  +++  Y+ ++F         +S      G     + +    + +
Sbjct: 11  LFKIILLGDGGVGKSSLMN-RYVTNKF---------DSQLFHTIG-----VEFLNKDLEV 55
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
           DG  V +Q+WDT+GQ RF ++   + RG+   LL + + +  SF  +  W KE   +A  
Sbjct: 56  DGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADV 115
Query: 178 ---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDFNIRESFTELSR 233
                 P V++GN+  +   R V+T EA+ +   N    +FE S     N+  +F E  R
Sbjct: 116 KEPESFPFVILGNKTDIK-ERQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFEEAVR 174
Query: 234 RAL 236
           R L
Sbjct: 175 RIL 177

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 70.9 bits (172), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 41/131 (31%), Positives = 64/131 (48%), Gaps = 3/131 (2%)
Query: 106 YDDMLAYKTTTIL-LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD 164
           YD  +    T I  +DG   +L + DT+GQ  F  +   Y R   G LLV+ I ++ SF+
Sbjct: 38  YDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFN 97
Query: 165 GIDRWLKEV--EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDF 222
            + +   ++   +     P VLVGN+  L   R V   EA  +   + +A+FE S     
Sbjct: 98  EVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRL 157
Query: 223 NIRESFTELSR 233
           N+ E+F +L R
Sbjct: 158 NVDEAFEQLVR 168

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 68.9 bits (167), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 54/190 (28%), Positives = 91/190 (47%), Gaps = 28/190 (14%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
            +K + VGD  VGK  +L   Y  + FP  ++              +D+  A     +++
Sbjct: 6   FIKCVTVGDGAVGKTCMLIS-YTGNTFPTDYV-----------PTVFDNFSA----NVVV 49
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAP 178
           DG  V L LWDT+GQ  +  +     RGA   LL + + +K S++ I  +WL E++ +AP
Sbjct: 50  DGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYAP 109
Query: 179 GVPKVLVGNRLHLAFNR----------TVTTREA-EMYAIKNQMAFFEVSPLCDFNIRES 227
           G+P VLVG +L L  ++          ++TT +  E+  +   + + E S     N++  
Sbjct: 110 GIPIVLVGTKLDLRDDKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAV 169
Query: 228 FTELSRRALQ 237
           F    R AL+
Sbjct: 170 FDTAIRVALR 179

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 68.6 bits (166), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 35/122 (28%), Positives = 65/122 (53%), Gaps = 2/122 (1%)
Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           T   ++D +  +L + DT+GQ  F  +   Y R  +G LLV+ +T++ SF+ I ++ +++
Sbjct: 43  TKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQI 102
Query: 174 --EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
              +     P +L+GN+  L   R VT  E +  A + ++ + E S     N+ ++F EL
Sbjct: 103 LRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHEL 162
Query: 232 SR 233
            R
Sbjct: 163 VR 164

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/191 (23%), Positives = 89/191 (46%), Gaps = 17/191 (8%)
Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           A Q +     K +LVGD   GK          + F +  L G SE  + +  G     L 
Sbjct: 7   AAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGESEKKYVATLGVEVHPLV 56
Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           + T         +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W +
Sbjct: 57  FHTNR-----GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHR 111
Query: 172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  L
Sbjct: 112 DLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLWL 169
Query: 232 SRRALQRNGME 242
           +R+ +    +E
Sbjct: 170 ARKLIGDPNLE 180

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 67.0 bits (162), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 51/190 (26%), Positives = 87/190 (45%), Gaps = 28/190 (14%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
            +K + VGD  VGK  +L   Y  + FP  ++              +D+  A     +++
Sbjct: 8   FIKCVTVGDGAVGKTCLLIS-YTSNTFPTDYV-----------PTVFDNFSA----NVVV 51
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAP 178
           +G  V L LWDT+GQ  +  +     RGA   +L + + +K S++ +  +W+ E++ +AP
Sbjct: 52  NGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAP 111
Query: 179 GVPKVLVGNRLHLAFNR-----------TVTTREAEMYAIKNQMAFFEVSPLCDFNIRES 227
           GVP VLVG +L L  ++             T +  E+  +    A+ E S     N++  
Sbjct: 112 GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGV 171
Query: 228 FTELSRRALQ 237
           F    R  LQ
Sbjct: 172 FDAAIRVVLQ 181

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 65.5 bits (158), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 54/204 (26%), Positives = 90/204 (44%), Gaps = 26/204 (12%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
            +K + VGD  VGK  +L   Y  ++FP  ++              +D+  A     + +
Sbjct: 9   FIKCVTVGDGAVGKTCMLI-CYTSNKFPTDYI-----------PTVFDNFSA----NVAV 52
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           DG+ V L LWDT+GQ  +  +     RGA   +L + + +K S++ +  +W+ E+   AP
Sbjct: 53  DGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP 112
Query: 179 GVPKVLVGNRLHL---------AFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFT 229
            VP VLVG +L L           N   +T+  E+       A+ E S     N++  F 
Sbjct: 113 NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFD 172
Query: 230 ELSRRALQRNGMERLWRSNKVGRK 253
              +  LQ    + + R  K  R+
Sbjct: 173 TAIKVVLQPPRRKEVPRRRKNHRR 196

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 65.1 bits (157), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 44/192 (22%), Positives = 89/192 (46%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 50
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W 
Sbjct: 51  VFHTNR-----GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 105
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 106 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 163
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 164 LARKLIGDPNLE 175

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 65.1 bits (157), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 44/192 (22%), Positives = 89/192 (46%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 50
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W 
Sbjct: 51  VFHTNR-----GPIKFNVWDTAGQEKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 105
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 106 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 163
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 164 LARKLIGDPNLE 175

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 65.1 bits (157), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 50/190 (26%), Positives = 87/190 (45%), Gaps = 28/190 (14%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
            +K + VGD  VGK  +L   Y  + FP  ++              +D+  A     +++
Sbjct: 6   FIKCVTVGDGAVGKTCMLIS-YTSNTFPTDYV-----------PTVFDNFSA----NVVV 49
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           DG  V L LWDT+GQ  +  +     RGA   +L + + +K S++ +  +W+ E+  +AP
Sbjct: 50  DGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAP 109
Query: 179 GVPKVLVGNRLHLAFNR----------TVTTREA-EMYAIKNQMAFFEVSPLCDFNIRES 227
           GVP +LVG +L L  ++           +TT +  E+  +     + E S     N++  
Sbjct: 110 GVPIILVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAV 169
Query: 228 FTELSRRALQ 237
           F    +  LQ
Sbjct: 170 FDAAIKVVLQ 179

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 65.1 bits (157), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 44/192 (22%), Positives = 89/192 (46%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 50
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W 
Sbjct: 51  VFHTNR-----GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 105
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 106 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 163
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 164 LARKLIGDPNLE 175

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 65.1 bits (157), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 44/192 (22%), Positives = 89/192 (46%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 50
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W 
Sbjct: 51  VFHTNR-----GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 105
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 106 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 163
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 164 LARKLIGDPNLE 175

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 65.1 bits (157), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 45/194 (23%), Positives = 90/194 (46%), Gaps = 21/194 (10%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E        KY   L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEK-------KYVPTL 43
Query: 111 AYKTTTILLDGKR--VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR 168
             +   ++    R  +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  
Sbjct: 44  GVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN 103
Query: 169 WLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           W +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F
Sbjct: 104 WHRDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPF 161
Query: 229 TELSRRALQRNGME 242
             L+R+ +    +E
Sbjct: 162 LWLARKLIGDPNLE 175

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 64.7 bits (156), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 39/123 (31%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGNR  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNRCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 44/191 (23%), Positives = 88/191 (46%), Gaps = 17/191 (8%)
Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L 
Sbjct: 7   AAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPLV 56
Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           + T         +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W +
Sbjct: 57  FHTNR-----GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHR 111
Query: 172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  L
Sbjct: 112 DLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLWL 169
Query: 232 SRRALQRNGME 242
           +R+ +    +E
Sbjct: 170 ARKLIGDPNLE 180

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/194 (23%), Positives = 90/194 (46%), Gaps = 21/194 (10%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E        KY   L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEK-------KYVPTL 43
Query: 111 AYKTTTILLDGKR--VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR 168
             +   ++    R  +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  
Sbjct: 44  GVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN 103
Query: 169 WLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           W +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F
Sbjct: 104 WHRDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPF 161
Query: 229 TELSRRALQRNGME 242
             L+R+ +    +E
Sbjct: 162 LWLARKLIGDPNLE 175

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-GRTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 64.3 bits (155), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 44/192 (22%), Positives = 88/192 (45%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 50
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+GQ +F  +   Y   AQ  ++ +D+T++ ++  +  W 
Sbjct: 51  VFHTNR-----GPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWH 105
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 106 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 163
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 164 LARKLIGDPNLE 175

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 42/182 (23%), Positives = 86/182 (47%), Gaps = 17/182 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +LVGD   GK          + F +  L G  E  + +  G     L + T     +
Sbjct: 4   FKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-----N 48
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
              +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W +++      +
Sbjct: 49  RGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENI 108
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNG 240
           P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  L+R+ +    
Sbjct: 109 PIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLWLARKLIGDPN 166
Query: 241 ME 242
           +E
Sbjct: 167 LE 168

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 49  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 108
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 109 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 167
Query: 235 ALQ 237
             Q
Sbjct: 168 IRQ 170

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 49  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 108
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 109 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 167
Query: 235 ALQ 237
             Q
Sbjct: 168 IRQ 170

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 50  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 109
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 110 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 168
Query: 235 ALQ 237
             Q
Sbjct: 169 IRQ 171

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/78 (44%), Positives = 48/78 (61%), Gaps = 4/78 (5%)
Query: 124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW---LKEVEEHAPGV 180
           V LQ+WD  GQ     ++  Y  GAQG+LLVYDITN  SF+ ++ W   +K+V E +   
Sbjct: 56  VTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQ 115
Query: 181 PKV-LVGNRLHLAFNRTV 197
           P V LVGN++ L   RT+
Sbjct: 116 PLVALVGNKIDLEHMRTI 133

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 51  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 110
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 111 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 169
Query: 235 ALQ 237
             Q
Sbjct: 170 IRQ 172

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 43/192 (22%), Positives = 89/192 (46%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 50
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+GQ ++  +   Y   AQ  ++++D+T++ ++  +  W 
Sbjct: 51  VFHTNR-----GPIKFNVWDTAGQEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 105
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 106 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 163
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 164 LARKLIGDPNLE 175

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTTGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDEYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 63.5 bits (153), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 63.2 bits (152), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKSDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 63.2 bits (152), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 FRQ 165

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 62.8 bits (151), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGEICLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 62.8 bits (151), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTGGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 62.4 bits (150), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 43/192 (22%), Positives = 88/192 (45%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 3   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 52
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+G  +F  +   Y   AQ  ++++D+T++ ++  +  W 
Sbjct: 53  VFHTNR-----GPIKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 107
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 108 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 165
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 166 LARKLIGDPNLE 177

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 62.4 bits (150), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 64/119 (53%), Gaps = 3/119 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I  + ++++  
Sbjct: 45  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRV 104
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           + +  VP VLVGN+  L  +RTV T++A+  A    + F E S      + ++F  L R
Sbjct: 105 KDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 62.0 bits (149), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 43/192 (22%), Positives = 88/192 (45%), Gaps = 17/192 (8%)
Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +A Q +     K +LVGD   GK          + F +  L G  E  + +  G     L
Sbjct: 1   MAAQGEPQVQFKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPL 50
Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + T         +K  +WDT+G  +F  +   Y   AQ  ++++D+T++ ++  +  W 
Sbjct: 51  VFHTNR-----GPIKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 105
Query: 171 KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++      +P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  
Sbjct: 106 RDLVRVCENIPIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLW 163
Query: 231 LSRRALQRNGME 242
           L+R+ +    +E
Sbjct: 164 LARKLIGDPNLE 175

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 62.0 bits (149), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 63/123 (51%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF  I+ + ++++  
Sbjct: 62  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRV 121
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  L   RTV T++A   A    + F E S      + ++F  L R 
Sbjct: 122 KDSDDVPMVLVGNKCDLP-TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVRE 180
Query: 235 ALQ 237
             Q
Sbjct: 181 IRQ 183

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 62.0 bits (149), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 66/123 (53%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G+  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGKEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 62.0 bits (149), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 51/194 (26%), Positives = 82/194 (42%), Gaps = 30/194 (15%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K +LVGD   GK  +L  ++ +  FP       S +P          +       + + 
Sbjct: 35  VKVVLVGDGGCGKTSLLM-VFADGAFPE------SYTP---------TVFERYMVNLQVK 78
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPG 179
           GK V L +WDT+GQ  +  +   +   A  +LL +D+T+  SFD I +RW  EV      
Sbjct: 79  GKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKK 138
Query: 180 VPKVLVGNRLHLAFNRTVTT-------------REAEMYAIKNQMAFFEVSPLCDFNIRE 226
           VP ++VG +  L  ++++               R  EM      +A+ E S     N+  
Sbjct: 139 VPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHA 198
Query: 227 SFTELSRRALQRNG 240
            F E +  AL   G
Sbjct: 199 VFQEAAEVALSSRG 212

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 61.6 bits (148), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 64/119 (53%), Gaps = 3/119 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I  + ++++  
Sbjct: 45  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRV 104
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           + +  VP VLVGN+  L  +RTV T++A+  A    + F E S      + ++F  L R
Sbjct: 105 KDSEDVPMVLVGNKSDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 61.6 bits (148), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 64/119 (53%), Gaps = 3/119 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I  + ++++  
Sbjct: 45  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRV 104
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           + +  VP VLVGN+  L  +RTV T++A+  A    + F E S      + ++F  L R
Sbjct: 105 KDSEDVPMVLVGNKSDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 61.6 bits (148), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 61.6 bits (148), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 37/119 (31%), Positives = 64/119 (53%), Gaps = 3/119 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I  + ++++  
Sbjct: 45  VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRV 104
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           + +  VP VLVGN+  L  +RTV T++A+  A    + F E S      + ++F  L R
Sbjct: 105 KDSEDVPMVLVGNKSDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 162

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 61.6 bits (148), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+GQ     +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGQEEASAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 61.2 bits (147), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+ Q  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKXDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 61.2 bits (147), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+ Q  +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKXDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/181 (28%), Positives = 83/181 (45%), Gaps = 18/181 (9%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK    S L L+  +  F  D     P  + S +           ++L
Sbjct: 18  LHKVIMVGSGGVGK----SALTLQFMYDEFVEDYE---PTKADSYR---------KKVVL 61
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHA 177
           DG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF     + +++   +  
Sbjct: 62  DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED 121
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ + F +L R    
Sbjct: 122 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA 181
Query: 238 R 238
           R
Sbjct: 182 R 182

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/181 (28%), Positives = 83/181 (45%), Gaps = 18/181 (9%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK    S L L+  +  F  D     P  + S +           ++L
Sbjct: 6   LHKVIMVGSGGVGK----SALTLQFMYDEFVEDYE---PTKADSYR---------KKVVL 49
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHA 177
           DG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF     + +++   +  
Sbjct: 50  DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED 109
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ + F +L R    
Sbjct: 110 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA 169
Query: 238 R 238
           R
Sbjct: 170 R 170

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/191 (26%), Positives = 84/191 (43%), Gaps = 30/191 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ +  FP  ++    E+                   I +DG
Sbjct: 27  KLVVVGDGACGKTCLLI-VFSKDEFPEVYVPTVFEN---------------YVADIEVDG 70
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + + +  S + I ++W+ EV+   P V
Sbjct: 71  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNV 130
Query: 181 PKVLVGNRLHLAFNRTVTTREAEM------------YAIKNQM-AFFEVSPLCDFNIRES 227
           P +LV N+  L  +  V T  A M             A++ Q   + E S      +RE 
Sbjct: 131 PIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREV 190
Query: 228 FTELSRRALQR 238
           F   +R ALQ+
Sbjct: 191 FETATRAALQK 201

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 61.2 bits (147), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/181 (28%), Positives = 83/181 (45%), Gaps = 18/181 (9%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK    S L L+  +  F  D     P  + S +           ++L
Sbjct: 14  LHKVIMVGSGGVGK----SALTLQFMYDEFVEDYE---PTKADSYR---------KKVVL 57
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHA 177
           DG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF     + +++   +  
Sbjct: 58  DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED 117
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ + F +L R    
Sbjct: 118 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA 177
Query: 238 R 238
           R
Sbjct: 178 R 178

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 60.8 bits (146), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 51/181 (28%), Positives = 83/181 (45%), Gaps = 18/181 (9%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK    S L L+  +  F  D     P  + S +           ++L
Sbjct: 4   LHKVIMVGSGGVGK----SALTLQFMYDEFVEDYE---PTKADSYR---------KKVVL 47
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHA 177
           DG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF     + +++   +  
Sbjct: 48  DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED 107
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ + F +L R    
Sbjct: 108 ENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA 167
Query: 238 R 238
           R
Sbjct: 168 R 168

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 60.8 bits (146), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 45/125 (36%), Positives = 69/125 (55%), Gaps = 8/125 (6%)
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRS-YSRGAQGILLVYDITNKWSFDGI---DRWLKEVE 174
           +D + V +++ DT+GQ    TI R  + R  +G +LVYDIT++ SF+ +      L E++
Sbjct: 71  IDDEVVSMEILDTAGQED--TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIK 128
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC-DFNIRESFTELSR 233
           +    V  +LVGN+  L  +R V+T E E  A +   AF+E S    + NI E F EL R
Sbjct: 129 K-PKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCR 187
Query: 234 RALQR 238
              +R
Sbjct: 188 EVRRR 192

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 60.8 bits (146), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 41/182 (22%), Positives = 84/182 (46%), Gaps = 17/182 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +LVGD   GK          + F +  L G  E  + +  G     L + T      
Sbjct: 7   FKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNR---- 52
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
              +K  +WDT+G  +F  +   Y   AQ  ++++D+T++ ++  +  W +++      +
Sbjct: 53  -GPIKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENI 111
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNG 240
           P VL GN++ +  +R V  +    +  KN + ++++S   ++N  + F  L+R+ +    
Sbjct: 112 PIVLCGNKVDIK-DRKVKAKSIVFHRKKN-LQYYDISAKSNYNFEKPFLWLARKLIGDPN 169
Query: 241 ME 242
           +E
Sbjct: 170 LE 171

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 49  VVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 108
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 109 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 167
Query: 235 ALQ 237
             Q
Sbjct: 168 IRQ 170

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/174 (25%), Positives = 80/174 (45%), Gaps = 17/174 (9%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K  L+GD  VGK   ++ +          LDG  E  + +  G     + +  T +   G
Sbjct: 13  KICLIGDGGVGKTTYINRV----------LDGRFEKNYNATVG----AVNHPVTFLDDQG 58
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPG-V 180
             +K  +WDT+GQ +   +   Y  GA G +L +D+T++ +   + RW+KE +       
Sbjct: 59  NVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEA 118
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-MAFFEVSPLCDFNIRESFTELSR 233
           P V+  N++ +  NR   +++  M  +K +   +FE+S     N    F  L+R
Sbjct: 119 PIVVCANKIDIK-NRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLAR 171

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGVEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETXLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 36/119 (30%), Positives = 63/119 (52%), Gaps = 3/119 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I  + ++++  
Sbjct: 62  VVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRV 121
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           + +  VP VLVGN+  L  +RTV T++A+  A    + F E S      + ++F  L R
Sbjct: 122 KDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVR 179

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 9   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 52
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 53  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 112
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 113 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 172
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 173 FEMATRAALQ 182

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 7   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 50
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 51  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 110
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 111 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 170
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 171 FEMATRAALQ 180

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/123 (30%), Positives = 65/123 (52%), Gaps = 3/123 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE-- 174
           +++DG+   L + DT+G   +  +   Y R  +G L V+ I N  SF+ I ++ ++++  
Sbjct: 44  VVIDGETCLLDILDTAGIEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           + +  VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R 
Sbjct: 104 KDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVRE 162
Query: 235 ALQ 237
             Q
Sbjct: 163 IRQ 165

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 8   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 51
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 52  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 111
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 112 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 171
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 172 FEMATRAALQ 181

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 11  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 54
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 55  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 114
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 115 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 174
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 175 FEMATRAALQ 184

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 9   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 52
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 53  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 112
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 113 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 172
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 173 FEMATRAALQ 182

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 55/191 (28%), Positives = 84/191 (43%), Gaps = 32/191 (16%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 7   KLVIVGDVACGKTCLLI-VFSKDQFPAVYVPTVFEN---------------YVADIEVDG 50
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +             IL+ + I +  S + I ++W  EV+   P V
Sbjct: 51  KQVELALWDTAGQEDYDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 110
Query: 181 PKVLVGNRLHLAFNRTVTTRE-----------AEMYAIKNQMAFF---EVSPLCDFNIRE 226
           P +LVGN+  L  N   T RE           AE   + N++  F   E S      +RE
Sbjct: 111 PIILVGNKKDLR-NDEHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVRE 169
Query: 227 SFTELSRRALQ 237
            F   +R ALQ
Sbjct: 170 VFEMATRAALQ 180

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 62/121 (51%), Gaps = 9/121 (7%)
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEH 176
           +D +   L + DT+GQ  F  +   Y R   G L+VY +T+K SF+ +DR+ + +   + 
Sbjct: 56  IDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKD 115
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS----PLCDFNIRESFTELS 232
               P +LV N++ L   R VT  + +  A K  + + E S    PL   N+ ++F +L 
Sbjct: 116 RESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPL---NVDKTFHDLV 172
Query: 233 R 233
           R
Sbjct: 173 R 173

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 38/126 (30%), Positives = 64/126 (50%), Gaps = 9/126 (7%)
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEH 176
           +D +   L + DT+GQ  F  +   Y R   G L+VY +T+K SF+ +DR+ + +   + 
Sbjct: 61  IDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKD 120
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS----PLCDFNIRESFTELS 232
               P +LV N++ L   R VT  + +  A K  + + E S    PL   N+ ++F +L 
Sbjct: 121 RESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPL---NVDKTFHDLV 177
Query: 233 RRALQR 238
           R   Q+
Sbjct: 178 RVIRQQ 183

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 10  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 53
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 54  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 113
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 114 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 173
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 174 FEMATRAALQ 183

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 60.1 bits (144), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 38/126 (30%), Positives = 64/126 (50%), Gaps = 9/126 (7%)
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEH 176
           +D +   L + DT+GQ  F  +   Y R   G L+VY +T+K SF+ +DR+ + +   + 
Sbjct: 61  IDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKD 120
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS----PLCDFNIRESFTELS 232
               P +LV N++ L   R VT  + +  A K  + + E S    PL   N+ ++F +L 
Sbjct: 121 RESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPL---NVDKTFHDLV 177
Query: 233 RRALQR 238
           R   Q+
Sbjct: 178 RVIRQQ 183

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 9   KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 52
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 53  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 112
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 113 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 172
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 173 FEMATRAALQ 182

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 62/121 (51%), Gaps = 9/121 (7%)
Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEH 176
           +D +   L + DT+GQ  F  +   Y R   G L+VY +T+K SF+ +DR+ + +   + 
Sbjct: 61  IDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKD 120
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS----PLCDFNIRESFTELS 232
               P +LV N++ L   R VT  + +  A K  + + E S    PL   N+ ++F +L 
Sbjct: 121 RESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPL---NVDKTFHDLV 177
Query: 233 R 233
           R
Sbjct: 178 R 178

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 40/174 (22%), Positives = 82/174 (47%), Gaps = 17/174 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +LVGD   GK          + F +  L G  E  + +  G     L++ T     +
Sbjct: 5   FKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYIATIGVEVHPLSFYT-----N 49
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
              +K  +WDT+G  +F  +   Y   AQ  ++++D+T++ ++  +  W +++      +
Sbjct: 50  FGEIKFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCENI 109
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           P VL GN++ +   R V  +    +  KN + ++++S   ++N  + F  L+R+
Sbjct: 110 PIVLCGNKVDVK-ERKVKAKTITFHRKKN-LQYYDISAKSNYNFEKPFLWLARK 161

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 40/174 (22%), Positives = 82/174 (47%), Gaps = 17/174 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +LVGD   GK          + F +  L G  E  + +  G     L++ T     +
Sbjct: 6   FKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYIATIGVEVHPLSFYT-----N 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
              +K  +WDT+G  +F  +   Y   AQ  ++++D+T++ ++  +  W +++      +
Sbjct: 51  FGEIKFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCENI 110
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           P VL GN++ +   R V  +    +  KN + ++++S   ++N  + F  L+R+
Sbjct: 111 PIVLCGNKVDVK-ERKVKAKTITFHRKKN-LQYYDISAKSNYNFEKPFLWLARK 162

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 8   KLVIVGDVACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YVADIEVDG 51
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 52  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 111
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 112 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 171
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 172 FEMATRAALQ 181

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 59.7 bits (143), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 27  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YIADIEVDG 70
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 71  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 130
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    R  E   + N+++ F   E S      +RE 
Sbjct: 131 PIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREV 190
Query: 228 FTELSRRALQ 237
           F   +R  LQ
Sbjct: 191 FEMATRAGLQ 200

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 59.3 bits (142), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 83/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  ++ + +FP  ++    E+                   I +DG
Sbjct: 27  KLVIVGDGACGKTCLLI-VFSKDQFPEVYVPTVFEN---------------YIADIEVDG 70
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 71  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFXPNV 130
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    R  E   + N+++ F   E S      +RE 
Sbjct: 131 PIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREV 190
Query: 228 FTELSRRALQ 237
           F   +R  LQ
Sbjct: 191 FEMATRAGLQ 200

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 59.3 bits (142), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 40/174 (22%), Positives = 82/174 (47%), Gaps = 17/174 (9%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +LVGD   GK          + F +  L G  E  + +  G     L++ T     +
Sbjct: 13  FKLVLVGDGGTGK----------TTFVKRHLTGEFEKKYIATIGVEVHPLSFYT-----N 57
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
              +K  +WDT+G  +F  +   Y   AQ  ++++D+T++ ++  +  W +++      +
Sbjct: 58  FGEIKFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVCENI 117
Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           P VL GN++ +   R V  +    +  KN + ++++S   ++N  + F  L+R+
Sbjct: 118 PIVLCGNKVDVK-ERKVKAKTITFHRKKN-LQYYDISAKSNYNFEKPFLWLARK 169

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 58.5 bits (140), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   I +DG
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFEN---------------YVADIEVDG 50
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 51  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 110
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 111 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 170
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 171 FEMATRAALQ 180

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 58.5 bits (140), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   I +DG
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFEN---------------YVADIEVDG 50
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 51  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 110
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 111 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 170
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 171 FEMATRAALQ 180

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 58.5 bits (140), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   I +DG
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFEN---------------YVADIEVDG 50
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 51  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 110
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 111 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 170
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 171 FEMATRAALQ 180

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 58.2 bits (139), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   I +DG
Sbjct: 5   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFEN---------------YVADIEVDG 48
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 49  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 108
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 109 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 168
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 169 FEMATRAALQ 178

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 58.2 bits (139), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 33/113 (29%), Positives = 59/113 (52%), Gaps = 4/113 (3%)
Query: 123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK 182
            +K  +WDT+GQ R+ +I+  Y RGA   ++V+DI+N  + D    W+ +++  +  +  
Sbjct: 92  NIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYII- 150
Query: 183 VLVGNRLHLAFNR-TVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           +LV N++    N+  V   E + YA  N + F + S     NI+  F  L+  
Sbjct: 151 ILVANKIDK--NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEE 201

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 82/190 (43%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   I +DG
Sbjct: 7   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFEN---------------YIADIEVDG 50
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 51  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 110
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    R  E   + N+++ F   E S      +RE 
Sbjct: 111 PIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREV 170
Query: 228 FTELSRRALQ 237
           F   +R  LQ
Sbjct: 171 FEMATRAGLQ 180

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 80/177 (45%), Gaps = 19/177 (10%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK    S L L+  +  F  D     P  + S +           ++L
Sbjct: 3   LHKVIMVGSGGVGK----SALTLQFMYDEFVEDYE---PTKADSYR---------KKVVL 46
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE---VEEH 176
           DG+ V++ + DT+G   +  I  +Y R  +G LLV+ IT   SF     + ++   V+  
Sbjct: 47  DGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAE 106
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
              +P ++VGN+  L   R V   EA   A +  + + E S     N+ + F +L R
Sbjct: 107 EDKIPLLVVGNKSDLEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMR 163

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 57.8 bits (138), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 80/177 (45%), Gaps = 19/177 (10%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK    S L L+  +  F  D     P  + S +           ++L
Sbjct: 7   LHKVIMVGSGGVGK----SALTLQFMYDEFVEDYE---PTKADSYR---------KKVVL 50
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE---VEEH 176
           DG+ V++ + DT+G   +  I  +Y R  +G LLV+ IT   SF     + ++   V+  
Sbjct: 51  DGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAE 110
Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
              +P ++VGN+  L   R V   EA   A +  + + E S     N+ + F +L R
Sbjct: 111 EDKIPLLVVGNKSDLEERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMR 167

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 57.8 bits (138), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 3/121 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--E 174
           + +D ++  L++ DT+G  +F  +   Y +  QG  LVY IT + +F+ +    +++   
Sbjct: 46  VEVDAQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRV 105
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTELSR 233
           +    VP +LVGN+  L   R V   + +  A + N  AF E S     N+ E F +L R
Sbjct: 106 KDTDDVPMILVGNKCDLEDERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVR 165
Query: 234 R 234
           +
Sbjct: 166 Q 166

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 57.8 bits (138), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 50/181 (27%), Positives = 82/181 (45%), Gaps = 18/181 (9%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK    S L L+  +  F  D     P  + S +           ++L
Sbjct: 6   LHKVIMVGSGGVGK----SALTLQFMYDEFVEDYE---PTKADSYR---------KKVVL 49
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHA 177
           DG+ V++ + DT+G   +  I  +Y R  +G L V+ IT   SF     + +++   +  
Sbjct: 50  DGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED 109
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ + F +L R    
Sbjct: 110 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA 169
Query: 238 R 238
           R
Sbjct: 170 R 170

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 57.8 bits (138), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 3/121 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--E 174
           + +D ++  L++ DT+G  +F  +   Y +  QG  LVY IT + +F+ +    +++   
Sbjct: 44  VEVDAQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTELSR 233
           +    VP +LVGN+  L   R V   + +  A + N  AF E S     N+ E F +L R
Sbjct: 104 KDTDDVPMILVGNKCDLEDERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVR 163
Query: 234 R 234
           +
Sbjct: 164 Q 164

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 41/127 (32%), Positives = 67/127 (52%), Gaps = 6/127 (4%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIR-SYSRGAQGILLVYDITNKWSFDG---IDRWLKE 172
           I  D     LQ+ DT+G  +F  + R S S+G    +LV+ +T+K S +    I + + +
Sbjct: 49  ISCDKSVCTLQITDTTGSHQFPAMQRLSISKG-HAFILVFSVTSKQSLEELGPIYKLIVQ 107
Query: 173 VEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
           ++     +P +LVGN+      R V TREA+  A + + AF E S   ++N++E F EL 
Sbjct: 108 IKGSVEDIPVMLVGNKCD-ETQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELL 166
Query: 233 RRALQRN 239
               +RN
Sbjct: 167 TLETRRN 173

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 56.2 bits (134), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/119 (33%), Positives = 62/119 (52%), Gaps = 5/119 (4%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIR-SYSRGAQGILLVYDITNKWSFDG---IDRWLKE 172
           I  D     LQ+ DT+G  +F  + R S S+G    +LVY IT++ S +    I   + E
Sbjct: 44  ISCDKSICTLQITDTTGSHQFPAMQRLSISKG-HAFILVYSITSRQSLEELKPIYEQICE 102
Query: 173 VEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++     +P +LVGN+   + +R V + EAE  A   + AF E S   + N++E F EL
Sbjct: 103 IKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL 161

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 56.2 bits (134), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 51/189 (26%), Positives = 81/189 (42%), Gaps = 30/189 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   I +DG
Sbjct: 5   KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFEN---------------YVADIEVDG 48
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 49  KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 108
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 109 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 168
Query: 228 FTELSRRAL 236
           F   +R AL
Sbjct: 169 FEMATRAAL 177

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGI-LLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 56.2 bits (134), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 6   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 49
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGI-LLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 50  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP 108
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 109 NTPIILVGTKLDL 121

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGI-LLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 11  IKCVVVGDGAVGKNCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 54
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 55  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 113
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 114 NTPIILVGTKLDL 126

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 55.8 bits (133), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 49/192 (25%), Positives = 82/192 (42%), Gaps = 32/192 (16%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHLAFNRTVTTREAE-------------MYAIKNQMAFFEVSPLCDFNIR 225
             P +LVG +L L  ++    +  E             M      + + E S L    ++
Sbjct: 107 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLK 166
Query: 226 ESFTELSRRALQ 237
             F E  R  L+
Sbjct: 167 TVFDEAIRAVLK 178

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 23  IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 66
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 67  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 125
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 126 NTPIILVGTKLDL 138

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 8   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGI-LLVYDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 52  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP 110
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 111 NTPIILVGTKLDL 123

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 46/182 (25%), Positives = 81/182 (44%), Gaps = 30/182 (16%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K +LVGD  VGK  ++   Y  + +P  ++  +           +D+  A     + +D
Sbjct: 21  VKCVLVGDGAVGKTSLVVS-YTTNGYPTEYIPTA-----------FDNFSA----VVSVD 64
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPG 179
           G+ V+LQL DT+GQ  F  +           LL + + +  SF  + ++W+ E+  H P 
Sbjct: 65  GRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPK 124
Query: 180 VPKVLVGNRLHL------------AFNRTVTTREAEMYAIKNQMA-FFEVSPLCDFNIRE 226
            P +LVG +  L               + V    A++ A + + A + E S L   N++E
Sbjct: 125 APIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKE 184
Query: 227 SF 228
            F
Sbjct: 185 VF 186

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 55.5 bits (132), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 40/133 (30%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 31  IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 74
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 75  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 133
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 134 NTPIILVGTKLDL 146

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 55.1 bits (131), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 51/190 (26%), Positives = 81/190 (42%), Gaps = 30/190 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   I +DG
Sbjct: 10  KLVIVGDGACGKTCLLI-VNSKDQFPEVYVPTVFEN---------------YVADIEVDG 53
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           K+V+L LWDT+G   +  +          IL+ + I +  S + I ++W  EV+   P V
Sbjct: 54  KQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNV 113
Query: 181 PKVLVGN----------RLHLAFNRTVTTREAEMYAIKNQMAFF---EVSPLCDFNIRES 227
           P +LVGN          R  LA  +    +  E   + N++  F   E S      +RE 
Sbjct: 114 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREV 173
Query: 228 FTELSRRALQ 237
           F   +R ALQ
Sbjct: 174 FEMATRAALQ 183

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 55.1 bits (131), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 19/142 (13%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHLAFNRTVTTR 200
             P +LVG +L L  ++    R
Sbjct: 107 HTPILLVGTKLDLRDDKDTIER 128

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 19/142 (13%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 5   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 48
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 49  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 107
Query: 179 GVPKVLVGNRLHLAFNRTVTTR 200
             P +LVG +L L  ++    R
Sbjct: 108 HTPILLVGTKLDLRDDKDTIER 129

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 41/142 (28%), Positives = 68/142 (47%), Gaps = 19/142 (13%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 5   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 48
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 49  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 107
Query: 179 GVPKVLVGNRLHLAFNRTVTTR 200
             P +LVG +L L  ++    R
Sbjct: 108 HTPILLVGTKLDLRDDKDTIER 129

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/189 (23%), Positives = 85/189 (44%), Gaps = 30/189 (15%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGD   GK  +L  +  + +FP  ++    E+                   + +DG
Sbjct: 12  KLVIVGDGACGKTCLLI-VNSKGQFPEVYVPTVFEN---------------YVADVEVDG 55
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           +RV+L LWDT+GQ  +  +       +  +L+ + I    S + + ++W+ EV     GV
Sbjct: 56  RRVELALWDTAGQEDYDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVLHFCQGV 115
Query: 181 PKVLVGNRLHLAFN------------RTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRES 227
           P +LVG ++ L  +            + VT++E +  A +     ++E S    + +RE 
Sbjct: 116 PIILVGCKVDLRNDPQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREV 175
Query: 228 FTELSRRAL 236
           F   +R +L
Sbjct: 176 FEAATRASL 184

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 54.3 bits (129), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 39/141 (27%), Positives = 63/141 (44%), Gaps = 35/141 (24%)
Query: 61  LKFLLVGDSDVGKQEIL--------SGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAY 112
           +K ++VGD  VGK  +L        SG Y+ + F  +                       
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNY----------------------- 50
Query: 113 KTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWL 170
            +  +++DGK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W 
Sbjct: 51  -SANVMVDGKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWY 108
Query: 171 KEVEEHAPGVPKVLVGNRLHL 191
            EV  H P  P +LVG +L L
Sbjct: 109 PEVRHHCPNTPIILVGTKLDL 129

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 47/191 (24%), Positives = 83/191 (43%), Gaps = 32/191 (16%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
            K V L LWDT+GQ  +   +R  S     + L+ + + +  S++ +  +W  EV  H P
Sbjct: 48  SKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCP 106
Query: 179 GVPKVLVGNRLHLAFNRTVTT--REAEMYAIK-----------NQMAFFEVSPLCDFNIR 225
             P +LVG +L L  ++      +E ++  I            + + + E S L    ++
Sbjct: 107 STPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLK 166
Query: 226 ESFTELSRRAL 236
             F E  R  L
Sbjct: 167 TVFDEAIRAVL 177

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+G   +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGLEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+G   +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 48  GKPVNLGLWDTAGLEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 107 NTPIILVGTKLDL 119

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 60/121 (49%), Gaps = 3/121 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--E 174
           + +D ++  L++ DT+G  +F  +   Y +  QG  LVY IT + +F+ +    +++   
Sbjct: 44  VEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTELSR 233
           +    VP +LVGN+  L   R V   + +  A +    AF E S     N+ E F +L R
Sbjct: 104 KDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163
Query: 234 R 234
           +
Sbjct: 164 Q 164

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 69/151 (45%), Gaps = 36/151 (23%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 6   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 49
Query: 121 GKRVKLQLWDTSGQGRF---------CTIIRSY-----SRG-----AQGILLVYDITNKW 161
           GK V L LWDT+GQ  +          T+  +Y     SRG     A   L+ + + +  
Sbjct: 50  GKPVNLGLWDTAGQEDYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPA 109
Query: 162 SFDGI-DRWLKEVEEHAPGVPKVLVGNRLHL 191
           SF+ +  +W  EV  H P  P +LVG +L L
Sbjct: 110 SFENVRAKWYPEVRHHCPNTPIILVGTKLDL 140

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 60/121 (49%), Gaps = 3/121 (2%)
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--E 174
           + +D ++  L++ DT+G  +F  +   Y +  QG  LVY IT + +F+ +    +++   
Sbjct: 44  VEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRV 103
Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTELSR 233
           +    VP +LVGN+  L   R V   + +  A +    AF E S     N+ E F +L R
Sbjct: 104 KDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVR 163
Query: 234 R 234
           +
Sbjct: 164 Q 164

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/147 (25%), Positives = 70/147 (47%), Gaps = 19/147 (12%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           +LK ++VGD  VGK  +L   Y    FP  ++                 +  +   ++ +
Sbjct: 18  MLKCVVVGDGAVGKTCLLMS-YANDAFPEEYVP---------------TVFDHYAVSVTV 61
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHA 177
            GK+  L L+DT+GQ  +   +R  S     + L+ + + N  SF  + + W+ E++E+A
Sbjct: 62  GGKQYLLGLYDTAGQEDY-DRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA 120
Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEM 204
           P VP +L+G ++ L  +     R  +M
Sbjct: 121 PNVPFLLIGTQIDLRDDPKTLARLNDM 147

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 53.1 bits (126), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  +  P  ++              +D+  A     +++D
Sbjct: 31  IKCVVVGDGAVGKTCLLIS-YTTNALPGEYI-----------PTVFDNYSA----NVMVD 74
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+GQ  +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 75  GKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 133
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 134 NTPIILVGTKLDL 146

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 52.8 bits (125), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 7   IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+G   +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 51  GKPVNLGLWDTAGLEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 109
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 110 NTPIILVGTKLDL 122

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 52.8 bits (125), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 47/191 (24%), Positives = 83/191 (43%), Gaps = 32/191 (16%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 10  IKCVVVGDVAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 53
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
            K V L LWDT+GQ  +   +R  S     + L+ + + +  S++ +  +W  EV  H P
Sbjct: 54  SKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCP 112
Query: 179 GVPKVLVGNRLHLAFNRTVTT--REAEMYAIK-----------NQMAFFEVSPLCDFNIR 225
             P +LVG +L L  ++      +E ++  I            + + + E S L    ++
Sbjct: 113 STPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLK 172
Query: 226 ESFTELSRRAL 236
             F E  R  L
Sbjct: 173 TVFDEAIRAVL 183

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 52.4 bits (124), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 33/131 (25%), Positives = 61/131 (46%), Gaps = 17/131 (12%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGDS  GK  +L  ++ +  FP  ++    E+                T +  +D 
Sbjct: 25  KIVVVGDSQCGKTALLH-VFAKDCFPENYVPTVFEN---------------YTASFEIDT 68
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           +R++L LWDTSG   +  +       +  +L+ +DI+   + D +  +W  E++E  P  
Sbjct: 69  QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT 128
Query: 181 PKVLVGNRLHL 191
             +LVG +  L
Sbjct: 129 KMLLVGCKSDL 139

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 52.4 bits (124), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 39/133 (29%), Positives = 64/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 31  IKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 74
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           GK V L LWDT+G   +   +R  S     + L+ + + +  SF+ +  +W  EV  H P
Sbjct: 75  GKPVNLGLWDTAGLEDY-DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP 133
Query: 179 GVPKVLVGNRLHL 191
             P +LVG +L L
Sbjct: 134 NTPIILVGTKLDL 146

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 47/191 (24%), Positives = 83/191 (43%), Gaps = 32/191 (16%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++D
Sbjct: 11  IKCVVVGDVAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMVD 54
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
            K V L LWDT+GQ  +   +R  S     + L+ + + +  S++ +  +W  EV  H P
Sbjct: 55  SKPVNLGLWDTAGQEDY-DRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCP 113
Query: 179 GVPKVLVGNRLHLAFNRTVTT--REAEMYAIK-----------NQMAFFEVSPLCDFNIR 225
             P +LVG +L L  ++      +E ++  I            + + + E S L    ++
Sbjct: 114 STPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLK 173
Query: 226 ESFTELSRRAL 236
             F E  R  L
Sbjct: 174 TVFDEAIRAVL 184

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 33/131 (25%), Positives = 61/131 (46%), Gaps = 17/131 (12%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGDS  GK  +L  ++ +  FP  ++    E+                T +  +D 
Sbjct: 9   KIVVVGDSQCGKTALLH-VFAKDCFPENYVPTVFEN---------------YTASFEIDT 52
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           +R++L LWDTSG   +  +       +  +L+ +DI+   + D +  +W  E++E  P  
Sbjct: 53  QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT 112
Query: 181 PKVLVGNRLHL 191
             +LVG +  L
Sbjct: 113 KMLLVGCKSDL 123

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 64/134 (47%), Gaps = 19/134 (14%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L+K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++
Sbjct: 155 LIKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMV 198
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHA 177
           DGK V L LWDT+G   +   +R  S     + L+ + + +  SF  +  +W  EV  H 
Sbjct: 199 DGKPVNLGLWDTAGLEDY-DRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC 257
Query: 178 PGVPKVLVGNRLHL 191
           P  P +LVG +L L
Sbjct: 258 PNTPIILVGTKLDL 271

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 52.0 bits (123), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 33/131 (25%), Positives = 61/131 (46%), Gaps = 17/131 (12%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VGDS  GK  +L  ++ +  FP  ++    E+                T +  +D 
Sbjct: 30  KIVVVGDSQCGKTALLH-VFAKDCFPENYVPTVFEN---------------YTASFEIDT 73
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGV 180
           +R++L LWDTSG   +  +       +  +L+ +DI+   + D +  +W  E++E  P  
Sbjct: 74  QRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNT 133
Query: 181 PKVLVGNRLHL 191
             +LVG +  L
Sbjct: 134 KMLLVGCKSDL 144

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 51.6 bits (122), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 64/134 (47%), Gaps = 19/134 (14%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L+K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++
Sbjct: 155 LIKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMV 198
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHA 177
           DGK V L LWDT+G   +   +R  S     + L+ + + +  SF  +  +W  EV  H 
Sbjct: 199 DGKPVNLGLWDTAGLEDY-DRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC 257
Query: 178 PGVPKVLVGNRLHL 191
           P  P +LVG +L L
Sbjct: 258 PNTPIILVGTKLDL 271

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 51.6 bits (122), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 40/134 (29%), Positives = 64/134 (47%), Gaps = 19/134 (14%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L+K ++VGD  VGK  +L   Y  + FP  ++              +D+  A     +++
Sbjct: 155 LIKCVVVGDGAVGKTCLLIS-YTTNAFPGEYI-----------PTVFDNYSA----NVMV 198
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHA 177
           DGK V L LWDT+G   +   +R  S     + L+ + + +  SF  +  +W  EV  H 
Sbjct: 199 DGKPVNLGLWDTAGLEDY-DRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC 257
Query: 178 PGVPKVLVGNRLHL 191
           P  P +LVG +L L
Sbjct: 258 PNTPIILVGTKLDL 271

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 51.6 bits (122), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 52/190 (27%), Positives = 80/190 (42%), Gaps = 18/190 (9%)
Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           Q Q D + K +LVG+S VGK   L+G +         L G S     +    Y+      
Sbjct: 17  QGQKDGIFKVMLVGESGVGKS-TLAGTF-------GGLQGDSAHEPENPEDTYE------ 62
Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYS-RGAQGILLVYDITNKWSFDGIDRWLKE 172
              I++D + V L ++D   QG     +R +  +     L+V+ +T++ SF  +   L  
Sbjct: 63  -RRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLR 121
Query: 173 VEEHAP--GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +    P   +P +LVGN+  LA +R V+  E    A        E S     N RE F  
Sbjct: 122 LRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEG 181
Query: 231 LSRRALQRNG 240
             R+   R G
Sbjct: 182 AVRQIRLRRG 191

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 53/106 (50%), Gaps = 2/106 (1%)
Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           T  I ++G+   LQL DT+GQ  +    ++YS    G +LVY +T+  SF+ I     ++
Sbjct: 44  TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKL 103
Query: 174 EEHAPGV--PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
            +    V  P +LVGN+  L   R ++  E +  A     AF E S
Sbjct: 104 LDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESS 149

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 53/106 (50%), Gaps = 2/106 (1%)
Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           T  I ++G+   LQL DT+GQ  +    ++YS    G +LVY +T+  SF+ I     ++
Sbjct: 44  TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKL 103
Query: 174 EEHAPGV--PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
            +    V  P +LVGN+  L   R ++  E +  A     AF E S
Sbjct: 104 LDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESS 149

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/107 (31%), Positives = 53/107 (49%), Gaps = 2/107 (1%)
Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           T  I ++G+   LQL DT+GQ  +    ++YS    G +LVY +T+  SF+ I     ++
Sbjct: 42  TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKL 101
Query: 174 EEHAPGV--PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP 218
            +    V  P +LVGN+  L   R ++  E +  A     AF E S 
Sbjct: 102 LDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSA 148

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/107 (31%), Positives = 53/107 (49%), Gaps = 2/107 (1%)
Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           T  I ++G+   LQL DT+GQ  +    ++YS    G +LVY +T+  SF+ I     ++
Sbjct: 39  TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKL 98
Query: 174 EEHAPGV--PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP 218
            +    V  P +LVGN+  L   R ++  E +  A     AF E S 
Sbjct: 99  LDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSA 145

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 41/125 (32%), Positives = 58/125 (46%), Gaps = 6/125 (4%)
Query: 96  ESPFCSGSGKYDDMLAYKTTTILLDGK-RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV 154
           E  F  G   YD  +    + I+  GK    L L DT+GQ  +  +  S+  G  G +LV
Sbjct: 46  EGEFSEG---YDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLV 102
Query: 155 YDITNKWSFDGIDRWLKEVEE-HAPG-VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA 212
           Y +T+  SF  I+   +++ E H    VP VLVGN+  L+  R V   E +  A      
Sbjct: 103 YSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGAT 162
Query: 213 FFEVS 217
           F E S
Sbjct: 163 FMESS 167

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PAVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 48/202 (23%), Positives = 89/202 (44%), Gaps = 32/202 (15%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 11  IKCVVVGDGAVGKNCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 54
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 55  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 113
Query: 179 GVPKVLVGNRLHLAFN------------RTVTTREAEMYAIK-NQMAFFEVSPLCDFNIR 225
             P +LVG ++ L  +            + +T   AE  A     + + E S L    ++
Sbjct: 114 KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLK 173
Query: 226 ESFTELSRRALQRNGMERLWRS 247
             F E    AL+    ++  RS
Sbjct: 174 NVFDEAILAALEPPEPKKSRRS 195

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 48/202 (23%), Positives = 89/202 (44%), Gaps = 32/202 (15%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHLAFN------------RTVTTREAEMYAIK-NQMAFFEVSPLCDFNIR 225
             P +LVG ++ L  +            + +T   AE  A     + + E S L    ++
Sbjct: 107 KTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLK 166
Query: 226 ESFTELSRRALQRNGMERLWRS 247
             F E    AL+    ++  RS
Sbjct: 167 NVFDEAILAALEPPEPKKSRRS 188

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 50.1 bits (118), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 6   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 49
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 50  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 108
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 109 KTPFLLVGTQIDL 121

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 5   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 48
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 49  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 107
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 108 KTPFLLVGTQIDL 120

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 14  IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 57
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 58  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 116
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 117 KTPFLLVGTQIDL 129

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDVAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 7   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 51  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 109
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 110 KTPFLLVGTQIDL 122

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 49.7 bits (117), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 11  IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYVPTV-----------FDNY----AVTVMIG 54
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 55  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 113
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 114 KTPFLLVGTQIDL 126

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 6   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 49
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 50  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 108
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 109 KTPFLLVGTQIDL 121

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 49.3 bits (116), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 7   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 50
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 51  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 109
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 110 KTPFLLVGTQIDL 122

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 66/133 (49%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 8   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 52  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 110
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 111 KTPFLLVGTQIDL 123

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 48.5 bits (114), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+ + 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVXIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 47.8 bits (112), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLRDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 40/141 (28%), Positives = 67/141 (47%), Gaps = 5/141 (3%)
Query: 99  FCSGS--GKYDDMLA-YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVY 155
           F +G+   KYD  +  +    I +D     L++ DT+G  +F ++   Y +  QG +LVY
Sbjct: 23  FVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVY 82
Query: 156 DITNKWSFDGIDRWLKEV--EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF 213
            + N+ SF  I     ++   +    VP +LVGN++ L   R V++ E    A +    F
Sbjct: 83  SLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPF 142
Query: 214 FEVSPLCDFNIRESFTELSRR 234
            E S      + E F E+ R+
Sbjct: 143 METSAKSKTMVDELFAEIVRQ 163

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 48/212 (22%), Positives = 88/212 (41%), Gaps = 37/212 (17%)
Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQ---EILSGLYLESRFPRFWLDGSSESPFCS 101
           M T  V++++    Y  + +L+G+  VGK     I +G++          D         
Sbjct: 23  MSTDSVISSESGNTYY-RVVLIGEQGVGKSTLANIFAGVH----------DSMDSDCEVL 71
Query: 102 GSGKYDDMLAYKTTTILLDGKR---VKLQLWDTSGQGRF----CTIIRSYSRGAQGILLV 154
           G   Y+        T+++DG+    + L +W+  G+  +    C  +          L+V
Sbjct: 72  GEDTYE-------RTLMVDGESATIILLDMWENKGENEWLHDHCMQV------GDAYLIV 118
Query: 155 YDITNKWSFDGIDRWLKEVEE--HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA 212
           Y IT++ SF+       ++        +P +LVGN+  L   R V+  E    A+     
Sbjct: 119 YSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCK 178
Query: 213 FFEVSPLCDFNIRESFTELSRRA-LQRNGMER 243
           F E S     N++E F  + R+  L+R+  E+
Sbjct: 179 FIETSAAVQHNVKELFEGIVRQVRLRRDSKEK 210

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 34/133 (25%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++ P  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKLPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+GQ  +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGQEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 77/172 (44%), Gaps = 20/172 (11%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK ++VGD  VGK  +L   + +   P  ++    E+        +  ++ YK    +L 
Sbjct: 24  LKIVVVGDGAVGKTCLLLA-FSKGEIPTAYVPTVFEN--------FSHVMKYKNEEFIL- 73
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPG 179
                  LWDT+GQ  +  +       +  +LL + + N+ SFD I  +W  E++ +   
Sbjct: 74  ------HLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDT 127
Query: 180 VPKVLVGNRLHLAFNRT--VTTREAEMYAIK-NQMAFFEVSPLCDFNIRESF 228
              VLVG ++ L  + +  VT +E +    K   +A+ E S +    + E F
Sbjct: 128 AKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 34/133 (25%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 47
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+G   +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 48  GEPYTLGLFDTAGLEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 106
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 107 KTPFLLVGTQIDL 119

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 34/133 (25%), Positives = 65/133 (48%), Gaps = 19/133 (14%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP  ++              +D+       T+++ 
Sbjct: 8   IKCVVVGDGAVGKTCLLIS-YTTNKFPSEYV-----------PTVFDNY----AVTVMIG 51
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLV-YDITNKWSFDGI-DRWLKEVEEHAP 178
           G+   L L+DT+G   +   +R  S     + LV + + +  SF+ + ++W+ E+  H P
Sbjct: 52  GEPYTLGLFDTAGLEDY-DRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP 110
Query: 179 GVPKVLVGNRLHL 191
             P +LVG ++ L
Sbjct: 111 KTPFLLVGTQIDL 123

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 46.2 bits (108), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 36/145 (24%), Positives = 63/145 (43%), Gaps = 24/145 (16%)
Query: 48  KPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD 107
           +PVVA         K +LVGD   GK  +L  L  +  +P  ++    E+          
Sbjct: 6   QPVVAR-------CKLVLVGDVQCGKTAMLQVLAKDC-YPETYVPTVFEN---------- 47
Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD-GI 166
                 T  +  + +RV+L LWDTSG   +  +       +  +LL +DI+   + D  +
Sbjct: 48  -----YTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSAL 102
Query: 167 DRWLKEVEEHAPGVPKVLVGNRLHL 191
            +W  E+ ++ P    +L+G +  L
Sbjct: 103 KKWRTEILDYCPSTRVLLIGCKTDL 127

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 43/172 (25%), Positives = 77/172 (44%), Gaps = 20/172 (11%)
Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK ++VGD  VGK  +L   + +   P  ++    E+        +  ++ YK    +L 
Sbjct: 23  LKIVVVGDGAVGKTCLLLA-FSKGEIPTAYVPTVFEN--------FSHVMKYKNEEFIL- 72
Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPG 179
                  LWDT+GQ  +  +       +  +LL + + N+ SFD I  +W  E++ +   
Sbjct: 73  ------HLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDT 126
Query: 180 VPKVLVGNRLHLAFNRT--VTTREAEMYAIK-NQMAFFEVSPLCDFNIRESF 228
              VLVG ++ L  + +  VT +E +    K   +A+ E S +    + E F
Sbjct: 127 AKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 178

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 36/145 (24%), Positives = 63/145 (43%), Gaps = 24/145 (16%)
Query: 48  KPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD 107
           +PVVA         K +LVGD   GK  +L  L  +  +P  ++    E+          
Sbjct: 22  QPVVAR-------CKLVLVGDVQCGKTAMLQVLAKDC-YPETYVPTVFEN---------- 63
Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD-GI 166
                 T  +  + +RV+L LWDTSG   +  +       +  +LL +DI+   + D  +
Sbjct: 64  -----YTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSAL 118
Query: 167 DRWLKEVEEHAPGVPKVLVGNRLHL 191
            +W  E+ ++ P    +L+G +  L
Sbjct: 119 KKWRTEILDYCPSTRVLLIGCKTDL 143

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 36/145 (24%), Positives = 63/145 (43%), Gaps = 24/145 (16%)
Query: 48  KPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD 107
           +PVVA         K +LVGD   GK  +L  L  +  +P  ++    E+          
Sbjct: 5   QPVVAR-------CKLVLVGDVQCGKTAMLQVLAKDC-YPETYVPTVFEN---------- 46
Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD-GI 166
                 T  +  + +RV+L LWDTSG   +  +       +  +LL +DI+   + D  +
Sbjct: 47  -----YTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSAL 101
Query: 167 DRWLKEVEEHAPGVPKVLVGNRLHL 191
            +W  E+ ++ P    +L+G +  L
Sbjct: 102 KKWRTEILDYCPSTRVLLIGCKTDL 126

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 45.8 bits (107), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 45/194 (23%), Positives = 80/194 (41%), Gaps = 34/194 (17%)
Query: 62  KFLLVGDSDVGKQ---EILSGLYLESRFPRFWLDGSSESPFCSGSGKYDD--MLAYKTTT 116
           + +L+G+  VGK     I +G++          D         G   Y+   M+  ++ T
Sbjct: 8   RVVLIGEQGVGKSTLANIFAGVH----------DSMDSDXEVLGEDTYERTLMVDGESAT 57
Query: 117 ILLDGKRVKLQLWDTSGQGRF----CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
           I+L      L +W+  G+  +    C  +          L+VY IT++ SF+       +
Sbjct: 58  IIL------LDMWENKGENEWLHDHCMQV------GDAYLIVYSITDRASFEKASELRIQ 105
Query: 173 VEE--HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +        +P +LVGN+  L   R V+  E    A+     F E S     N++E F  
Sbjct: 106 LRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEG 165
Query: 231 LSRRA-LQRNGMER 243
           + R+  L+R+  E+
Sbjct: 166 IVRQVRLRRDSKEK 179

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 45.1 bits (105), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 44/190 (23%), Positives = 79/190 (41%), Gaps = 26/190 (13%)
Query: 62  KFLLVGDSDVGKQ---EILSGLYLESRFPRFWLDGSSESPFCSGSGKYDD--MLAYKTTT 116
           + +L+G+  VGK     I +G++          D         G   Y+   M+  ++ T
Sbjct: 8   RVVLIGEQGVGKSTLANIFAGVH----------DSMDSDXEVLGEDTYERTLMVDGESAT 57
Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE- 175
           I+L      L +W+  G+  +        +     L+VY IT++ SF+       ++   
Sbjct: 58  IIL------LDMWENKGENEWLH--DHXMQVGDAYLIVYSITDRASFEKASELRIQLRRA 109
Query: 176 -HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
                +P +LVGN+  L   R V+  E    A+     F E S     N++E F  + R+
Sbjct: 110 RQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIVRQ 169
Query: 235 A-LQRNGMER 243
             L+R+  E+
Sbjct: 170 VRLRRDSKEK 179

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 44.7 bits (104), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 47/186 (25%), Positives = 78/186 (41%), Gaps = 18/186 (9%)
Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D + K +L+G+S VGK   L+G +         L G +     +    Y+         I
Sbjct: 10  DGVFKVMLLGESGVGKS-TLAGTF-------GGLQGDNAHEMENSEDTYE-------RRI 54
Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYS-RGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           ++D + V L ++D   QG     ++ +  +     L+V+ +T++ SF  +   L  +   
Sbjct: 55  MVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAG 114
Query: 177 AP--GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
            P   +P +LVGN+  LA +R V+  E    A        E S     N RE F    R+
Sbjct: 115 RPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQ 174
Query: 235 ALQRNG 240
              R G
Sbjct: 175 IRLRRG 180

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 44/161 (27%), Positives = 72/161 (44%), Gaps = 16/161 (9%)
Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K  +VG++ VGK  ++S     S+  +F  D +      SG       +    TT+    
Sbjct: 22  KVAVVGEATVGKSALIS--MFTSKGSKFLKDYA----MTSGVEVVVAPVTIPDTTV---- 71
Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP 181
             V+L L DT+G   +   I  Y  G    +LV+D+++  SF+    W + ++   P   
Sbjct: 72  -SVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRE 130
Query: 182 K----VLVGNRLHLAFNR-TVTTREAEMYAIKNQMAFFEVS 217
           +    VLV N+  L   R  V    A+ +A  N + FF+VS
Sbjct: 131 RPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVS 171

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 44/172 (25%), Positives = 72/172 (41%), Gaps = 18/172 (10%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           + K +LVG+S VGK   L+G +         L G       +    Y+         I++
Sbjct: 2   VFKVMLVGESGVGKS-TLAGTF-------GGLQGDHAHEMENSEDTYE-------RRIMV 46
Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYS-RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP 178
           D + V L ++D   QG     ++ +  +     L+V+ +T++ SF  +   L  +    P
Sbjct: 47  DKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRP 106
Query: 179 --GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
              +P +LVGN+  LA +R V+  E    A        E S     N RE F
Sbjct: 107 HHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELF 158

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/128 (24%), Positives = 57/128 (44%), Gaps = 7/128 (5%)
Query: 116 TILLDGKR---VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
           T+++DG+    + L +W+  G+  +  +     +     L+VY IT++ SF+       +
Sbjct: 48  TLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQ 105
Query: 173 VEE--HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +        +P +LVGN+  L   R V+  E    A+     F E S     N++E F  
Sbjct: 106 LRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEG 165
Query: 231 LSRRALQR 238
           + R+   R
Sbjct: 166 IVRQVRLR 173

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 40/124 (32%), Positives = 61/124 (49%), Gaps = 10/124 (8%)
Query: 119 LDGKRVKLQLWDTSG--QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           +D + V L++ DT+     R C     Y   A   L+VY + ++ SFD    +L+ +  H
Sbjct: 64  VDHQPVHLRVMDTADLDTPRNC---ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALH 120
Query: 177 AP----GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDF-NIRESFTEL 231
           A      +P +L+GN+L +A  R VT  E    A +    FFEVS   DF +++  F E 
Sbjct: 121 AKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEA 180
Query: 232 SRRA 235
            R A
Sbjct: 181 VREA 184

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 42.0 bits (97), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 49/193 (25%), Positives = 80/193 (41%), Gaps = 34/193 (17%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGK-YDDMLAYKTTTIL 118
           + K LL+G   VGK          S   R +  G  + P    +G  YD        +I+
Sbjct: 7   VYKVLLLGAPGVGK----------SALARIF-GGVEDGPEAEAAGHTYD-------RSIV 48
Query: 119 LDGKRVKLQLWDTSGQ--GRF----CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
           +DG+   L ++D   Q  GR+    C  +          ++VY +T+K SF+       +
Sbjct: 49  VDGEEASLMVYDIWEQDGGRWLPGHCMAM------GDAYVIVYSVTDKGSFEKASELRVQ 102
Query: 173 VEE--HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +        VP +LVGN+  L  +R V+  E    A+     F E S     N++  F  
Sbjct: 103 LRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEG 162
Query: 231 LSRRA-LQRNGME 242
           + R+  L+R+  E
Sbjct: 163 VVRQIRLRRDSKE 175

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 45/183 (24%), Positives = 74/183 (40%), Gaps = 31/183 (16%)
Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           + K LL+G   VGK          S   R +  G  + P    +G   D       +I++
Sbjct: 2   VYKVLLLGAPGVGK----------SALARIF-GGVEDGPEAEAAGHTYD------RSIVV 44
Query: 120 DGKRVKLQLWDTSGQ--GRF----CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           DG+   L ++D   Q  GR+    C  +          ++VY +T+K SF+       ++
Sbjct: 45  DGEEASLMVYDIWEQDGGRWLPGHCMAM------GDAYVIVYSVTDKGSFEKASELRVQL 98
Query: 174 EE--HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
                   VP +LVGN+  L  +R V+  E    A+     F E S     N++  F  +
Sbjct: 99  RRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGV 158
Query: 232 SRR 234
            R+
Sbjct: 159 VRQ 161

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 33/120 (27%), Positives = 54/120 (45%), Gaps = 10/120 (8%)
Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSR-----GAQGILLVYDITNKWSFDGIDRWL 170
           T+ +DG+   L + DT    +   + +S+S+     G    ++VY I ++ SF+      
Sbjct: 44  TLTVDGEDTTLVVVDTWEAEK---LDKSWSQESCLQGGSAYVIVYSIADRGSFESASELR 100
Query: 171 KEVE--EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
            ++     A  VP +LVGN+  LA  R V+  E    A+     F E S     N+ E F
Sbjct: 101 IQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF 160

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	432
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	9e-62
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	9e-04
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-61
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-04
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	8e-61
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-04
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	2e-60
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	8e-05
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	3e-60
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	4e-05
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	3e-60
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-04
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-59
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	6e-05
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	3e-59
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	3e-04
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	4e-59
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	2e-04
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	5e-59
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-04
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	5e-59
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-04
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	8e-59
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-04
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	9e-59
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	3e-04
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-58
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	6e-04
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-58
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-04
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-58
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	6e-04
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	2e-58
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	7e-04
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	2e-58
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	6e-04
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	3e-58
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	3e-04
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	3e-58
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	7e-05
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	4e-58
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	4e-04
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	8e-58
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	2e-04
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-57
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-04
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-57
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	4e-57
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-04
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	5e-57
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-04
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	7e-57
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	8e-57
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-56
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	6e-56
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	9e-05
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	6e-55
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	8e-55
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	7e-04
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-54
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	7e-04
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-54
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	4e-54
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-04
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	5e-54
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	7e-54
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-53
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	3e-53
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	4e-53
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-52
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	7e-04
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	7e-51
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	6e-46
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	1e-43
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	2e-42
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	8e-42
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	9e-42
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-41
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-40
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	3e-40
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	4e-40
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	9e-40
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	2e-39
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	4e-39
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	6e-39
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-38
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	2e-38
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	5e-38
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	6e-38
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	2e-37
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-37
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	3e-37
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	4e-37
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-36
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	8e-36
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	3e-35
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	3e-35
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	1e-34
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-33
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	7e-32
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	9e-31
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	6e-27
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-26
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-26
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	1e-25
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	2e-25
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	2e-24
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	8e-24
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	9e-24
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-23
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-23
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	1e-22
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-22
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	2e-17
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	1e-15
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	7e-10
2izv_A	187	Suppressor of cytokine signaling 4; signal transdu	2e-05
3llu_A	196	RAS-related GTP-binding protein C; structural geno	9e-05
2c9w_A	169	Suppressor of cytokine signaling 2; growth regulat	3e-04

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  196 bits (501), Expect = 9e-62
 Identities = 53/190 (27%), Positives = 90/190 (47%), Gaps = 31/190 (16%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT- 115
            +  +K ++VG+  VGK  ++       R+ +               G +     YK T 
Sbjct: 2   SEVAIKMVVVGNGAVGKSSMIQ------RYCK---------------GIFTK--DYKKTI 38

Query: 116 -------TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR 168
                   I ++ + V+L LWDT+GQ  F  I ++Y RGAQ  +LV+  T++ SF+ I  
Sbjct: 39  GVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISS 98

Query: 169 WLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
           W ++V      +P  LV N++ L  +  +   EAE  A + ++ F+  S   D N+ E F
Sbjct: 99  WREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVF 158

Query: 229 TELSRRALQR 238
             L+ + LQ+
Sbjct: 159 KYLAEKHLQK 168

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score = 39.0 bits (92), Expect = 9e-04
 Identities = 7/24 (29%), Positives = 14/24 (58%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGY 36
           +  +K ++VG+  VGK  ++  Y
Sbjct: 2  SEVAIKMVVVGNGAVGKSSMIQRY 25

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  196 bits (500), Expect = 2e-61
 Identities = 62/184 (33%), Positives = 102/184 (55%), Gaps = 15/184 (8%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + YD+L K L++GDS VGK  +L          RF  D +    + +  G     + +K 
Sbjct: 4   RDYDHLFKLLIIGDSGVGKSSLLL---------RF-ADNTFSGSYITTIG-----VDFKI 48

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+ ++G++VKLQ+WDT+GQ RF TI  +Y RG  G+++VYD+T+  SF  + RWL E+ 
Sbjct: 49  RTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEIN 108

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           ++   V ++LVGN+      + V T +A  +A +  +  FE S   + N+ E F  ++  
Sbjct: 109 QNCDDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITEL 168

Query: 235 ALQR 238
            L+ 
Sbjct: 169 VLRA 172

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 41.8 bits (99), Expect = 1e-04
 Identities = 12/26 (46%), Positives = 18/26 (69%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILSGY 36
          + YD+L K L++GDS VGK  +L  +
Sbjct: 4  RDYDHLFKLLIIGDSGVGKSSLLLRF 29

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  194 bits (496), Expect = 8e-61
 Identities = 65/192 (33%), Positives = 99/192 (51%), Gaps = 23/192 (11%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY----D 107
           +    YD   K +LVGDS VGK  +L          RF      +  F +G+       D
Sbjct: 2   SGVDFYDVAFKVMLVGDSGVGKTCLLV---------RF-----KDGAFLAGTFISTVGID 47

Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
               ++   + +DG +VKLQ+WDT+GQ RF ++  +Y R A  +LL+YD+TNK SFD I 
Sbjct: 48  ----FRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQ 103

Query: 168 RWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE 226
            WL E+ E+A   V  +L+GN++  A  R V   + E  A +  + F E S     N+  
Sbjct: 104 AWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDL 163

Query: 227 SFTELSRRALQR 238
           +FT +++   +R
Sbjct: 164 AFTAIAKELKRR 175

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score = 41.8 bits (99), Expect = 1e-04
 Identities = 13/30 (43%), Positives = 17/30 (56%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGYK 37
          +    YD   K +LVGDS VGK  +L  +K
Sbjct: 2  SGVDFYDVAFKVMLVGDSGVGKTCLLVRFK 31

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  193 bits (494), Expect = 2e-60
 Identities = 61/188 (32%), Positives = 91/188 (48%), Gaps = 16/188 (8%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
              +  DY+ K LL+G+S VGK   L          R+  D S    F S  G     + 
Sbjct: 14  LVPRGSDYMFKLLLIGNSSVGKTSFLF---------RY-ADDSFTPAFVSTVG-----ID 58

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           +K  T+    KR+KLQ+WDT+GQ R+ TI  +Y RGA G LL+YDI N+ SF  +  W  
Sbjct: 59  FKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWAT 118

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +++ ++      +LVGN+  L   R V   +    A      FFE S   + N+++ F  
Sbjct: 119 QIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFER 178

Query: 231 LSRRALQR 238
           L     ++
Sbjct: 179 LVDVICEK 186

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score = 42.2 bits (100), Expect = 8e-05
 Identities = 12/29 (41%), Positives = 16/29 (55%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
             +  DY+ K LL+G+S VGK   L  Y
Sbjct: 14 LVPRGSDYMFKLLLIGNSSVGKTSFLFRY 42

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  194 bits (494), Expect = 3e-60
 Identities = 74/197 (37%), Positives = 111/197 (56%), Gaps = 16/197 (8%)

Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSG 104
            + +P+ +   +YDYL K LL+GDS VGK  +L          RF  D +    + S  G
Sbjct: 18  FQGRPMSSMNPEYDYLFKLLLIGDSGVGKSCLLL---------RF-ADDTYTESYISTIG 67

Query: 105 KYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD 164
                + +K  TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+
Sbjct: 68  -----VDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 122

Query: 165 GIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFN 223
            + +WL+E++ +A   V K+LVGN+  L   + V    A+ +A    + F E S     N
Sbjct: 123 NVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATN 182

Query: 224 IRESFTELSRRALQRNG 240
           + +SF  ++    +R G
Sbjct: 183 VEQSFMTMAAEIKKRMG 199

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score = 43.4 bits (103), Expect = 4e-05
 Identities = 15/36 (41%), Positives = 23/36 (63%)

Query: 1  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
           + +P+ +   +YDYL K LL+GDS VGK  +L  +
Sbjct: 18 FQGRPMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRF 53

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  193 bits (492), Expect = 3e-60
 Identities = 78/185 (42%), Positives = 106/185 (57%), Gaps = 16/185 (8%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYL K LL+GDS VGK  +L          RF  + +  S F S  G     + +K 
Sbjct: 3   KTYDYLFKLLLIGDSGVGKTCVLF---------RF-SEDAFNSTFISTIG-----IDFKI 47

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            TI LDGKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDITN+ SFD I  W++ +E
Sbjct: 48  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIE 107

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EHA   V K+++GN+  +   R V+    E  A+   + F E S   + N+  +F  L+R
Sbjct: 108 EHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLAR 167

Query: 234 RALQR 238
               +
Sbjct: 168 DIKAK 172

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score = 41.8 bits (99), Expect = 1e-04
 Identities = 15/27 (55%), Positives = 18/27 (66%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILSGYK 37
          K YDYL K LL+GDS VGK  +L  + 
Sbjct: 3  KTYDYLFKLLLIGDSGVGKTCVLFRFS 29

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  191 bits (487), Expect = 2e-59
 Identities = 61/193 (31%), Positives = 100/193 (51%), Gaps = 16/193 (8%)

Query: 47  TKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY 106
            +  +  Q  +DY+ K L++G+S VGK   L          R+  D +    F S  G  
Sbjct: 10  GRENLYFQGNFDYMFKLLIIGNSSVGKTSFLF---------RY-ADDTFTPAFVSTVG-- 57

Query: 107 DDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI 166
              + +K  T+    KRVKLQ+WDT+GQ R+ TI  +Y RGA G +L+YDITN+ SF+ +
Sbjct: 58  ---IDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAV 114

Query: 167 DRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR 225
             W  +++ ++      +LVGN+  +   R V T + ++ A +    FFE S   + ++R
Sbjct: 115 QDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVR 174

Query: 226 ESFTELSRRALQR 238
           ++F  L      +
Sbjct: 175 QAFERLVDAICDK 187

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score = 42.6 bits (101), Expect = 6e-05
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 3  TKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
           +  +  Q  +DY+ K L++G+S VGK   L  Y
Sbjct: 10 GRENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRY 43

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  190 bits (486), Expect = 3e-59
 Identities = 66/189 (34%), Positives = 103/189 (54%), Gaps = 24/189 (12%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYDDML 110
           + YD+L KFL++G++  GK  +L          +F      E  F   S    G     +
Sbjct: 5   ETYDFLFKFLVIGNAGTGKSCLLH---------QF-----IEKKFKDDSNHTIG-----V 45

Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
            + +  I + GK VKLQ+WDT+GQ RF ++ RSY RGA G LLVYDIT++ +++ +  WL
Sbjct: 46  EFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWL 105

Query: 171 KEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFT 229
            +    A   +  +L GN+  L  +R VT  EA  +A +N++ F E S L   N+ E+F 
Sbjct: 106 TDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFV 165

Query: 230 ELSRRALQR 238
           + +R+ L +
Sbjct: 166 QCARKILNK 174

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score = 40.6 bits (96), Expect = 3e-04
 Identities = 10/24 (41%), Positives = 17/24 (70%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILS 34
          + YD+L KFL++G++  GK  +L 
Sbjct: 5  ETYDFLFKFLVIGNAGTGKSCLLH 28

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  191 bits (487), Expect = 4e-59
 Identities = 75/201 (37%), Positives = 114/201 (56%), Gaps = 16/201 (7%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
            +YDYL K LL+G+S VGK  +L          RF  D +  + + S  G     + +K 
Sbjct: 3   SEYDYLFKLLLIGNSGVGKSCLLL---------RF-SDDTYTNDYISTIG-----VDFKI 47

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+ LDGK VKLQ+WDT+GQ RF TI  SY RG+ GI++VYD+T++ SF+G+  WL+E++
Sbjct: 48  KTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEID 107

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
            +A   V K+LVGN+  L   R V    A+ +A  N+M F E S L   N+ ++F  ++R
Sbjct: 108 RYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMAR 167

Query: 234 RALQRNGMERLWRSNKVGRKP 254
           +  +    + L  + +     
Sbjct: 168 QIKESMSQQNLNETTQKKEDK 188

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILSGY 36
           +YDYL K LL+G+S VGK  +L  +
Sbjct: 3  SEYDYLFKLLLIGNSGVGKSCLLLRF 28

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  190 bits (486), Expect = 5e-59
 Identities = 62/188 (32%), Positives = 103/188 (54%), Gaps = 16/188 (8%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
            + + YD+L K +L+G++ VGK  ++          RF   G       +  G     + 
Sbjct: 18  GSMEDYDFLFKIVLIGNAGVGKTCLVR---------RF-TQGLFPPGQGATIG-----VD 62

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           +   T+ ++G++VKLQ+WDT+GQ RF +I +SY R A  ++L YDIT + SF  +  WL+
Sbjct: 63  FMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLR 122

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           E+E++A   V  VLVGN++ LA  R V+ + AE ++    M + E S     N+ + F +
Sbjct: 123 EIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLD 182

Query: 231 LSRRALQR 238
           L+ R +  
Sbjct: 183 LACRLISE 190

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 9/29 (31%), Positives = 19/29 (65%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
           + + YD+L K +L+G++ VGK  ++  +
Sbjct: 18 GSMEDYDFLFKIVLIGNAGVGKTCLVRRF 46

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  190 bits (486), Expect = 5e-59
 Identities = 59/186 (31%), Positives = 95/186 (51%), Gaps = 16/186 (8%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
              +DY+ K L++G+S VGK   L          R+  D S    F S  G     + +K
Sbjct: 2   SHMFDYMFKILIIGNSSVGKTSFLF---------RY-ADDSFTPAFVSTVG-----IDFK 46

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
             TI  + KR+KLQ+WDT+G  R+ TI  +Y RGA G +L+YDITN+ SF+ +  W  ++
Sbjct: 47  VKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 106

Query: 174 EEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
           + ++      +LVGN+  +   R V++      A      FFE S   + N++++F  L 
Sbjct: 107 KTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 166

Query: 233 RRALQR 238
               ++
Sbjct: 167 DVICEK 172

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 10 QKQYDYLLKFLLVGDSDVGKQEILSGY 36
             +DY+ K L++G+S VGK   L  Y
Sbjct: 2  SHMFDYMFKILIIGNSSVGKTSFLFRY 28

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  190 bits (484), Expect = 8e-59
 Identities = 72/188 (38%), Positives = 106/188 (56%), Gaps = 16/188 (8%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           +   +YDYL K LL+GDS VGK  +L          RF  D +    + S  G     + 
Sbjct: 8   SMNPEYDYLFKLLLIGDSGVGKSCLLL---------RF-ADDTYTESYISTIG-----VD 52

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           +K  TI LDGK +KLQ+WDT+GQ RF TI  SY RGA GI++VYD+T++ SF+ + +WL+
Sbjct: 53  FKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQ 112

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           E++ +A   V K+LVGN+  L   + V    A+ +A    + F E S     N+ +SF  
Sbjct: 113 EIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMT 172

Query: 231 LSRRALQR 238
           ++    +R
Sbjct: 173 MAAEIKKR 180

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 14/29 (48%), Positives = 19/29 (65%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
          +   +YDYL K LL+GDS VGK  +L  +
Sbjct: 8  SMNPEYDYLFKLLLIGDSGVGKSCLLLRF 36

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  189 bits (482), Expect = 9e-59
 Identities = 60/191 (31%), Positives = 98/191 (51%), Gaps = 24/191 (12%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYD 107
                Y Y+ K++++GD  VGK  +L          +F     +E  F +      G   
Sbjct: 7   TAPYNYSYIFKYIIIGDMGVGKSCLLH---------QF-----TEKKFMADCPHTIG--- 49

Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
             + + T  I + G+++KLQ+WDT+GQ RF  + RSY RGA G L+VYDIT + +++ + 
Sbjct: 50  --VEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLS 107

Query: 168 RWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE 226
            WL +      P    +L+GN+  L   R VT  EA+ +A +N + F E S     N+ +
Sbjct: 108 SWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVED 167

Query: 227 SFTELSRRALQ 237
           +F E +++  Q
Sbjct: 168 AFLEAAKKIYQ 178

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score = 40.3 bits (95), Expect = 3e-04
 Identities = 9/27 (33%), Positives = 15/27 (55%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILS 34
               Y Y+ K++++GD  VGK  +L 
Sbjct: 7  TAPYNYSYIFKYIIIGDMGVGKSCLLH 33

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  189 bits (483), Expect = 1e-58
 Identities = 61/185 (32%), Positives = 97/185 (52%), Gaps = 16/185 (8%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + Y+++ K +L+G+S VGK  +LS         RF           +  G     + + T
Sbjct: 20  EDYNFVFKVVLIGESGVGKTNLLS---------RF-TRNEFSHDSRTTIG-----VEFST 64

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T++L    VK Q+WDT+G  R+  I  +Y RGA G LLV+D+T   ++  ++RWLKE+ 
Sbjct: 65  RTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELY 124

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           +HA   +  +LVGN+  L+  R V T EA M+A  N + F E S L   N+  +F  + +
Sbjct: 125 DHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLK 184

Query: 234 RALQR 238
               +
Sbjct: 185 EIFAK 189

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score = 39.9 bits (94), Expect = 6e-04
 Identities = 10/24 (41%), Positives = 18/24 (75%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILS 34
          + Y+++ K +L+G+S VGK  +LS
Sbjct: 20 EDYNFVFKVVLIGESGVGKTNLLS 43

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  189 bits (483), Expect = 1e-58
 Identities = 69/195 (35%), Positives = 103/195 (52%), Gaps = 24/195 (12%)

Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS- 103
           +  + +     +YDYL K +L+GDS VGK  +LS         RF     + + F   S 
Sbjct: 14  LPGRAMGTRDDEYDYLFKVVLIGDSGVGKSNLLS---------RF-----TRNEFNLESK 59

Query: 104 ---GKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK 160
              G     + + T +I +DGK +K Q+WDT+G  R+  I  +Y RGA G LLVYDI   
Sbjct: 60  STIG-----VEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKH 114

Query: 161 WSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL 219
            +++ ++RWLKE+ +HA   +  +LVGN+  L   R V T EA  +A KN ++F E S L
Sbjct: 115 LTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSAL 174

Query: 220 CDFNIRESFTELSRR 234
              N+  +F  +   
Sbjct: 175 DSTNVEAAFQTILTE 189

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 14/34 (41%), Positives = 21/34 (61%)

Query: 1  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILS 34
          +  + +     +YDYL K +L+GDS VGK  +LS
Sbjct: 14 LPGRAMGTRDDEYDYLFKVVLIGDSGVGKSNLLS 47

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  189 bits (483), Expect = 1e-58
 Identities = 73/206 (35%), Positives = 107/206 (51%), Gaps = 24/206 (11%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYDDMLAY 112
           YDYL K +L+GDS VGK  +LS         RF     + + F   S    G     + +
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLS---------RF-----TRNEFNLESKSTIG-----VEF 42

Query: 113 KTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
            T +I +DGK +K Q+WDT+GQ R+  I  +Y RGA G LLVYDI    +++ ++RWLKE
Sbjct: 43  ATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKE 102

Query: 173 VEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           + +HA   +  +LVGN+  L   R V T EA  +A KN ++F E S L   N+ E+F  +
Sbjct: 103 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI 162

Query: 232 SRRALQRNGMERLWRSNKVGRKPLIN 257
                +    +++         P  N
Sbjct: 163 LTEIYRIVSQKQIADRAAHDESPGNN 188

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score = 40.0 bits (94), Expect = 6e-04
 Identities = 14/22 (63%), Positives = 17/22 (77%)

Query: 13 YDYLLKFLLVGDSDVGKQEILS 34
          YDYL K +L+GDS VGK  +LS
Sbjct: 2  YDYLFKVVLIGDSGVGKSNLLS 23

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  188 bits (481), Expect = 2e-58
 Identities = 65/187 (34%), Positives = 100/187 (53%), Gaps = 24/187 (12%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYDDMLAY 112
            D+L KFL++G +  GK  +L          +F      E+ F   S    G     + +
Sbjct: 22  SDFLFKFLVIGSAGTGKSCLLH---------QF-----IENKFKQDSNHTIG-----VEF 62

Query: 113 KTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
            +  + + GK VKLQ+WDT+GQ RF ++ RSY RGA G LLVYDIT++ +++ +  WL +
Sbjct: 63  GSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTD 122

Query: 173 VEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
               A P +  +L GN+  L   R VT  EA  +A +N++ F E S L   N+ E+F + 
Sbjct: 123 ARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKC 182

Query: 232 SRRALQR 238
           +R  L +
Sbjct: 183 ARTILNK 189

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score = 39.9 bits (94), Expect = 7e-04
 Identities = 9/22 (40%), Positives = 14/22 (63%)

Query: 13 YDYLLKFLLVGDSDVGKQEILS 34
           D+L KFL++G +  GK  +L 
Sbjct: 22 SDFLFKFLVIGSAGTGKSCLLH 43

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  189 bits (483), Expect = 2e-58
 Identities = 70/192 (36%), Positives = 104/192 (54%), Gaps = 24/192 (12%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYD 107
                YD L K +L+GDS VGK  +LS         RF     +++ F   S    G   
Sbjct: 5   DYGYDYDLLFKIVLIGDSGVGKSNLLS---------RF-----TKNEFNMDSKSTIG--- 47

Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
             + + T T+ ++GKR+K Q+WDT+GQ R+  I  +Y RGA G L+VYDI+   S++  +
Sbjct: 48  --VEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCN 105

Query: 168 RWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE 226
            WL E+ E+A   V   L+GN+  LA  R V T E++ +A +NQ+ F E S L   N+ +
Sbjct: 106 HWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDK 165

Query: 227 SFTELSRRALQR 238
           +F EL     Q+
Sbjct: 166 AFEELINTIYQK 177

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score = 40.1 bits (94), Expect = 6e-04
 Identities = 13/27 (48%), Positives = 16/27 (59%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILS 34
               YD L K +L+GDS VGK  +LS
Sbjct: 5  DYGYDYDLLFKIVLIGDSGVGKSNLLS 31

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  188 bits (480), Expect = 3e-58
 Identities = 58/192 (30%), Positives = 99/192 (51%), Gaps = 24/192 (12%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYD 107
               +  YL K++++GD+ VGK  +L          +F     ++  F        G   
Sbjct: 13  GLVPRGSYLFKYIIIGDTGVGKSCLLL---------QF-----TDKRFQPVHDLTIG--- 55

Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
             + +    + +DGK++KLQ+WDT+GQ  F +I RSY RGA G LLVYDIT + +F+ + 
Sbjct: 56  --VEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLT 113

Query: 168 RWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE 226
            WL++  +H+   +  +L+GN+  L   R V   E E +A ++ + F E S     N+ E
Sbjct: 114 SWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEE 173

Query: 227 SFTELSRRALQR 238
           +F   ++   ++
Sbjct: 174 AFINTAKEIYRK 185

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score = 40.7 bits (96), Expect = 3e-04
 Identities = 9/27 (33%), Positives = 16/27 (59%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILS 34
              +  YL K++++GD+ VGK  +L 
Sbjct: 13 GLVPRGSYLFKYIIIGDTGVGKSCLLL 39

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  188 bits (480), Expect = 3e-58
 Identities = 62/189 (32%), Positives = 105/189 (55%), Gaps = 17/189 (8%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
            + +  D+ L+ +++G   VGK  ++          RF  D +      S  G     + 
Sbjct: 18  GSPRPADFKLQVIIIGSRGVGKTSLME---------RF-TDDTFCEACKSTVG-----VD 62

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           +K  T+ L GK+++LQ+WDT+GQ RF +I  +Y R A+GI+LVYDIT K +FD + +W+K
Sbjct: 63  FKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMK 122

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFT 229
            ++++A      +LVGN+L    +R +T ++ E +A +   M F E S   +FN+ E F 
Sbjct: 123 MIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFL 182

Query: 230 ELSRRALQR 238
           +L    L++
Sbjct: 183 KLVDDILKK 191

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score = 42.6 bits (101), Expect = 7e-05
 Identities = 6/29 (20%), Positives = 16/29 (55%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
           + +  D+ L+ +++G   VGK  ++  +
Sbjct: 18 GSPRPADFKLQVIIIGSRGVGKTSLMERF 46

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  188 bits (479), Expect = 4e-58
 Identities = 65/188 (34%), Positives = 102/188 (54%), Gaps = 17/188 (9%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           +QYD+L K +LVGD+ VGK  ++          RF   G+      S  G     + +  
Sbjct: 24  EQYDFLFKLVLVGDASVGKTCVVQ---------RF-KTGAFSERQGSTIG-----VDFTM 68

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+ + GKRVKLQ+WDT+GQ RF TI +SY R A G +L YDIT + SF  +  W+++V 
Sbjct: 69  KTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVR 128

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-MAFFEVSPLCDFNIRESFTELS 232
           ++A   + ++L+GN+  L+  R V+  EA+  A     +   E S     N+ E+F  ++
Sbjct: 129 KYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVA 188

Query: 233 RRALQRNG 240
              + R+G
Sbjct: 189 TELIMRHG 196

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score = 40.3 bits (95), Expect = 4e-04
 Identities = 12/26 (46%), Positives = 19/26 (73%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILSGY 36
          +QYD+L K +LVGD+ VGK  ++  +
Sbjct: 24 EQYDFLFKLVLVGDASVGKTCVVQRF 49

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  187 bits (477), Expect = 8e-58
 Identities = 69/205 (33%), Positives = 103/205 (50%), Gaps = 21/205 (10%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
              +     LK L++G+S VGK  +L          RF  D + +    +  G     + 
Sbjct: 7   GMDEDVLTTLKILIIGESGVGKSSLLL---------RF-TDDTFDPELAATIG-----VD 51

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           +K  TI +DG + KL +WDT+GQ RF T+  SY RGAQG++LVYD+T + +F  +D WL 
Sbjct: 52  FKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLN 111

Query: 172 EVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFT 229
           E+E +     +  +LVGN++    NR V   E   +A K+ M F E S      ++ +F 
Sbjct: 112 ELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFE 170

Query: 230 ELSRRALQRNGMERLWRSNKVGRKP 254
           EL  + +Q  G   LW S      P
Sbjct: 171 ELVEKIIQTPG---LWESENQNSGP 192

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
             +     LK L++G+S VGK  +L  +
Sbjct: 7  GMDEDVLTTLKILIIGESGVGKSSLLLRF 35

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  187 bits (478), Expect = 1e-57
 Identities = 43/192 (22%), Positives = 81/192 (42%), Gaps = 15/192 (7%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
            + ++ +   K  L+GD  VGK   ++         R  LDG  E  + +  G  +    
Sbjct: 3   GSMERRELTYKICLIGDGGVGKTTYIN---------RV-LDGRFEKNYNATVGAVN---- 48

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           +  T +   G  +K  +WDT+GQ +   +   Y  GA G +L +D+T++ +   + RW+K
Sbjct: 49  HPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVK 108

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           E +       P V+  N++ +   + ++ +            +FE+S     N    F  
Sbjct: 109 EFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLH 168

Query: 231 LSRRALQRNGME 242
           L+R    R  + 
Sbjct: 169 LARIFTGRPDLI 180

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score = 41.1 bits (97), Expect = 2e-04
 Identities = 7/22 (31%), Positives = 12/22 (54%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGK 29
           + ++ +   K  L+GD  VGK
Sbjct: 3  GSMERRELTYKICLIGDGGVGK 24

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  185 bits (473), Expect = 1e-57
 Identities = 69/182 (37%), Positives = 101/182 (55%), Gaps = 17/182 (9%)

Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           D ++K LL+GDS VGK  +L          RF ++      F +  G     + +K  T+
Sbjct: 1   DSIMKILLIGDSGVGKSCLLV---------RF-VEDKFNPSFITTIG-----IDFKIKTV 45

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            ++GK+VKLQ+WDT+GQ RF TI  +Y RGA GI+LVYDIT++ +F  I +W K V EHA
Sbjct: 46  DINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHA 105

Query: 178 -PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRAL 236
                 +LVGN+  +   R VT  + E  A +  + F E S   D N+ E F  L++   
Sbjct: 106 NDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQ 164

Query: 237 QR 238
           ++
Sbjct: 165 EK 166

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  185 bits (471), Expect = 4e-57
 Identities = 53/192 (27%), Positives = 95/192 (49%), Gaps = 21/192 (10%)

Query: 49  PVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDD 108
             +  +     + K +++GDS+VGK  +           RF   G       +  G    
Sbjct: 9   GSLVPRGSRSRIFKIIVIGDSNVGKTCLTY---------RF-CAGRFPDRTEATIG---- 54

Query: 109 MLAYKTTTILLDGKRVKLQLWDTSGQGRF-CTIIRSYSRGAQGILLVYDITNKWSFDGID 167
            + ++   + +DG+R+K+QLWDT+GQ RF  ++++ Y R    ++ VYD+TN  SF  + 
Sbjct: 55  -VDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLP 113

Query: 168 RWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS---PLCDF 222
            W++E ++H     +P++LVGN+  L     V T  A+ +A  + M  FE S   P  + 
Sbjct: 114 AWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDND 173

Query: 223 NIRESFTELSRR 234
           ++   F  L+ +
Sbjct: 174 HVEAIFMTLAHK 185

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score = 41.4 bits (98), Expect = 2e-04
 Identities = 7/30 (23%), Positives = 15/30 (50%)

Query: 5  PVVATQKQYDYLLKFLLVGDSDVGKQEILS 34
            +  +     + K +++GDS+VGK  +  
Sbjct: 9  GSLVPRGSRSRIFKIIVIGDSNVGKTCLTY 38

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  186 bits (473), Expect = 5e-57
 Identities = 71/188 (37%), Positives = 103/188 (54%), Gaps = 17/188 (9%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
              K YD ++K LL+GDS VGK  +L          RF ++      F +  G     + 
Sbjct: 12  GNGKSYDSIMKILLIGDSGVGKSCLLV---------RF-VEDKFNPSFITTIG-----ID 56

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           +K  T+ ++GK+VKLQLWDT+GQ RF TI  +Y RGA GI+LVYD+T++ +F  I +W K
Sbjct: 57  FKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFK 116

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
            V EHA      +LVGN+  +   R VT  + E  A +  + F E S   D N+ E F  
Sbjct: 117 TVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFT 175

Query: 231 LSRRALQR 238
           L++   ++
Sbjct: 176 LAKLIQEK 183

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 13/29 (44%), Positives = 18/29 (62%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
             K YD ++K LL+GDS VGK  +L  +
Sbjct: 12 GNGKSYDSIMKILLIGDSGVGKSCLLVRF 40

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  184 bits (469), Expect = 7e-57
 Identities = 55/186 (29%), Positives = 89/186 (47%), Gaps = 24/186 (12%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYDDMLAY 112
             Y  K +L+G+  VGK  ++          R+      E+ F        G      ++
Sbjct: 3   RAYSFKVVLLGEGCVGKTSLVL---------RY-----CENKFNDKHITTLG-----ASF 43

Query: 113 KTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
            T  + + GKRV L +WDT+GQ RF  +   Y R + G +LVYDIT++ SF  +  W+KE
Sbjct: 44  LTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKE 103

Query: 173 VEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           + +     +   +VGN++ L   R V+ +EAE YA       +  S   +  I E F +L
Sbjct: 104 LRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 163

Query: 232 SRRALQ 237
            +R ++
Sbjct: 164 CKRMIE 169

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  184 bits (469), Expect = 8e-57
 Identities = 52/192 (27%), Positives = 92/192 (47%), Gaps = 32/192 (16%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           A         K +L+GD   GK  ++       RF +                ++ +   
Sbjct: 4   AAAGNKSINAKLVLLGDVGAGKSSLVL------RFVK---------------DQFVEF-- 40

Query: 112 YKTT--------TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSF 163
            ++T        T+ ++   VK ++WDT+GQ R+ ++   Y RGA   ++V+D+TN+ SF
Sbjct: 41  QESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASF 100

Query: 164 DGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDF 222
           +   +W++E++    P +   L GN+  L   R VT  +A+ YA +N + F E S     
Sbjct: 101 ERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTAT 160

Query: 223 NIRESFTELSRR 234
           N++E F E++RR
Sbjct: 161 NVKEIFYEIARR 172

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  184 bits (469), Expect = 1e-56
 Identities = 60/194 (30%), Positives = 86/194 (44%), Gaps = 22/194 (11%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           A         K +L GD+ VGK   L          R            +  G     + 
Sbjct: 20  AKSFSSQKAYKIVLAGDAAVGKSSFLM---------RL-CKNEFRENISATLG-----VD 64

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           ++  T+++DG+R  LQLWDT+GQ RF +I +SY R A G+LL+YD+T + SF  I  W+ 
Sbjct: 65  FQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVD 124

Query: 172 EVEEHA-PGVPKVLVGN------RLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNI 224
            +E+ A   VP +LVGN             + V     E  A+     F E S     NI
Sbjct: 125 MIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNI 184

Query: 225 RESFTELSRRALQR 238
            E+   L+R   +R
Sbjct: 185 VEAVLHLAREVKKR 198

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  182 bits (464), Expect = 6e-56
 Identities = 64/202 (31%), Positives = 97/202 (48%), Gaps = 19/202 (9%)

Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSG-----KYD 107
           +   YDYL+KFL +GDS VGK  +L          ++  DG   S F +  G     K  
Sbjct: 4   SDGDYDYLIKFLALGDSGVGKTSVLY---------QY-TDGKFNSKFITTVGIDFREKRV 53

Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
              A      +  G+R+ LQLWDT+G  RF ++  ++ R A G LL++D+TN+ SF  + 
Sbjct: 54  VYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVR 113

Query: 168 RWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR 225
            W+ +++ HA       VL GN+  L   R V   EA   A K  + +FE S     NI 
Sbjct: 114 NWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNIS 173

Query: 226 ESFTELSRRALQR--NGMERLW 245
            +   L    ++R    +++ W
Sbjct: 174 HAIEMLLDLIMKRMERSVDKSW 195

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score = 42.2 bits (100), Expect = 9e-05
 Identities = 15/28 (53%), Positives = 19/28 (67%)

Query: 9  TQKQYDYLLKFLLVGDSDVGKQEILSGY 36
          +   YDYL+KFL +GDS VGK  +L  Y
Sbjct: 4  SDGDYDYLIKFLALGDSGVGKTSVLYQY 31

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  180 bits (459), Expect = 6e-55
 Identities = 54/204 (26%), Positives = 93/204 (45%), Gaps = 16/204 (7%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
                     K + +G+  VGK  +++      RF     D + ++      G     + 
Sbjct: 8   GDFGNPLRKFKLVFLGEQSVGKTSLIT------RFMYDSFDNTYQATI----G-----ID 52

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           + + T+ L+ + V+LQLWDT+G  RF ++I SY R +   ++VYDITN  SF    +W+ 
Sbjct: 53  FLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWID 112

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +V       V  +LVGN+  LA  R V+  E E  A +  + F E S    +N+++ F  
Sbjct: 113 DVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRR 172

Query: 231 LSRRALQRNGMERLWRSNKVGRKP 254
           ++         +   R + +  K 
Sbjct: 173 VAAALPGMESTQDRSREDMIDIKL 196

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  178 bits (455), Expect = 8e-55
 Identities = 52/196 (26%), Positives = 85/196 (43%), Gaps = 38/196 (19%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT- 115
              L K +L+GD  VGK  +++      R+                  K+D       T 
Sbjct: 4   KSSLFKVILLGDGGVGKSSLMN------RYVT---------------NKFDT--QLFHTI 40

Query: 116 -------TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR 168
                   + +DG  V +Q+WDT+GQ RF ++   + RG+   LL + + +  SF  +  
Sbjct: 41  GVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSN 100

Query: 169 WLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDF 222
           W KE   +A        P V++GN++ ++  R V+T EA+ +   N    +FE S     
Sbjct: 101 WKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDAT 159

Query: 223 NIRESFTELSRRALQR 238
           N+  +F E  RR L  
Sbjct: 160 NVAAAFEEAVRRVLAT 175

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score = 39.4 bits (93), Expect = 7e-04
 Identities = 9/24 (37%), Positives = 14/24 (58%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGY 36
             L K +L+GD  VGK  +++ Y
Sbjct: 4  KSSLFKVILLGDGGVGKSSLMNRY 27

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  180 bits (458), Expect = 1e-54
 Identities = 39/191 (20%), Positives = 85/191 (44%), Gaps = 17/191 (8%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
           A Q +     K +LVGD   GK   +          R  L G  E  + +  G     + 
Sbjct: 7   AAQGEPQVQFKLVLVGDGGTGKTTFVK---------RH-LTGEFEKKYVATLG-----VE 51

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
                   +   +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W +
Sbjct: 52  VHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHR 111

Query: 172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++      +P VL GN++ +   +     ++ ++  K  + ++++S   ++N  + F  L
Sbjct: 112 DLVRVCENIPIVLCGNKVDIKDRKVKA--KSIVFHRKKNLQYYDISAKSNYNFEKPFLWL 169

Query: 232 SRRALQRNGME 242
           +R+ +    +E
Sbjct: 170 ARKLIGDPNLE 180

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score = 40.0 bits (94), Expect = 7e-04
 Identities = 9/22 (40%), Positives = 11/22 (50%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGK 29
          A Q +     K +LVGD   GK
Sbjct: 7  AAQGEPQVQFKLVLVGDGGTGK 28

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  178 bits (453), Expect = 2e-54
 Identities = 53/184 (28%), Positives = 90/184 (48%), Gaps = 16/184 (8%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
                     K + +G+  VGK  +++      RF     D + ++      G     + 
Sbjct: 6   GDFGNPLRKFKLVFLGEQSVGKTSLIT------RFMYDSFDNTYQATI----G-----ID 50

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
           + + T+ L+ + V+LQLWDT+GQ RF ++I SY R +   ++VYDITN  SF    +W+ 
Sbjct: 51  FLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWID 110

Query: 172 EVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           +V       V  +LVGN+  L+  R V+T E E  A +  + F E S    +N+++ F  
Sbjct: 111 DVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRR 170

Query: 231 LSRR 234
           ++  
Sbjct: 171 VAAA 174

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  178 bits (454), Expect = 4e-54
 Identities = 55/201 (27%), Positives = 97/201 (48%), Gaps = 31/201 (15%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
                YDYL+K L +GDS VGK   L          R+     +++ F   + K+   + 
Sbjct: 17  RGSGDYDYLIKLLALGDSGVGKTTFLY---------RY-----TDNKF---NPKFITTVG 59

Query: 112 --YKTTTILLDGK----------RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITN 159
             ++   ++ + +          +V LQLWDT+GQ RF ++  ++ R A G LL++D+T+
Sbjct: 60  IDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTS 119

Query: 160 KWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
           + SF  +  W+ +++ +A       VL+GN+  L   R V  R+A   A K  + +FE S
Sbjct: 120 QQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETS 179

Query: 218 PLCDFNIRESFTELSRRALQR 238
                N+ ++   L    ++R
Sbjct: 180 AATGQNVEKAVETLLDLIMKR 200

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score = 41.9 bits (99), Expect = 1e-04
 Identities = 14/29 (48%), Positives = 16/29 (55%)

Query: 8  ATQKQYDYLLKFLLVGDSDVGKQEILSGY 36
               YDYL+K L +GDS VGK   L  Y
Sbjct: 17 RGSGDYDYLIKLLALGDSGVGKTTFLYRY 45

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  178 bits (453), Expect = 5e-54
 Identities = 52/197 (26%), Positives = 93/197 (47%), Gaps = 36/197 (18%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
            +   LLK +++GDS VGK  +++      ++                  K+ +   YK 
Sbjct: 3   SRKKVLLKVIILGDSGVGKTSLMN------QYVN---------------KKFSN--QYKA 39

Query: 115 T--------TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI 166
           T         +++D + V +Q+WDT+GQ RF ++  ++ RGA   +LV+D+T   +F  +
Sbjct: 40  TIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTL 99

Query: 167 DRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCD 221
           D W  E    A        P V++GN++ L   +  T R       KN + +FE S    
Sbjct: 100 DSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEA 159

Query: 222 FNIRESFTELSRRALQR 238
            N+ ++F  ++R AL++
Sbjct: 160 INVEQAFQTIARNALKQ 176

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  177 bits (450), Expect = 7e-54
 Identities = 53/193 (27%), Positives = 84/193 (43%), Gaps = 32/193 (16%)

Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
           +  +      LK  L+GD+ VGK  I+       RF +                 +D   
Sbjct: 14  LVPRGSAIRELKVCLLGDTGVGKSSIVC------RFVQ---------------DHFDH-- 50

Query: 111 AYKTT--------TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS 162
               T        T+    +  K  +WDT+GQ RF ++   Y RG+   ++VYDIT + S
Sbjct: 51  NISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDS 110

Query: 163 FDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCD 221
           F  + +W+KE++EH    +   + GN+  L+  R V  ++A+ YA        E S    
Sbjct: 111 FYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNA 170

Query: 222 FNIRESFTELSRR 234
            NI E F  +SR+
Sbjct: 171 INIEELFQGISRQ 183

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  175 bits (446), Expect = 1e-53
 Identities = 54/184 (29%), Positives = 81/184 (44%), Gaps = 28/184 (15%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDM------LAYKT 114
           LK  L+GD+ VGK  I+       RF                   +D         ++ T
Sbjct: 7   LKVCLLGDTGVGKSSIMW------RFVE---------------DSFDPNINPTIGASFMT 45

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+    +  K  +WDT+G  RF  +   Y RG+   ++VYDIT + +F  +  W++E+ 
Sbjct: 46  KTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELR 105

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           +H  P +   + GN+  L   R V  R+A+ YA      F E S     NI E F E+SR
Sbjct: 106 QHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISR 165

Query: 234 RALQ 237
           R   
Sbjct: 166 RIPS 169

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  174 bits (444), Expect = 3e-53
 Identities = 61/188 (32%), Positives = 95/188 (50%), Gaps = 29/188 (15%)

Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDM------LAY 112
              K +L+G+S VGK  ++       RF +               G++ +        A+
Sbjct: 5   CQFKLVLLGESAVGKSSLVL------RFVK---------------GQFHEFQESTIGAAF 43

Query: 113 KTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
            T T+ LD   VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF     W+KE
Sbjct: 44  LTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKE 103

Query: 173 VEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           ++  A P +   L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  +
Sbjct: 104 LQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

Query: 232 SRRALQRN 239
           +++ L +N
Sbjct: 164 AKK-LPKN 170

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  174 bits (444), Expect = 4e-53
 Identities = 49/190 (25%), Positives = 80/190 (42%), Gaps = 28/190 (14%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGS----GKYDDMLAY 112
           +   LK +++GD   GK  + +          F     ++  F        G     L +
Sbjct: 3   HMRQLKIVVLGDGASGKTSLTT---------CF-----AQETFGKQYKQTIG-----LDF 43

Query: 113 KTTTILLDGK-RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
               I L G   V LQ+WD  GQ     ++  Y  GAQG+LLVYDITN  SF+ ++ W  
Sbjct: 44  FLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYT 103

Query: 172 EVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRES 227
            V++ +          LVGN++ L   RT+   +   +  +N  +   VS     ++   
Sbjct: 104 VVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLC 163

Query: 228 FTELSRRALQ 237
           F +++   L 
Sbjct: 164 FQKVAAEILG 173

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  173 bits (441), Expect = 1e-52
 Identities = 57/201 (28%), Positives = 92/201 (45%), Gaps = 39/201 (19%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
            +   +LK +++GDS VGK  ++       R+                  KY     YK 
Sbjct: 3   SRKKNILKVIILGDSGVGKTSLMH------RYVN---------------DKYSQ--QYKA 39

Query: 115 T--------TILLDGKR-VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDG 165
           T         + +DG +   +Q+WDT+GQ RF ++  ++ RGA   +LVYD+TN  SF+ 
Sbjct: 40  TIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFEN 99

Query: 166 IDRWLKEVEEHA-----PGVPKVLVGNRLHLA-FNRTVTTREAEMYAI-KNQMAFFEVSP 218
           I  W  E   HA        P V++GN++      + V+ + A+  A     +  F  S 
Sbjct: 100 IKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSA 159

Query: 219 LCDFNIRESFTELSRRALQRN 239
               N+  +F E++R ALQ+N
Sbjct: 160 KNAINVDTAFEEIARSALQQN 180

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score = 39.5 bits (93), Expect = 7e-04
 Identities = 9/26 (34%), Positives = 16/26 (61%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILSGY 36
           +   +LK +++GDS VGK  ++  Y
Sbjct: 3  SRKKNILKVIILGDSGVGKTSLMHRY 28

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  169 bits (431), Expect = 7e-51
 Identities = 44/210 (20%), Positives = 76/210 (36%), Gaps = 37/210 (17%)

Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSG 104
           M  K V           K  +VG++ VGK  ++S          F           S   
Sbjct: 5   MVKKEVKPIDITATLRCKVAVVGEATVGKSALIS---------MF----------TSKGS 45

Query: 105 KYDDMLAYKTT--------TILLDGKRVKLQLW--DTSGQGRFCTIIRSYSRGAQGILLV 154
           K+     Y  T         + +    V ++L+  DT+G   +   I  Y  G    +LV
Sbjct: 46  KFLK--DYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILV 103

Query: 155 YDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNR-TVTTREAEMYAIKN 209
           +D+++  SF+    W + ++         +  VLV N+  L   R  V    A+ +A  N
Sbjct: 104 FDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTN 163

Query: 210 QMAFFEVSPLCD-FNIRESFTELSRRALQR 238
            + FF+VS      +    F  ++    + 
Sbjct: 164 TLDFFDVSANPPGKDADAPFLSIATTFYRN 193

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  156 bits (397), Expect = 6e-46
 Identities = 42/205 (20%), Positives = 81/205 (39%), Gaps = 24/205 (11%)

Query: 56  QYDYLLKFLLVGDSDVGKQEILSG----------------------LYLESRFPRFWLDG 93
           +     K +L+G+S VGK  I+                        + L     +   + 
Sbjct: 3   EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62

Query: 94  SSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILL 153
              +   S +   + ++  +      +   +K  +WDT+GQ R+ +I+  Y RGA   ++
Sbjct: 63  EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122

Query: 154 VYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF 213
           V+DI+N  + D    W+ +++        +LV N++       V   E + YA  N + F
Sbjct: 123 VFDISNSNTLDRAKTWVNQLKIS-SNYIIILVANKIDKN-KFQVDILEVQKYAQDNNLLF 180

Query: 214 FEVSPLCDFNIRESFTELSRRALQR 238
            + S     NI+  F  L+    + 
Sbjct: 181 IQTSAKTGTNIKNIFYMLAEEIYKN 205

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  150 bits (380), Expect = 1e-43
 Identities = 49/205 (23%), Positives = 78/205 (38%), Gaps = 34/205 (16%)

Query: 47  TKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY 106
            +  +  Q Q D + K +LVG+S VGK  +         F               G  + 
Sbjct: 10  GRENLYFQGQKDGIFKVMLVGESGVGKSTLA------GTF---------------GGLQG 48

Query: 107 DDMLAYKTT--------TILLDGKRVKLQLWDTSGQGRFCTIIRS-YSRGAQGILLVYDI 157
           D   A++           I++D + V L ++D   QG     +R    +     L+V+ +
Sbjct: 49  DS--AHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSV 106

Query: 158 TNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE 215
           T++ SF  +   L  +        +P +LVGN+  LA +R V+  E    A        E
Sbjct: 107 TDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIE 166

Query: 216 VSPLCDFNIRESFTELSRRALQRNG 240
            S     N RE F    R+   R G
Sbjct: 167 TSAALHHNTRELFEGAVRQIRLRRG 191

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  146 bits (372), Expect = 2e-42
 Identities = 54/195 (27%), Positives = 81/195 (41%), Gaps = 26/195 (13%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD----DML 110
                  K ++VG   VGK    S L +     +F      +S F S    YD    D  
Sbjct: 4   PPPSETHKLVVVGGGGVGK----SALTI-----QF-----IQSYFVS---DYDPTIED-- 44

Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL 170
              T    +DG   +L + DT+GQ  F  +   Y R   G LLV+ I ++ SF+ + +  
Sbjct: 45  -SYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLF 103

Query: 171 KEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
            ++         P VLVGN+  L   R V   EA  +   + +A+FE S     N+ E+F
Sbjct: 104 TQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF 163

Query: 229 TELSRRALQRNGMER 243
            +L R   +    E 
Sbjct: 164 EQLVRAVRKYQEQEL 178

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  145 bits (368), Expect = 8e-42
 Identities = 53/197 (26%), Positives = 86/197 (43%), Gaps = 26/197 (13%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD---- 107
              +    L K ++VG   VGK    S L L     +F  D   E         Y+    
Sbjct: 10  GGSQNSLALHKVIMVGSGGVGK----SALTL-----QFMYDEFVED--------YEPTKA 52

Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
           D  +Y+   ++LDG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF    
Sbjct: 53  D--SYRKK-VVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATA 109

Query: 168 RWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR 225
            + +++        VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ 
Sbjct: 110 DFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVD 169

Query: 226 ESFTELSRRALQRNGME 242
           + F +L R    R   +
Sbjct: 170 KVFFDLMREIRARKMED 186

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  145 bits (369), Expect = 9e-42
 Identities = 55/209 (26%), Positives = 90/209 (43%), Gaps = 26/209 (12%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD---- 107
              +    L K ++VG   VGK    S L L     +F         F      Y+    
Sbjct: 6   PKGQNSLALHKVIMVGSGGVGK----SALTL-----QF-----MYDEF---VEDYEPTKA 48

Query: 108 DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGID 167
           D  +Y+   ++LDG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF    
Sbjct: 49  D--SYRKK-VVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATA 105

Query: 168 RWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR 225
            + +++        VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ 
Sbjct: 106 DFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVD 165

Query: 226 ESFTELSRRALQRNGMERLWRSNKVGRKP 254
           + F +L R    R   +   ++ K  RK 
Sbjct: 166 KVFFDLMREIRARKMEDSKEKNGKKKRKS 194

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  144 bits (365), Expect = 2e-41
 Identities = 50/204 (24%), Positives = 82/204 (40%), Gaps = 33/204 (16%)

Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCS 101
           + +    A   +     K ++VGD  VGK    S L   + +  F               
Sbjct: 3   LGSMATSAVPSENLPTYKLVVVGDGGVGK----SALTIQFFQKIF--------------- 43

Query: 102 GSGKYD----DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDI 157
               YD    D          +D +   L + DT+GQ  F  +   Y R   G L+VY +
Sbjct: 44  -VDDYDPTIED---SYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSV 99

Query: 158 TNKWSFDGIDRWLKEVEEHAP--GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE 215
           T+K SF+ +DR+ + +         P +LV N++ L   R VT  + +  A K  + + E
Sbjct: 100 TDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIE 159

Query: 216 VS-PLCDFNIRESFTELSRRALQR 238
            S      N+ ++F +L R   Q+
Sbjct: 160 TSAKDPPLNVDKTFHDLVRVIRQQ 183

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  141 bits (358), Expect = 2e-40
 Identities = 33/197 (16%), Positives = 67/197 (34%), Gaps = 41/197 (20%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT----- 115
           +K ++VG++  GK  +L       +  +                K  D+     T     
Sbjct: 3   MKLMIVGNTGSGKTTLLQ------QLMK---------------TKKSDLGMQSATVGIDV 41

Query: 116 ---TILLDGKR---VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS-FDGIDR 168
               I +  KR   + L +WD +G+  F +    +       L VYD++   +  D +  
Sbjct: 42  KDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKP 101

Query: 169 WLKEVEEHAPGVPKVLVGNRLHLAFNR---TVTTREAEMYAIKNQM-----AFFEVSPLC 220
           WL  ++  A   P +LVG  L ++  +      ++  +    K          F  +   
Sbjct: 102 WLFNIKARASSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEE 161

Query: 221 DFNIRESFTELSRRALQ 237
              + +    +   +L 
Sbjct: 162 SDALAKLRKTIINESLN 178

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  140 bits (356), Expect = 3e-40
 Identities = 42/184 (22%), Positives = 70/184 (38%), Gaps = 22/184 (11%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKTTTI 117
           + K +LVG+S VGK  +            F            G   ++   +       I
Sbjct: 2   VFKVMLVGESGVGKSTLAG---------TFGGL--------QGDHAHEMENSEDTYERRI 44

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRS-YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           ++D + V L ++D   QG     ++    +     L+V+ +T++ SF  +   L  +   
Sbjct: 45  MVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAG 104

Query: 177 --APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
                +P +LVGN+  LA +R V+  E    A        E S     N RE F    R+
Sbjct: 105 RPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQ 164

Query: 235 ALQR 238
              R
Sbjct: 165 IRLR 168

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  141 bits (357), Expect = 4e-40
 Identities = 49/212 (23%), Positives = 83/212 (39%), Gaps = 34/212 (16%)

Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSGKYD-- 107
           +  +     + ++ G   VGK    S L   +++  F                   Y   
Sbjct: 1   SMPEQSNDYRVVVFGAGGVGK----SSLVLRFVKGTF----------------RDTYIPT 40

Query: 108 --DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDG 165
             D   Y+   I  D     LQ+ DT+G  +F  + R         +LV+ +T+K S + 
Sbjct: 41  IED--TYRQV-ISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEE 97

Query: 166 IDRWLKEVEEH---APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDF 222
           +    K + +       +P +LVGN+      R V TREA+  A + + AF E S   ++
Sbjct: 98  LGPIYKLIVQIKGSVEDIPVMLVGNKCDET-QREVDTREAQAVAQEWKCAFMETSAKMNY 156

Query: 223 NIRESFTELSRRALQRNGMERLWRSNKVGRKP 254
           N++E F EL     +RN    +       +K 
Sbjct: 157 NVKELFQELLTLETRRNMSLNIDGKRSGKQKR 188

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  139 bits (352), Expect = 9e-40
 Identities = 47/188 (25%), Positives = 76/188 (40%), Gaps = 33/188 (17%)

Query: 62  KFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKT 114
           +  + G   VGK    S L   +++  F                   Y     D   Y+ 
Sbjct: 5   RVAVFGAGGVGK----SSLVLRFVKGTF----------------RESYIPTVEDT--YRQ 42

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             I  D     LQ+ DT+G  +F  + R         +LVY IT++ S + +    +++ 
Sbjct: 43  V-ISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQIC 101

Query: 175 EHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
           E       +P +LVGN+   + +R V + EAE  A   + AF E S   + N++E F EL
Sbjct: 102 EIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQEL 161

Query: 232 SRRALQRN 239
                +R 
Sbjct: 162 LNLEKRRT 169

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score =  138 bits (350), Expect = 2e-39
 Identities = 51/187 (27%), Positives = 81/187 (43%), Gaps = 31/187 (16%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDM------LAYKTT 115
           K +L+G++ VGK  I+       RF                   + +        A+ T 
Sbjct: 5   KLVLLGEAAVGKSSIVL------RFVS---------------NDFAENKEPTIGAAFLTQ 43

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
            + ++   VK ++WDT+GQ RF ++   Y R AQ  L+VYD+T   SF     W+KE+ E
Sbjct: 44  RVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHE 103

Query: 176 HA-PGVPKVLVGNRL---HLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
            A   +   LVGN++        R V   E E  A +  + FFE S     N+ + F  +
Sbjct: 104 QASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGI 163

Query: 232 SRRALQR 238
             +   +
Sbjct: 164 GEKIPLK 170

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  137 bits (348), Expect = 4e-39
 Identities = 38/180 (21%), Positives = 63/180 (35%), Gaps = 27/180 (15%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKTT 115
           + K LL+G   VGK  +         F                             Y  +
Sbjct: 2   VYKVLLLGAPGVGKSALAR------IFGGVEDG------------PEAEAAGH--TYDRS 41

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
            I++DG+   L ++D   Q     +           ++VY +T+K SF+       ++  
Sbjct: 42  -IVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRR 100

Query: 176 H--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
                 VP +LVGN+  L  +R V+  E    A+     F E S     N++  F  + R
Sbjct: 101 ARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVR 160

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  137 bits (347), Expect = 6e-39
 Identities = 52/185 (28%), Positives = 83/185 (44%), Gaps = 26/185 (14%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKTT 115
           L K ++VG   VGK    S L L     +F         F      Y+    D  +Y+  
Sbjct: 4   LHKVIMVGSGGVGK----SALTL-----QF-----MYDEF---VEDYEPTKAD--SYRKK 44

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
            ++LDG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF     + +++  
Sbjct: 45  -VVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILR 103

Query: 176 H--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
                 VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ + F +L R
Sbjct: 104 VKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMR 163

Query: 234 RALQR 238
               R
Sbjct: 164 EIRAR 168

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  136 bits (344), Expect = 2e-38
 Identities = 46/196 (23%), Positives = 79/196 (40%), Gaps = 34/196 (17%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSGKYD--- 107
            +      K  ++G   VGK    S L   ++E +F                   YD   
Sbjct: 2   PQSKSR--KIAILGYRSVGK----SSLTIQFVEGQF----------------VDSYDPTI 39

Query: 108 -DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI 166
            +   +    I ++G+   LQL DT+GQ  +    ++YS    G +LVY +T+  SF+ I
Sbjct: 40  EN--TFTKL-ITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVI 96

Query: 167 DRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNI 224
                ++ +      +P +LVGN+  L   R ++  E +  A     AF E S   +   
Sbjct: 97  KVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTA 156

Query: 225 RESFTELSRRALQRNG 240
            + F  +   A + +G
Sbjct: 157 VDVFRRIILEAEKMDG 172

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  135 bits (342), Expect = 2e-38
 Identities = 47/181 (25%), Positives = 74/181 (40%), Gaps = 32/181 (17%)

Query: 62  KFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKT 114
           K +++G   VGK    S L   ++   F                  KYD    D   +  
Sbjct: 5   KVVVLGSGGVGK----SALTVQFVTGTF----------------IEKYDPTIED---FYR 41

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             I +D     L++ DT+G  +F ++   Y +  QG +LVY + N+ SF  I     ++ 
Sbjct: 42  KEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQII 101

Query: 175 EH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
                  VP +LVGN++ L   R V++ E    A +    F E S      + E F E+ 
Sbjct: 102 RVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV 161

Query: 233 R 233
           R
Sbjct: 162 R 162

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  134 bits (340), Expect = 5e-38
 Identities = 49/178 (27%), Positives = 84/178 (47%), Gaps = 27/178 (15%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKTTTI 117
           K ++VG   VGK    S L +     +       ++ F     + D    D  +Y+   +
Sbjct: 5   KLVVVGAGGVGK----SALTI-----QL-----IQNHF---VDECDPTIED--SYRKQ-V 44

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
           ++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++   
Sbjct: 45  VIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVK 104

Query: 178 --PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
               VP VLVGN+  LA  RTV +R+A+  A    + + E S      + ++F  L R
Sbjct: 105 DSDDVPMVLVGNKSDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVR 161

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  135 bits (342), Expect = 6e-38
 Identities = 47/200 (23%), Positives = 76/200 (38%), Gaps = 26/200 (13%)

Query: 47  TKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY 106
            + +           K +++G   VGK    + L       +F      E  F      Y
Sbjct: 11  RENLYFQGMPLVRYRKVVILGYRCVGK----TSLAH-----QF-----VEGEFSE---GY 53

Query: 107 D----DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS 162
           D    +   Y    + L      L L DT+GQ  +  +  S+  G  G +LVY +T+  S
Sbjct: 54  DPTVEN--TYSKI-VTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHS 110

Query: 163 FDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC 220
           F  I+   +++ E      VP VLVGN+  L+  R V   E +  A      F E S   
Sbjct: 111 FQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARE 170

Query: 221 DFNIRESFTELSRRALQRNG 240
           +   +  FT++ +   +   
Sbjct: 171 NQLTQGIFTKVIQEIARVEN 190

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  133 bits (338), Expect = 2e-37
 Identities = 53/201 (26%), Positives = 87/201 (43%), Gaps = 35/201 (17%)

Query: 48  KPVVATQKQYDYLLKFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSG 104
           +  +  Q   +Y  K ++VG   VGK    S L    +++ F                  
Sbjct: 11  RENLYFQGMTEY--KLVVVGAGGVGK----SALTIQLIQNHF----------------VD 48

Query: 105 KYD----DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK 160
           +YD    D  +Y+   +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N 
Sbjct: 49  EYDPTIED--SYRKQ-VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNS 105

Query: 161 WSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP 218
            SF  I+ + ++++       VP VLVGN+  L   RTV T++A   A    + F E S 
Sbjct: 106 KSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP-TRTVDTKQAHELAKSYGIPFIETSA 164

Query: 219 LCDFNIRESFTELSRRALQRN 239
                + ++F  L R   Q  
Sbjct: 165 KTRQGVEDAFYTLVREIRQYR 185

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  133 bits (338), Expect = 2e-37
 Identities = 50/188 (26%), Positives = 84/188 (44%), Gaps = 33/188 (17%)

Query: 62  KFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKT 114
           K ++VG   VGK    S L    +++ F                  +YD    D  +Y+ 
Sbjct: 6   KLVVVGADGVGK----SALTIQLIQNHF----------------VDEYDPTIED--SYRK 43

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             +++DG+   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I  + ++++
Sbjct: 44  Q-VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIK 102

Query: 175 EHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELS 232
                  VP VLVGN+  L  +RTV T++A+  A    + F E S      + ++F  L 
Sbjct: 103 RVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLV 161

Query: 233 RRALQRNG 240
           R   +   
Sbjct: 162 REIRKHKE 169

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  134 bits (339), Expect = 3e-37
 Identities = 39/192 (20%), Positives = 74/192 (38%), Gaps = 29/192 (15%)

Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD--- 107
           V + +  +   + +L+G+  VGK  + +       F              S     +   
Sbjct: 28  VISSESGNTYYRVVLIGEQGVGKSTLAN------IFAG------VHDSMDS---DCEVLG 72

Query: 108 -DMLAYKTTTILLDGKR---VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSF 163
            D       T+++DG+    + L +W+  G+  +  +     +     L+VY IT++ SF
Sbjct: 73  ED---TYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASF 127

Query: 164 DGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCD 221
           +       ++        +P +LVGN+  L   R V+  E    A+     F E S    
Sbjct: 128 EKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQ 187

Query: 222 FNIRESFTELSR 233
            N++E F  + R
Sbjct: 188 HNVKELFEGIVR 199

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  141 bits (356), Expect = 4e-37
 Identities = 29/181 (16%), Positives = 57/181 (31%), Gaps = 10/181 (5%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           +   +K  L+GD   GK  +L  L +   F         ES     +         K   
Sbjct: 38  HLQEIKVHLIGDGMAGKTSLLKQL-IGETFDP------KESQTHGLNVVTKQAPNIKGLE 90

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
              + K      WD  GQ       + +   +   +L+ D     +      WL+ +E++
Sbjct: 91  NDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKY 147

Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRAL 236
               P ++V N++    +  +  ++        +  F  +S      +      L    L
Sbjct: 148 GGKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVL 207

Query: 237 Q 237
            
Sbjct: 208 H 208

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  131 bits (331), Expect = 2e-36
 Identities = 55/206 (26%), Positives = 88/206 (42%), Gaps = 34/206 (16%)

Query: 47  TKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGS 103
           T+ +          +K  + G + VGK    S L   +L  RF                 
Sbjct: 15  TENLYFQSMAKSAEVKLAIFGRAGVGK----SALVVRFLTKRF----------------I 54

Query: 104 GKYD----DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITN 159
            +YD        Y+     +D + V +++ DT+GQ         + R  +G +LVYDIT+
Sbjct: 55  WEYDPTLES--TYRHQ-ATIDDEVVSMEILDTAGQEDTIQR-EGHMRWGEGFVLVYDITD 110

Query: 160 KWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS 217
           + SF+ +      ++E      V  +LVGN+  L  +R V+T E E  A +   AF+E S
Sbjct: 111 RGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECS 170

Query: 218 -PLCDFNIRESFTELSRRALQRNGME 242
               + NI E F EL R   +R  ++
Sbjct: 171 ACTGEGNITEIFYELCREVRRRRMVQ 196

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  129 bits (326), Expect = 8e-36
 Identities = 43/182 (23%), Positives = 69/182 (37%), Gaps = 28/182 (15%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKTT 115
           L + +L+GD  VGK  + S          F      +         ++    D       
Sbjct: 4   LYRVVLLGDPGVGKTSLAS---------LFAGKQERDL--------HEQLGED---VYER 43

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTII--RSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
           T+ +DG+   L + DT    +        S  +G    ++VY I ++ SF+       ++
Sbjct: 44  TLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQL 103

Query: 174 EEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
                A  VP +LVGN+  LA  R V+  E    A+     F E S     N+ E F  +
Sbjct: 104 RRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGV 163

Query: 232 SR 233
            R
Sbjct: 164 VR 165

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  127 bits (321), Expect = 3e-35
 Identities = 47/182 (25%), Positives = 79/182 (43%), Gaps = 33/182 (18%)

Query: 62  KFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSGKYD----DMLAYKT 114
           K +++G   VGK    S L   +++  F                  KYD    D  +Y+ 
Sbjct: 5   KLVVLGSGGVGK----SALTVQFVQGIF----------------VEKYDPTIED--SYRK 42

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             + +D ++  L++ DT+G  +F  +   Y +  QG  LVY IT + +F+ +    +++ 
Sbjct: 43  Q-VEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQIL 101

Query: 175 EH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTEL 231
                  VP +LVGN+  L   R V   + +  A +    AF E S     N+ E F +L
Sbjct: 102 RVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDL 161

Query: 232 SR 233
            R
Sbjct: 162 VR 163

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  127 bits (322), Expect = 3e-35
 Identities = 50/199 (25%), Positives = 79/199 (39%), Gaps = 38/199 (19%)

Query: 47  TKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGS 103
            +  +  Q   +      ++G    GK    S L   +L  RF                 
Sbjct: 10  GRENLYFQGPLEV--NLAILGRRGAGK----SALTVKFLTKRF----------------I 47

Query: 104 GKYD----DMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITN 159
            +YD    D   Y +    +D + V L++ DT+           Y   A   L+VY + +
Sbjct: 48  SEYDPNLED--TYSSE-ETVDHQPVHLRVMDTADLDTP-RNCERYLNWAHAFLVVYSVDS 103

Query: 160 KWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE 215
           + SFD    +L+ +  HA      +P +L+GN+L +A  R VT  E    A +    FFE
Sbjct: 104 RQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFE 163

Query: 216 VSPLCDF-NIRESFTELSR 233
           VS   DF +++  F E  R
Sbjct: 164 VSACLDFEHVQHVFHEAVR 182

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  126 bits (318), Expect = 1e-34
 Identities = 31/193 (16%), Positives = 64/193 (33%), Gaps = 45/193 (23%)

Query: 61  LKFLLVGDSDVGKQEILSGL---YLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT-- 115
           LK  +VG+   GK    S L   YL   +         +                     
Sbjct: 21  LKVGIVGNLSSGK----SALVHRYLTGTY--------VQE--------------ESPEGG 54

Query: 116 ----TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK 171
                I++DG+   L + D  G          ++     ++ V+ + ++ SF  +  +  
Sbjct: 55  RFKKEIVVDGQSYLLLIRDEGGPPEL-----QFAAWVDAVVFVFSLEDEISFQTVYNYFL 109

Query: 172 EVEEHAPG--VPKVLVGNR--LHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRE 226
            +        VP VLVG +  +  A  R +    A   +    +  ++E       N+  
Sbjct: 110 RLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVER 169

Query: 227 SFTELSRRALQRN 239
            F +++++ +   
Sbjct: 170 VFQDVAQKVVALR 182

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  123 bits (312), Expect = 1e-33
 Identities = 40/210 (19%), Positives = 76/210 (36%), Gaps = 37/210 (17%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
                + +L+G+  VGK  + +          F             +G +D M +     
Sbjct: 3   GMTYYRVVLIGEQGVGKSTLAN---------IF-------------AGVHDSMDSDXEVL 40

Query: 117 I--------LLDGKR---VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDG 165
                    ++DG+    + L +W+  G+  +  +     +     L+VY IT++ SF+ 
Sbjct: 41  GEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEK 98

Query: 166 IDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFN 223
                 ++        +P +LVGN+  L   R V+  E    A+     F E S     N
Sbjct: 99  ASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHN 158

Query: 224 IRESFTELSRRALQRNGMERLWRSNKVGRK 253
           ++E F  + R+   R   +         +K
Sbjct: 159 VKELFEGIVRQVRLRRDSKEKNERRLAYQK 188

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  118 bits (298), Expect = 7e-32
 Identities = 36/199 (18%), Positives = 76/199 (38%), Gaps = 43/199 (21%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT---- 115
            L+  ++GD+  GK    S L    RF                +G Y      + T    
Sbjct: 7   ELRLGVLGDARSGK----SSLIH--RFL---------------TGSYQV---LEKTESEQ 42

Query: 116 ---TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE 172
               +L+DG+   + + + +G          +S  A  ++ V+ + ++ SF  + R   +
Sbjct: 43  YKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSFQAVSRLHGQ 97

Query: 173 VEEHAP----GVPKVLVG--NRLHLAFNRTVTTREA-EMYAIKNQMAFFEVSPLCDFNIR 225
           +         G+   LVG  +R+  +  R V    A  + A   + +++E       N+ 
Sbjct: 98  LSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVD 157

Query: 226 ESFTELSRRALQRNGMERL 244
             F E++++ +     ++L
Sbjct: 158 RVFQEVAQKVVTLRKQQQL 176

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  116 bits (292), Expect = 9e-31
 Identities = 43/199 (21%), Positives = 73/199 (36%), Gaps = 34/199 (17%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
              +     LK ++VGD  VGK  +L   + +   P                       A
Sbjct: 15  GKIENGKKALKIVVVGDGAVGKTCLLLA-FSKGEIPT----------------------A 51

Query: 112 YKTT-------TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD 164
           Y  T        +    +   L LWDT+GQ  +  +       +  +LL + + N+ SFD
Sbjct: 52  YVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFD 111

Query: 165 GI-DRWLKEVEEHAPGVPKVLVGNRLHLAFN--RTVTTREAEMYAIK-NQMAFFEVSPLC 220
            I  +W  E++ +      VLVG ++ L  +    VT +E +    K   +A+ E S + 
Sbjct: 112 NISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVA 171

Query: 221 DFNIRESFTELSRRALQRN 239
              + E F +         
Sbjct: 172 KIGLNEVFEKSVDCIFSNK 190

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score =  105 bits (264), Expect = 6e-27
 Identities = 51/194 (26%), Positives = 79/194 (40%), Gaps = 38/194 (19%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKY-----DDMLAYKTT 115
           +K + VGD  VGK  +L   Y  + FP                  Y     D+  A    
Sbjct: 9   IKCVTVGDGAVGKTCLLI-SYTSNTFPT----------------DYVPTVFDNFSANVV- 50

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVE 174
              ++G  V L LWDT+GQ  +  +     RGA   +L + + +K S++ +  +W+ E++
Sbjct: 51  ---VNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELK 107

Query: 175 EHAPGVPKVLVGN----------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFN 223
            +APGVP VLVG            +       +TT + E         A+ E S     N
Sbjct: 108 HYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQEN 167

Query: 224 IRESFTELSRRALQ 237
           ++  F    R  LQ
Sbjct: 168 VKGVFDAAIRVVLQ 181

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  105 bits (264), Expect = 1e-26
 Identities = 55/216 (25%), Positives = 93/216 (43%), Gaps = 36/216 (16%)

Query: 53  TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD----D 108
           +       +K + VGD  VGK  +L   Y  ++FP                  Y     D
Sbjct: 2   SHMSVSKFIKCVTVGDGAVGKTCMLIC-YTSNKFP----------------TDYIPTVFD 44

Query: 109 MLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYS-RGAQGILLVYDITNKWSFDGI- 166
              + +  + +DG+ V L LWDT+GQ  + + +R  S RGA   +L + + +K S++ + 
Sbjct: 45  --NF-SANVAVDGQIVNLGLWDTAGQEDY-SRLRPLSYRGADIFVLAFSLISKASYENVL 100

Query: 167 DRWLKEVEEHAPGVPKVLVGNRLHLAFN--------RTVTTREAEMYAIK-NQMAFFEVS 217
            +W+ E+   AP VP VLVG +L L  +          +T+ + E    +    A+ E S
Sbjct: 101 KKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECS 160

Query: 218 PLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRK 253
                N++  F    +  LQ    + + R  K  R+
Sbjct: 161 SKTQQNVKAVFDTAIKVVLQPPRRKEVPRRRKNHRR 196

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  105 bits (264), Expect = 1e-26
 Identities = 50/198 (25%), Positives = 77/198 (38%), Gaps = 44/198 (22%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT----- 115
           +K +LVGD   GK  +L  ++ +  FP                       +Y  T     
Sbjct: 35  VKVVLVGDGGCGKTSLLM-VFADGAFPE----------------------SYTPTVFERY 71

Query: 116 --TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKE 172
              + + GK V L +WDT+GQ  +  +   +   A  +LL +D+T+  SFD I +RW  E
Sbjct: 72  MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPE 131

Query: 173 VEEHAPGVPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPL 219
           V      VP ++VG             +L       VT    +  A     +A+ E S  
Sbjct: 132 VNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSAR 191

Query: 220 CDFNIRESFTELSRRALQ 237
              N+   F E +  AL 
Sbjct: 192 LHDNVHAVFQEAAEVALS 209

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score =  102 bits (255), Expect = 1e-25
 Identities = 49/199 (24%), Positives = 78/199 (39%), Gaps = 44/199 (22%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT----- 115
            K ++VGD   GK  +L  ++ +  FP                        Y  T     
Sbjct: 26  KKLVVVGDGACGKTCLLI-VFSKDEFPE----------------------VYVPTVFENY 62

Query: 116 --TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKE 172
              I +DGK+V+L LWDT+GQ  +  +          IL+ + + +  S + I ++W+ E
Sbjct: 63  VADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPE 122

Query: 173 VEEHAPGVPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPL 219
           V+   P VP +LV N             L       V T +    A++     + E S  
Sbjct: 123 VKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAK 182

Query: 220 CDFNIRESFTELSRRALQR 238
               +RE F   +R ALQ+
Sbjct: 183 TKEGVREVFETATRAALQK 201

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score =  101 bits (254), Expect = 2e-25
 Identities = 49/198 (24%), Positives = 77/198 (38%), Gaps = 32/198 (16%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYD-DMLAYK 113
                  K ++VGD   GK  +L  ++ + +FP                  Y   +    
Sbjct: 20  HMAAIRKKLVIVGDGACGKTCLLI-VFSKDQFPE----------------VYVPTVFENY 62

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKE 172
              I +DGK+V+L LWDT+GQ  +  +          IL+ + I +  S + I ++W  E
Sbjct: 63  IADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPE 122

Query: 173 VEEHAPGVPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPL 219
           V+   P VP +LVGN             L       V + E    A + +   + E S  
Sbjct: 123 VKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAK 182

Query: 220 CDFNIRESFTELSRRALQ 237
               +RE F   +R  LQ
Sbjct: 183 TKEGVREVFEMATRAGLQ 200

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score = 98.7 bits (246), Expect = 2e-24
 Identities = 44/191 (23%), Positives = 76/191 (39%), Gaps = 30/191 (15%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  + FP  ++    ++                +  +++D
Sbjct: 6   IKCVVVGDGAVGKTCLLI-SYTTNAFPGEYIPTVFDN---------------YSANVMVD 49

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPG 179
           GK V L LWDT+GQ  +  +           L+ + + +  SF+ +  +W  EV  H P 
Sbjct: 50  GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPN 109

Query: 180 VPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRE 226
            P +LVG             +L       +T  +    A +   + + E S L    ++ 
Sbjct: 110 TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKT 169

Query: 227 SFTELSRRALQ 237
            F E  R  L 
Sbjct: 170 VFDEAIRAVLC 180

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score = 97.5 bits (243), Expect = 8e-24
 Identities = 46/197 (23%), Positives = 73/197 (37%), Gaps = 44/197 (22%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT----- 115
           +K ++VGD  VGK  +L   Y  + FP                        Y  T     
Sbjct: 31  IKCVVVGDGAVGKTCLLIS-YTTNAFPG----------------------EYIPTVFDNY 67

Query: 116 --TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKE 172
              +++DGK V L LWDT+GQ  +  +           L+ + + +  SF+ +  +W  E
Sbjct: 68  SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPE 127

Query: 173 VEEHAPGVPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPL 219
           V  H P  P +LVG             +L       +T  +    A +   + + E S L
Sbjct: 128 VRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL 187

Query: 220 CDFNIRESFTELSRRAL 236
               ++  F E  R  L
Sbjct: 188 TQRGLKTVFDEAIRAVL 204

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score = 96.7 bits (241), Expect = 9e-24
 Identities = 40/193 (20%), Positives = 77/193 (39%), Gaps = 31/193 (16%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K ++VGDS  GK  +L  ++ +  FP       +  P       +++  A       +D
Sbjct: 8   CKIVVVGDSQCGKTALLH-VFAKDCFPE------NYVPTV-----FENYTASFE----ID 51

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPG 179
            +R++L LWDTSG   +  +       +  +L+ +DI+   + D +  +W  E++E  P 
Sbjct: 52  TQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPN 111

Query: 180 VPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCD-FNIR 225
              +LVG              L       V+  +    A +     + E S L    ++R
Sbjct: 112 TKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVR 171

Query: 226 ESFTELSRRALQR 238
           + F   +   + +
Sbjct: 172 DIFHVATLACVNK 184

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score = 96.4 bits (240), Expect = 1e-23
 Identities = 44/200 (22%), Positives = 77/200 (38%), Gaps = 30/200 (15%)

Query: 52  ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA 111
                   +LK ++VGD  VGK  +L   Y    FP          P       +D    
Sbjct: 10  MAHGPGALMLKCVVVGDGAVGKTCLLM-SYANDAFP------EEYVPTV-----FDHYAV 57

Query: 112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWL 170
             T    + GK+  L L+DT+GQ  +  +           L+ + + N  SF  + + W+
Sbjct: 58  SVT----VGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWV 113

Query: 171 KEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMYAIK-NQMAFFEVS 217
            E++E+AP VP +L+G ++ L  +            + +   + +  A +     + E S
Sbjct: 114 PELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECS 173

Query: 218 PLCDFNIRESFTELSRRALQ 237
            L    ++  F E     L 
Sbjct: 174 ALTQKGLKTVFDEAIIAILT 193

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score = 96.0 bits (239), Expect = 3e-23
 Identities = 40/203 (19%), Positives = 78/203 (38%), Gaps = 31/203 (15%)

Query: 51  VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML 110
                  +   K ++VGDS  GK  +L  ++ +  FP       +  P       +++  
Sbjct: 19  SHMDPNQNVKCKIVVVGDSQCGKTALLH-VFAKDCFPE------NYVPTV-----FENYT 66

Query: 111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRW 169
           A       +D +R++L LWDTSG   +  +       +  +L+ +DI+   + D +  +W
Sbjct: 67  ASFE----IDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKW 122

Query: 170 LKEVEEHAPGVPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEV 216
             E++E  P    +LVG              L       V+  +    A +     + E 
Sbjct: 123 KGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC 182

Query: 217 SPLCD-FNIRESFTELSRRALQR 238
           S L    ++R+ F   +   + +
Sbjct: 183 SALQSENSVRDIFHVATLACVNK 205

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 94.0 bits (234), Expect = 1e-22
 Identities = 44/197 (22%), Positives = 84/197 (42%), Gaps = 30/197 (15%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K +LVGD  VGK  ++   Y  + +P  ++  + ++              + +  + +D
Sbjct: 21  VKCVLVGDGAVGKTSLVV-SYTTNGYPTEYIPTAFDN--------------F-SAVVSVD 64

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPG 179
           G+ V+LQL DT+GQ  F  +           LL + + +  SF  + ++W+ E+  H P 
Sbjct: 65  GRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPK 124

Query: 180 VPKVLVGN------------RLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRE 226
            P +LVG              L     + V    A++ A +    ++ E S L   N++E
Sbjct: 125 APIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKE 184

Query: 227 SFTELSRRALQRNGMER 243
            F       +Q +  ++
Sbjct: 185 VFDAAIVAGIQYSDTQQ 201

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score = 94.2 bits (234), Expect = 1e-22
 Identities = 37/193 (19%), Positives = 73/193 (37%), Gaps = 31/193 (16%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K +LVGD   GK  +L  +  +  +P  ++              +++  A        +
Sbjct: 28  CKLVLVGDVQCGKTAMLQ-VLAKDCYPETYV-----------PTVFENYTACLE----TE 71

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPG 179
            +RV+L LWDTSG   +  +       +  +LL +DI+   + D    +W  E+ ++ P 
Sbjct: 72  EQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPS 131

Query: 180 VPKVLVGNRLHLAFN------------RTVTTREAEMYAIK-NQMAFFEVSPL-CDFNIR 225
              +L+G +  L  +              ++  +    A +     + E S    + +I 
Sbjct: 132 TRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIH 191

Query: 226 ESFTELSRRALQR 238
             F   S   L +
Sbjct: 192 SIFRTASMLCLNK 204

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score = 82.0 bits (202), Expect = 2e-17
 Identities = 33/138 (23%), Positives = 57/138 (41%), Gaps = 14/138 (10%)

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKE 172
           +  +++DGK V L LWDT+G   +  +           L+ + + +  SF  +  +W  E
Sbjct: 193 SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPE 252

Query: 173 VEEHAPGVPKVLVGNRLHLAFNRT------------VTTREAEMYAIK-NQMAFFEVSPL 219
           V  H P  P +LVG +L L  ++             +T  +    A +   + + E S L
Sbjct: 253 VRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL 312

Query: 220 CDFNIRESFTELSRRALQ 237
               ++  F E  R  L 
Sbjct: 313 TQRGLKTVFDEAIRAVLC 330

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 75.8 bits (186), Expect = 1e-15
 Identities = 37/224 (16%), Positives = 66/224 (29%), Gaps = 64/224 (28%)

Query: 67  GDSDVGKQEILSGLYLESRFPRFWLDG--------SSESPFCSGSGKYDDMLAY-KTTTI 117
           G   +GK  + +      RF R   D          S S F       D  L + + +  
Sbjct: 35  GQCGIGKSCLCN------RFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRS 88

Query: 118 LLDGKRVKLQLW-------DTSGQGRFCTIIRSYSRGA---------------------- 148
           L D    K+ +        D + Q    T ++ Y + A                      
Sbjct: 89  LEDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLE 148

Query: 149 ---------------QGILLVYDITNKW--SFDGIDRWLKEVEEHAPG--VPKVLVGNRL 189
                           G LL  D++     +FD   +++  +         P V+V  + 
Sbjct: 149 QDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKC 208

Query: 190 HLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
                R +        + KN +   E S   + N+  +F+ L +
Sbjct: 209 DEGVERYIRDAHTFALSKKN-LQVVETSARSNVNVDLAFSTLVQ 251

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 57.4 bits (139), Expect = 7e-10
 Identities = 34/188 (18%), Positives = 61/188 (32%), Gaps = 19/188 (10%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL- 119
            K +  G    GK   L  +Y +       +    +    S + + +  L +    + + 
Sbjct: 15  FKIVYYGPGLSGKTTNLKWIYSK-------VPEGRKGEMVSLATEDERTLFFDFLPLDIG 67

Query: 120 --DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDIT------NKWSFDGIDRWLK 171
              G + +  L+   GQ  +    +   RG  GI+ V D        N  S   +   L 
Sbjct: 68  EVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLA 127

Query: 172 EVEEHAPGVPKVLVGNRLHLAFNRTVTTRE-AEMYAIKNQMAFFEVSPLCDFNIRESFTE 230
           E       VP V+  N+  L     +       +   + +    E        + E+  E
Sbjct: 128 EYGLTLDDVPIVIQVNKRDLP--DALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKE 185

Query: 231 LSRRALQR 238
           +SR  L R
Sbjct: 186 VSRLVLAR 193

>2izv_A Suppressor of cytokine signaling 4; signal transduction inhibitor, growth regulation, signal transduction, SH2 domain, nuclear protein; 2.55A {Homo sapiens} SCOP: a.271.1.1 d.93.1.1 Length = 187

 Score = 44.5 bits (105), Expect = 2e-05
 Identities = 16/45 (35%), Positives = 23/45 (51%)

Query: 308 KYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY 352
              L+     SLQ +C   I   TT   I+ LP+P+ +K +LK Y
Sbjct: 128 STPLIRTFPFSLQHICRTVICNCTTYDGIDALPIPSSMKLYLKEY 172

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 42.3 bits (99), Expect = 9e-05
 Identities = 21/142 (14%), Positives = 42/142 (29%), Gaps = 31/142 (21%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
                   + LL+G    GK  I   ++                         ++ L  +
Sbjct: 14  LYFQGSKPRILLMGLRRSGKSSIQKVVF--------------------HKMSPNETLFLE 53

Query: 114 TTT-----ILLDGKRVKLQLWDTSGQGRFCTI---IRSYSRGAQGILLVYDITNKW--SF 163
           +T       + +   V  Q+WD  GQ  F           RG   ++ V D  + +  + 
Sbjct: 54  STNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEAL 113

Query: 164 DGIDRWLKEVEEHAPGVPKVLV 185
             +   + +  +  P +    V
Sbjct: 114 TRLHITVSKAYKVNPDM-NFEV 134

>2c9w_A Suppressor of cytokine signaling 2; growth regulation, SH2 domain, signal transduction inhibitor nuclear protein; 1.9A {Homo sapiens} SCOP: a.271.1.1 d.93.1.1 Length = 169

 Score = 40.6 bits (95), Expect = 3e-04
 Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 2/41 (4%)

Query: 312 LSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY 352
           L  S  SLQ LC   I       AI  LPLP  +K +L+ Y
Sbjct: 127 LYTSAPSLQHLCRLTI--NKCTGAIWGLPLPTRLKDYLEEY 165

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	432
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.97
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.97
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.97
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.97
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.97
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.97
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.97
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.97
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.97
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.97
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.97
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.97
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.97
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.97
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.97
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.97
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.97
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.97
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.97
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.97
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.96
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.96
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.96
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.96
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.96
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.96
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.96
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.96
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.96
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.96
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.96
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.96
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.96
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.96
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.96
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.96
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.96
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.96
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.96
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.96
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.96
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.96
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.96
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.96
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.96
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.96
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.96
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.96
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.96
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.96
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.96
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.96
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.96
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.96
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.96
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.96
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.96
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.96
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.96
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.96
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.96
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.96
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.96
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.96
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.96
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.96
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.96
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.96
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.96
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.96
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.96
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.95
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.95
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.95
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.95
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.95
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.95
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.95
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.95
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.95
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.94
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.94
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.94
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.94
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.94
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.94
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.94
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.94
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.89
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.94
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.93
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.93
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.93
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.93
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.93
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.93
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.93
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.93
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.93
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.93
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.92
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.92
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.91
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.91
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.91
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.91
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.9
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.9
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.9
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.9
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.89
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.89
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.89
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.89
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.88
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.88
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.88
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.87
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.86
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.86
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.86
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.86
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.84
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.84
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.83
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.83
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.82
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.82
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.81
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.8
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.8
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.79
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.78
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.77
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.76
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.75
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.75
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.74
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.74
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.74
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.74
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.74
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.73
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.73
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.72
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.72
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.72
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.71
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.71
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.7
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.7
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.7
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.7
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.7
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.69
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.69
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.69
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.68
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.68
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.68
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.67
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.67
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.67
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.66
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.66
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.66
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.65
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.65
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.64
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.64
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.63
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.62
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.61
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.59
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.59
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.59
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.57
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.57
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.56
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.56
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.56
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.56
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.56
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.54
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.54
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.52
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.49
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.49
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.46
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.45
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.45
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.43
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.4
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.37
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.36
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.35
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.33
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.32
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.32
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.26
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.21
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.15
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.07
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.02
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.02
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	98.95
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.9
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.79
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.79
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	98.77
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.7
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.7
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.66
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.37
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.27
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.02
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.99
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	97.95
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.93
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.84
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.73
2jz3_A	40	Suppressor of cytokine signaling 3; SOCS proteins,	97.7
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.67
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.56
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.38
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.36
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.31
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.23
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.06
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.95
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.67
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.65
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	96.6
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	96.57
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.42
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	96.29
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.9
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	95.8
2c9w_A	169	Suppressor of cytokine signaling 2; growth regulat	95.72
2izv_A	187	Suppressor of cytokine signaling 4; signal transdu	95.68
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.46
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	95.37
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	95.05
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	95.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	94.98
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	94.93
2xxa_A	433	Signal recognition particle protein; protein trans	94.93
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	94.92
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.82
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	94.78
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.68
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.68
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	94.63
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.47
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	94.43
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	94.32
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	94.06
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	93.99
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.96
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	93.93
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	93.93
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.87
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.74
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.65
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.63
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.62
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	93.59
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.56
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.56
2chg_A	226	Replication factor C small subunit; DNA-binding pr	93.49
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.35
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	93.25
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.22
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.11
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	93.05
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	92.99
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	92.98
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	92.94
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	92.92
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	92.79
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	92.73
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	92.67
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	92.61
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	92.59
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.57
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	92.54
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	92.52
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	92.48
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	92.46
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.45
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	92.37
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	92.35
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	92.3
3uc9_A	233	Increased recombination centers protein 6; rossman	92.28
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	92.23
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	92.09
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.06
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	91.99
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	91.96
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	91.91
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	91.9
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	91.86
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	91.81
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	91.78
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	91.73
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	91.72
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	91.66
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	91.64
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	91.62
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	91.58
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	91.57
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	91.5
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	91.49
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	91.47
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	91.41
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	91.33
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.25
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	91.24
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	91.2
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	91.18
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	91.12
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.06
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	91.05
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	91.03
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	91.03
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	91.0
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	91.0
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	90.98
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	90.95
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	90.94
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	90.93
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	90.91
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	90.88
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	90.71
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	90.71
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	90.67
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	90.61
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	90.6
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	90.55
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	90.53
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	90.43
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	90.43
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	90.42
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	90.4
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	90.4
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	90.39
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	90.35
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	90.35
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	90.33
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	90.31
3co5_A	143	Putative two-component system transcriptional RES	90.29
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	90.28
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	90.25
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	90.25
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	90.24
4a74_A	231	DNA repair and recombination protein RADA; hydrola	90.2
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	90.15
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	90.09
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	90.02
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	90.01
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	90.01
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	90.0
1b0u_A	262	Histidine permease; ABC transporter, transport pro	89.96
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	89.93
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	89.9
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	89.82
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	89.76
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	89.75
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	89.75
1sgw_A	214	Putative ABC transporter; structural genomics, P p	89.72
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	89.72
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	89.71
1g6h_A	257	High-affinity branched-chain amino acid transport	89.71
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	89.7
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	89.69
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	89.67
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	89.67
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	89.66
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	89.64
2eyu_A	261	Twitching motility protein PILT; pilus retraction	89.59
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	89.57
1ji0_A	240	ABC transporter; ATP binding protein, structural g	89.45
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	89.45
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	89.45
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	89.43
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	89.39
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	89.39
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	89.38
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	89.33
2ghi_A	260	Transport protein; multidrug resistance protein, M	89.19
1via_A	175	Shikimate kinase; structural genomics, transferase	89.16
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	89.15
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	89.14
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	89.13
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	89.13
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	89.12
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	89.09
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	89.07
1nrj_B	218	SR-beta, signal recognition particle receptor beta	89.01
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	89.0
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	89.0
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	88.97
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	88.94
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	88.94
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	88.93
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	88.91
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	88.9
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	88.88
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	88.86
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	88.82
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	88.77
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	88.75
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	88.68
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	88.67
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	88.67
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	88.61
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	88.57
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	88.54
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	88.53
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	88.51
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	88.5
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	88.45
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	88.39
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	88.26
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	88.22
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	88.18
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	88.14
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	88.12
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	88.12
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	88.12
3bos_A	242	Putative DNA replication factor; P-loop containing	88.12
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	88.11
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	88.05
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	88.04
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	87.98
3llu_A	196	RAS-related GTP-binding protein C; structural geno	87.96
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	87.93
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	87.93
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	87.93
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	87.87
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	87.87
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	87.81
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	87.79
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	87.78
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	87.6
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	87.54
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	87.45
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	87.37
2fh5_B	214	SR-beta, signal recognition particle receptor beta	87.34
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	87.31
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	87.29
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	87.27
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	87.26
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	87.25
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	87.25
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	87.13
2vli_A	183	Antibiotic resistance protein; transferase, tunica	87.12
2cvh_A	220	DNA repair and recombination protein RADB; filamen	87.08
3kta_A	182	Chromosome segregation protein SMC; structural mai	87.05
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	87.05
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	87.03
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	87.02
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	87.01
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	86.95
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	86.94
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	86.87
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	86.84
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	86.8
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	86.79
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	86.75
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	86.72
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	86.67
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	86.66
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	86.62
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	86.6
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	86.55
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	86.38
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	86.26
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	86.2
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	86.17
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	86.17
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	86.12
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	86.05
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	85.99
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	85.89
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	85.84
2ewv_A	372	Twitching motility protein PILT; pilus retraction	85.84
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	85.78
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	85.56
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	85.56
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	85.53
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	85.48
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	85.44
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	85.38
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	85.35
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	85.34
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	85.33
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	85.31
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	85.31

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=7.3e-36  Score=280.96  Aligned_cols=166  Identities=29%  Similarity=0.544  Sum_probs=141.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+|||++|||||||+++| ..+.         +...+.+++|     +++..+.+.+++..++++||||+|+++|.
T Consensus        12 k~~KivlvGd~~VGKTsLi~r~-~~~~---------f~~~~~~Tig-----~d~~~k~~~~~~~~v~l~iwDtaGqe~~~   76 (216)
T 4dkx_A           12 RKFKLVFLGEQSVGKTSLITRF-MYDS---------FDNTYQATIG-----IDFLSKTMYLEDRTIRLQLWDTAGLERFR   76 (216)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHH-HHSC---------CC---------------CEEEEEECSSCEEEEEEECCSCTTTCG
T ss_pred             CcEEEEEECcCCcCHHHHHHHH-HhCC---------CCCCcCCccc-----eEEEEEEEEecceEEEEEEEECCCchhhh
Confidence            4589999999999999999997 3333         4444556666     58888889999999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .+++.|+++++++|+|||+++++||+++..|+..+.... +++|++|||||+||.++|+++.++++++|++++++|+|||
T Consensus        77 ~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~S  156 (216)
T 4dkx_A           77 SLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETS  156 (216)
T ss_dssp             GGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEB
T ss_pred             hHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEe
Confidence            999999999999999999999999999999999998765 7899999999999998999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhc
Q psy3450         218 PLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~  239 (432)
                      |++|.||+++|+.|++.+....
T Consensus       157 Aktg~nV~e~F~~i~~~i~~~~  178 (216)
T 4dkx_A          157 AKAGYNVKQLFRRVAAALPGME  178 (216)
T ss_dssp             TTTTBSHHHHHHHHHHHC----
T ss_pred             CCCCcCHHHHHHHHHHHHHhhh
Confidence            9999999999999999886543

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.97  E-value=2.4e-30  Score=238.01  Aligned_cols=174  Identities=25%  Similarity=0.289  Sum_probs=141.6

Q ss_pred             ccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          51 VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        51 ~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      ...+...+..+||+|+|++|||||||+++| .+..+..         ...++.     +.++....+.+++..+++.+||
T Consensus        14 ~~~~~~~~~~~ki~vvG~~~vGKSsLi~~l-~~~~~~~---------~~~~~~-----~~~~~~~~~~~~~~~~~l~i~D   78 (195)
T 3cbq_A           14 LYFQGQKDGIFKVMLVGESGVGKSTLAGTF-GGLQGDS---------AHEPEN-----PEDTYERRIMVDKEEVTLVVYD   78 (195)
T ss_dssp             --------CEEEEEEECSTTSSHHHHHHHT-CCEECCG---------GGTTTS-----CTTEEEEEEEETTEEEEEEEEC
T ss_pred             ccCCCCCCcEEEEEEECCCCCCHHHHHHHH-HhccCCc---------cCCCCc-----ccceEEEEEEECCEEEEEEEEe
Confidence            344455667899999999999999999997 2221110         111121     2366777788999999999999


Q ss_pred             CCCCcccch-hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         131 TSGQGRFCT-IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       131 t~G~e~~~~-l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                      |+|++.+.. ++..+++++|++|+|||++++++|+.+..|+.++....  .++|++|||||+|+.+++.+..++++.+++
T Consensus        79 t~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~  158 (195)
T 3cbq_A           79 IWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG  158 (195)
T ss_dssp             CCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHH
T ss_pred             cCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHH
Confidence            999998765 77888999999999999999999999999999998765  479999999999998888899999999999


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      .++++|+|+||++|.||+++|++|++.+.++.
T Consensus       159 ~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~~~  190 (195)
T 3cbq_A          159 TLSCKHIETSAALHHNTRELFEGAVRQIRLRR  190 (195)
T ss_dssp             HTTCEEEEEBTTTTBSHHHHHHHHHHHHHTTC
T ss_pred             HhCCEEEEEcCCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999986543

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=3e-30  Score=238.95  Aligned_cols=172  Identities=35%  Similarity=0.611  Sum_probs=148.7

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      ...++..+||+++|++|||||||+++| .++.+         ...+.+++|     .++....+.+++..+.+++|||+|
T Consensus        20 ~~~~~~~~ki~lvG~~~vGKSsLi~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~l~Dt~G   84 (201)
T 2ew1_A           20 MEDYDFLFKIVLIGNAGVGKTCLVRRF-TQGLF---------PPGQGATIG-----VDFMIKTVEINGEKVKLQIWDTAG   84 (201)
T ss_dssp             --CCSEEEEEEEEESTTSSHHHHHHHH-HHSSC---------CTTCCCCCS-----EEEEEEEEEETTEEEEEEEEEECC
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHH-HhCCC---------CCCCCCccc-----eeEEEEEEEECCEEEEEEEEECCC
Confidence            445678899999999999999999997 33333         222334443     477778888999999999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      +++|..++..+++++|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+.+++++..++++.+++..+++
T Consensus        85 ~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~  164 (201)
T 2ew1_A           85 QERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMY  164 (201)
T ss_dssp             SGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCC
T ss_pred             cHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCE
Confidence            99999999999999999999999999999999999999998775 57999999999999877888899999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      |+++||++|.||+++|++|++.+.++..
T Consensus       165 ~~~~Sa~~g~gv~~l~~~l~~~i~~~~~  192 (201)
T 2ew1_A          165 YLETSAKESDNVEKLFLDLACRLISEAR  192 (201)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999876543

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.97  E-value=2.2e-30  Score=238.99  Aligned_cols=173  Identities=36%  Similarity=0.607  Sum_probs=144.4

Q ss_pred             cccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          52 ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        52 ~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      .+....+..+||+|+|++|||||||+++| ....+         ...+.+++|     .++....+.+++..+.+.||||
T Consensus        21 ~~~~~~~~~~ki~vvG~~~vGKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~Dt   85 (201)
T 2hup_A           21 DPDEQYDFLFKLVLVGDASVGKTCVVQRF-KTGAF---------SERQGSTIG-----VDFTMKTLEIQGKRVKLQIWDT   85 (201)
T ss_dssp             -----CCEEEEEEEEECTTSSHHHHHHHH-HHSCC------------------------CEEEEEEEETTEEEEEEEECC
T ss_pred             CcccccccceEEEEECcCCCCHHHHHHHH-hhCCC---------CCCCCCCcc-----eEEEEEEEEECCEEEEEEEEEC
Confidence            44556678899999999999999999998 33333         222333433     4677788888998899999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      +|+++|..++..+++++|++|+|||++++++|+.+..|+..+.... +++|++||+||+|+.+++.+..++++++++..+
T Consensus        86 ~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~  165 (201)
T 2hup_A           86 AGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYD  165 (201)
T ss_dssp             TTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTT
T ss_pred             CCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999998876 679999999999998778889999999999999


Q ss_pred             C-cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         211 M-AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       211 ~-~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      + +++++||++|.||+++|++|++.+.++.
T Consensus       166 ~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  195 (201)
T 2hup_A          166 ILCAIETSAKDSSNVEEAFLRVATELIMRH  195 (201)
T ss_dssp             CSEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            9 9999999999999999999999997654

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.97  E-value=1.6e-30  Score=234.43  Aligned_cols=169  Identities=45%  Similarity=0.752  Sum_probs=122.5

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..++.+||+++|++|||||||+++| .+..         +...+.++++     .++....+.+++..+.+.+|||+|++
T Consensus         4 ~~~~~~ki~v~G~~~~GKssl~~~l-~~~~---------~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~   68 (183)
T 2fu5_C            4 TYDYLFKLLLIGDSGVGKTCVLFRF-SEDA---------FNSTFISTIG-----IDFKIRTIELDGKRIKLQIWDTAGQE   68 (183)
T ss_dssp             CCSEEEEEEEECCCCC--------------------------CHHHHHC-----EEEEEEEEEETTEEEEEEEEEC----
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHH-HhCC---------CCCCCCCccc-----ceeEEEEEEECCEEEEEEEEcCCCCh
Confidence            3467899999999999999999997 2322         2222333333     46777788889999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++..++..+++++|++|+|||++++.+|+.+..|+..+.... +++|++||+||+|+.+++.+..++++++++.++++++
T Consensus        69 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~  148 (183)
T 2fu5_C           69 RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFM  148 (183)
T ss_dssp             -----CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEE
T ss_pred             hhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEE
Confidence            999999999999999999999999999999999999998764 5799999999999988788899999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++||++|.||+++|++|.+.+.++.
T Consensus       149 ~~Sa~~~~~i~~l~~~l~~~i~~~~  173 (183)
T 2fu5_C          149 ETSAKANINVENAFFTLARDIKAKM  173 (183)
T ss_dssp             ECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999987654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.97  E-value=5.6e-30  Score=229.19  Aligned_cols=170  Identities=35%  Similarity=0.664  Sum_probs=147.4

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ...+..+||+++|++|||||||+++| .+..+         ...+.++.+     .++....+.+++..+.+.+|||+|+
T Consensus         4 ~~~~~~~~i~v~G~~~~GKssl~~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~   68 (181)
T 3tw8_B            4 RDYDHLFKLLIIGDSGVGKSSLLLRF-ADNTF---------SGSYITTIG-----VDFKIRTVEINGEKVKLQIWDTAGQ   68 (181)
T ss_dssp             --CCEEEEEEEECCTTSCHHHHHHHH-CSCC------------CCTTTBS-----EEEEEEEEEETTEEEEEEEEEETTG
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHH-hcCCC---------CCccCCCce-----eEEEEEEEEECCEEEEEEEEcCCCc
Confidence            34567899999999999999999998 33332         222233332     4677788888999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +.+..++..+++++|++|+|||++++.+|+.+..|+..+....+++|++||+||+|+.+.+.+..+++..++...+++++
T Consensus        69 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (181)
T 3tw8_B           69 ERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLF  148 (181)
T ss_dssp             GGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEE
T ss_pred             hhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEE
Confidence            99999999999999999999999999999999999999998888899999999999988888888999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++||++|.|++++|++|.+.+.+..
T Consensus       149 ~~Sa~~~~gi~~l~~~l~~~~~~~~  173 (181)
T 3tw8_B          149 ETSAKENVNVEEMFNCITELVLRAK  173 (181)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999987654

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.97  E-value=5.7e-30  Score=233.45  Aligned_cols=173  Identities=34%  Similarity=0.632  Sum_probs=147.9

Q ss_pred             cccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          52 ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        52 ~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ......++.+||+|+|++|||||||+++| .+..+.         ....+++|     .++....+.+++..+.+.+|||
T Consensus        13 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt   77 (191)
T 2a5j_A           13 GLVPRGSYLFKYIIIGDTGVGKSCLLLQF-TDKRFQ---------PVHDLTIG-----VEFGARMVNIDGKQIKLQIWDT   77 (191)
T ss_dssp             CCCCTTCEEEEEEEESSTTSSHHHHHHHH-HHSCCC---------C-----CC-----SSEEEEEEEETTEEEEEEEECC
T ss_pred             ccccccCcceEEEEECcCCCCHHHHHHHH-hcCCCC---------CCCCCccc-----ceeEEEEEEECCEEEEEEEEEC
Confidence            44556678899999999999999999998 333322         22223333     4677778888999999999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      +|++++..++..+++++|++|+|||++++++|+.+..|+..+.... +++|++||+||+|+.+++++..++++.+++.++
T Consensus        78 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~  157 (191)
T 2a5j_A           78 AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHG  157 (191)
T ss_dssp             TTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHT
T ss_pred             CCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999998764 679999999999998778888999999999999


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++++++||++|.||+++|++|++.+.++.
T Consensus       158 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          158 LIFMETSAKTACNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             CEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999987654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.97  E-value=1.3e-29  Score=230.65  Aligned_cols=172  Identities=41%  Similarity=0.703  Sum_probs=149.0

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ...+..+||+|+|++|||||||+++| .+..+         ...+.++.+     .++....+.+++..+.+.||||+|+
T Consensus        11 ~~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~   75 (196)
T 3tkl_A           11 PEYDYLFKLLLIGDSGVGKSCLLLRF-ADDTY---------TESYISTIG-----VDFKIRTIELDGKTIKLQIWDTAGQ   75 (196)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHH-HHSCC---------CSCCCCCSS-----EEEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHH-HcCCC---------CCCCCCccc-----ceEEEEEEEECCEEEEEEEEECCCc
Confidence            34567899999999999999999998 33332         222233333     4677788888999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                      +++..++..+++.+|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+...+.+..+++..+++.+++++
T Consensus        76 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  155 (196)
T 3tkl_A           76 ERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPF  155 (196)
T ss_dssp             GGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCE
T ss_pred             HhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcE
Confidence            9999999999999999999999999999999999999998775 579999999999998888899999999999999999


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcCC
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNGM  241 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~~  241 (432)
                      +++||++|.||+++|++|++.+.++...
T Consensus       156 ~~~Sa~~g~gv~~l~~~l~~~i~~~~~~  183 (196)
T 3tkl_A          156 LETSAKNATNVEQSFMTMAAEIKKRMGP  183 (196)
T ss_dssp             EEECTTTCTTHHHHHHHHHHHHHHHC--
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999876543

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.97  E-value=3.7e-30  Score=240.14  Aligned_cols=170  Identities=22%  Similarity=0.348  Sum_probs=140.9

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......+||+|+|++|||||||+++| .++.+         ...+.++++      +.....+.+++..+.+.||||+|+
T Consensus        22 ~~~~~~~ki~vvG~~~vGKSsL~~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~   85 (214)
T 3q3j_B           22 QPVVARCKLVLVGDVQCGKTAMLQVL-AKDCY---------PETYVPTVF------ENYTACLETEEQRVELSLWDTSGS   85 (214)
T ss_dssp             -----CEEEEEECSTTSSHHHHHHHH-HHSCC---------CSSCCCCSE------EEEEEEEEC--CEEEEEEEEECCS
T ss_pred             CCccceEEEEEECcCCCCHHHHHHHH-hcCCC---------CCCcCCeee------eeEEEEEEECCEEEEEEEEECCCC
Confidence            34456799999999999999999998 33333         333344554      334566778888999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhh-HHHHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHH
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDG-IDRWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTRE  201 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~-l~~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee  201 (432)
                      ++|..++..+++++|++|+|||++++++|++ +..|+..+....+++|++|||||+|+.++            +.+..++
T Consensus        86 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~  165 (214)
T 3q3j_B           86 PYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQ  165 (214)
T ss_dssp             GGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHH
T ss_pred             HhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccchhhhhhhcccccCccCHHH
Confidence            9999999999999999999999999999999 69999999998888999999999999653            7799999


Q ss_pred             HHHHHHhcCC-cEEEEcCCCCCC-HHHHHHHHHHHHhhhcC
Q psy3450         202 AEMYAIKNQM-AFFEVSPLCDFN-IRESFTELSRRALQRNG  240 (432)
Q Consensus       202 ~~~~a~~~~~-~~~evSAktg~n-I~elf~~L~~~i~~~~~  240 (432)
                      +..+++.+++ +|+||||++|.| |+++|++|++.+.++..
T Consensus       166 ~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          166 GCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             HHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhccCc
Confidence            9999999999 999999999998 99999999999876543

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.97  E-value=9.1e-30  Score=229.06  Aligned_cols=166  Identities=26%  Similarity=0.364  Sum_probs=142.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| .++.+         ...+.++.+      +.....+.+++..+.+++|||+|++++.
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   68 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQF-VEGQF---------VDSYDPTIE------NTFTKLITVNGQEYHLQLVDTAGQDEYS   68 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHH-HHSSC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCCCCTTC
T ss_pred             ceEEEEEECcCCCCHHHHHHHH-HcCCC---------CCCCCCCcc------ccEEEEEEECCEEEEEEEEeCCCchhhh
Confidence            5689999999999999999998 22222         233334444      3336777889999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .++..+++++|++|+|||++++++|+.+..|+.++....  +++|++||+||+|+.+++.+..++++++++.++++|+++
T Consensus        69 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  148 (181)
T 3t5g_A           69 IFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLES  148 (181)
T ss_dssp             CCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEC
T ss_pred             HHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEE
Confidence            999999999999999999999999999999999987664  479999999999998889999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         217 SPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ||++|.|++++|++|++.+.+.+.
T Consensus       149 Sa~~~~~v~~l~~~l~~~~~~~~~  172 (181)
T 3t5g_A          149 SAKENQTAVDVFRRIILEAEKMDG  172 (181)
T ss_dssp             CTTSHHHHHHHHHHHHHHHHTC--
T ss_pred             ecCCCCCHHHHHHHHHHHHHHhcC
Confidence            999999999999999999977654

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.97  E-value=1.3e-29  Score=231.36  Aligned_cols=169  Identities=22%  Similarity=0.364  Sum_probs=144.3

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......+||+++|++|||||||+++| .++.+         ...+.++++      +.....+.+++..+.+.+|||+|+
T Consensus        18 ~~~~~~~ki~~vG~~~~GKSsl~~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~   81 (194)
T 3reg_A           18 ENGKKALKIVVVGDGAVGKTCLLLAF-SKGEI---------PTAYVPTVF------ENFSHVMKYKNEEFILHLWDTAGQ   81 (194)
T ss_dssp             ---CEEEEEEEECSTTSSHHHHHHHH-HHSCC---------CSSCCCCSE------EEEEEEEEETTEEEEEEEEEECCS
T ss_pred             cccceeeEEEEECcCCCCHHHHHHHH-hcCCC---------CCccCCeee------eeeEEEEEECCEEEEEEEEECCCc
Confidence            34456799999999999999999998 33322         223334444      444556778999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC--CcccCHHHHHHHHHhcCC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF--NRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~--~r~v~~ee~~~~a~~~~~  211 (432)
                      +++..++..+++++|++|+|||++++++|+++ ..|+..+....+++|++||+||+|+.+  .+.+..+++.++++.+++
T Consensus        82 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  161 (194)
T 3reg_A           82 EEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGC  161 (194)
T ss_dssp             GGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTC
T ss_pred             HHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCC
Confidence            99999999999999999999999999999997 889999998888899999999999975  377889999999999999


Q ss_pred             c-EEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         212 A-FFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       212 ~-~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      . |+++||++|.||+++|++|++.+.++.
T Consensus       162 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (194)
T 3reg_A          162 VAYIEASSVAKIGLNEVFEKSVDCIFSNK  190 (194)
T ss_dssp             SCEEECBTTTTBSHHHHHHHHHHHHHCSC
T ss_pred             CEEEEeecCCCCCHHHHHHHHHHHHHhcC
Confidence            7 999999999999999999999997654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.97  E-value=8.5e-30  Score=226.04  Aligned_cols=166  Identities=33%  Similarity=0.565  Sum_probs=136.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .+..+||+++|++|||||||+++| .++.+.         ..+.++++     .++....+.+++..+.+.+|||+|+++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~~~   67 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRY-CENKFN---------DKHITTLG-----ASFLTKKLNIGGKRVNLAIWDTAGQER   67 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHH-HHCCCC---------SSCCCCCS-----CEEEEEEEESSSCEEEEEEEECCCC--
T ss_pred             CCcceEEEEECcCCCCHHHHHHHH-HcCCCC---------cCCCCccc-----eEEEEEEEEECCEEEEEEEEECCCcHh
Confidence            356799999999999999999998 333332         22233443     356667788888899999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..++..+++++|++|+|||++++.+|+.+..|+..+.... +++|+++|+||+|+.+++++..++++++++..++++++
T Consensus        68 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  147 (170)
T 1z08_A           68 FHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYH  147 (170)
T ss_dssp             -----CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             hhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999999999999999999999987654 57899999999999877888899999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~  237 (432)
                      +||++|.|++++|++|++.+.+
T Consensus       148 ~Sa~~~~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A          148 TSAKQNKGIEELFLDLCKRMIE  169 (170)
T ss_dssp             EBTTTTBSHHHHHHHHHHHHHC
T ss_pred             ecCCCCCCHHHHHHHHHHHHhh
Confidence            9999999999999999998754

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.97  E-value=2.4e-29  Score=228.65  Aligned_cols=170  Identities=35%  Similarity=0.625  Sum_probs=146.9

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      ....++.+||+|+|++|||||||+++| .+..+.         ..+.+++|     .++....+..++..+.+.+|||+|
T Consensus        16 ~~~~~~~~ki~vvG~~~~GKSsli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G   80 (189)
T 2gf9_A           16 PRGSDYMFKLLLIGNSSVGKTSFLFRY-ADDSFT---------PAFVSTVG-----IDFKVKTVYRHDKRIKLQIWDTAG   80 (189)
T ss_dssp             CTTCSEEEEEEEECSTTSSHHHHHHHH-HHSCCC---------CSCCCCCC-----CEEEEEEEEETTEEEEEEEEECCS
T ss_pred             CcccCceeEEEEECCCCCCHHHHHHHH-HcCCCC---------CCcCCcee-----EEEEEEEEEECCeEEEEEEEeCCC
Confidence            344577899999999999999999998 333332         22233333     366667778888899999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      ++++..++..+++++|++|+|||++++.+|+.+..|+..+.... +++|++||+||+|+.+++.+..++++++++.++++
T Consensus        81 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  160 (189)
T 2gf9_A           81 QERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFE  160 (189)
T ss_dssp             CCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCE
T ss_pred             cHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCe
Confidence            99999999999999999999999999999999999999998875 57999999999999877888889999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++||++|.|++++|++|++.+.++
T Consensus       161 ~~~~Sa~~g~gi~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          161 FFEASAKENINVKQVFERLVDVICEK  186 (189)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999988664

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.97  E-value=1.8e-29  Score=225.51  Aligned_cols=167  Identities=35%  Similarity=0.681  Sum_probs=144.6

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+|+|++|||||||+++| .+..+.         ..+.++.+     .++....+.+++..+.+.+|||+|++
T Consensus        11 ~~~~~~~i~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~   75 (179)
T 1z0f_A           11 NYSYIFKYIIIGDMGVGKSCLLHQF-TEKKFM---------ADCPHTIG-----VEFGTRIIEVSGQKIKLQIWDTAGQE   75 (179)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHH-HHSCCC---------SSCTTSCC-----CCEEEEEEEETTEEEEEEEEECTTGG
T ss_pred             ccccceEEEEECCCCCCHHHHHHHH-HcCCCC---------CCCCCccc-----eEEEEEEEEECCeEEEEEEEECCCCh
Confidence            4567899999999999999999998 333322         22223333     36667778889989999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++..++..+++++|++|+|||++++.+++.+..|+..+.... +++|+++|+||+|+.+++++..++++++++.++++++
T Consensus        76 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  155 (179)
T 1z0f_A           76 RFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFL  155 (179)
T ss_dssp             GTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEE
T ss_pred             HhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999999999999999998766 6899999999999987788889999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++||++|.||+++|++|++.+.+
T Consensus       156 ~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          156 EASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             EEeCCCCCCHHHHHHHHHHHHhh
Confidence            99999999999999999998854

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.97  E-value=2.3e-29  Score=231.82  Aligned_cols=173  Identities=42%  Similarity=0.719  Sum_probs=150.0

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .+..+||+|+|++|||||||+++| .+..+         ...+.++++     .++....+.+++..+.+.+|||+|+++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~~   69 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRF-SDDTY---------TNDYISTIG-----VDFKIKTVELDGKTVKLQIWDTAGQER   69 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHH-HHCCC---------CTTCCCSSC-----CCEEEEEEEETTEEEEEEEECCTTTTT
T ss_pred             cCcceEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCCccc-----ceeEEEEEEECCEEEEEEEEeCCChHH
Confidence            467899999999999999999998 33333         222334443     467777888899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..++..+++++|++|+|||++++.+|+.+..|+..+.... +++|++||+||+|+.+++.+..+++..+++..++++++
T Consensus        70 ~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  149 (206)
T 2bcg_Y           70 FRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLE  149 (206)
T ss_dssp             TTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEE
T ss_pred             HHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999999999999999999999998765 67999999999999888888999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhcCCccc
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRNGMERL  244 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~~~~~~  244 (432)
                      +||++|.||+++|++|.+.+.+......+
T Consensus       150 ~Sa~~g~gi~~l~~~l~~~i~~~~~~~~~  178 (206)
T 2bcg_Y          150 TSALDSTNVEDAFLTMARQIKESMSQQNL  178 (206)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHCCHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHHHhhccc
Confidence            99999999999999999999876554443

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.97  E-value=1.1e-29  Score=224.67  Aligned_cols=165  Identities=30%  Similarity=0.553  Sum_probs=143.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|++|||||||+++| .+..+         ...+.+++|     .++....+.+++..+.+.+|||+|++++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   67 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRY-CKGIF---------TKDYKKTIG-----VDFLERQIQVNDEDVRLMLWDTAGQEEF   67 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHH-HHCCC---------CCCSSCCCS-----SSEEEEEEEETTEEEEEEEECCTTGGGT
T ss_pred             ceeEEEEEECcCCCCHHHHHHHH-HcCCC---------CCCCCCceE-----EEEEEEEEEECCEEEEEEEEcCCCcHhH
Confidence            45799999999999999999998 33332         222333433     4777788888998999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ..++..+++++|++|+|||++++.+++.+..|+..+....++.|+++|+||+|+.+++++..++++++++.++++++++|
T Consensus        68 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  147 (168)
T 1z2a_A           68 DAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTS  147 (168)
T ss_dssp             TCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECB
T ss_pred             HHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEe
Confidence            99999999999999999999999999999999999987667899999999999987778888999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++|.|++++|++|.+.+.+
T Consensus       148 a~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          148 VKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             TTTTBSSHHHHHHHHHHHHC
T ss_pred             cCCCCCHHHHHHHHHHHHhh
Confidence            99999999999999998854

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.97  E-value=7.6e-30  Score=232.52  Aligned_cols=164  Identities=27%  Similarity=0.361  Sum_probs=136.8

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+++| .++.+         ...+.++++      +.....+.+++..+.++||||+|+++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~   81 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKF-LTKRF---------ISEYDPNLE------DTYSSEETVDHQPVHLRVMDTADLDT   81 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHH-HHSSC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCC---
T ss_pred             CCceEEEEEECCCCCcHHHHHHHH-HhCCC---------CcccCCCcc------ceeeEEEEECCEEEEEEEEECCCCCc
Confidence            456799999999999999999998 33333         223344554      33355677899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      +..+ ..+++.+|++|+|||++++++|+++..|+.++....    +++|++||+||+|+.+++++..+++.++++.++++
T Consensus        82 ~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~  160 (187)
T 3c5c_A           82 PRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCL  160 (187)
T ss_dssp             CCCT-HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCE
T ss_pred             chhH-HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCc
Confidence            8875 679999999999999999999999999999988763    57999999999999877889999999999999999


Q ss_pred             EEEEcC-CCCCCHHHHHHHHHHHHhh
Q psy3450         213 FFEVSP-LCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       213 ~~evSA-ktg~nI~elf~~L~~~i~~  237 (432)
                      |+++|| ++|.||+++|+.|++.+.+
T Consensus       161 ~~e~Sa~~~g~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          161 FFEVSACLDFEHVQHVFHEAVREARR  186 (187)
T ss_dssp             EEECCSSSCSHHHHHHHHHHHHHHHC
T ss_pred             EEEEeecCccccHHHHHHHHHHHHhh
Confidence            999999 8999999999999998754

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.97  E-value=1.8e-29  Score=227.51  Aligned_cols=166  Identities=27%  Similarity=0.422  Sum_probs=143.8

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .....+||+++|++|||||||+++|. +..+         ...+.++.+      +.....+.+++..+.+.+|||+|++
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsl~~~l~-~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~   77 (183)
T 3kkq_A           14 ENLPTYKLVVVGDGGVGKSALTIQFF-QKIF---------VDDYDPTIE------DSYLKHTEIDNQWAILDVLDTAGQE   77 (183)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHH-HSCC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCSCG
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHH-hCCC---------CCCCCCCcc------ceeEEEEEeCCcEEEEEEEECCCch
Confidence            44568999999999999999999983 2222         222334443      3346777889999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                      ++..++..+++++|++|+|||++++++|+.+..|+..+...  ..++|+++|+||+|+.+++.+..++++++++.++++|
T Consensus        78 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~  157 (183)
T 3kkq_A           78 EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPY  157 (183)
T ss_dssp             GGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCE
T ss_pred             hhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeE
Confidence            99999999999999999999999999999999999998663  2679999999999998888999999999999999999


Q ss_pred             EEEcCC-CCCCHHHHHHHHHHHHhh
Q psy3450         214 FEVSPL-CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       214 ~evSAk-tg~nI~elf~~L~~~i~~  237 (432)
                      +++||+ +|.||+++|++|.+.+.+
T Consensus       158 ~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          158 IETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             EEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             EEeccCCCCCCHHHHHHHHHHHHhh
Confidence            999999 999999999999998864

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.97  E-value=1.6e-29  Score=228.23  Aligned_cols=169  Identities=38%  Similarity=0.684  Sum_probs=146.4

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+|+|++|||||||+++| .+..+.         ..+.++++     .++....+.+++..+.+.+|||+|++
T Consensus         6 ~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~   70 (186)
T 2bme_A            6 TYDFLFKFLVIGNAGTGKSCLLHQF-IEKKFK---------DDSNHTIG-----VEFGSKIINVGGKYVKLQIWDTAGQE   70 (186)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHH-HHSSCC---------TTCCCCSE-----EEEEEEEEEETTEEEEEEEEEECCSG
T ss_pred             ccccceEEEEECCCCCCHHHHHHHH-HcCCCC---------CCCCCccc-----eEEEEEEEEECCEEEEEEEEeCCCcH
Confidence            4567899999999999999999997 333332         22223332     36667778889988999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++..++..+++++|++|+|||++++++|+.+..|+..+.... +++|++||+||+|+..++.+..+++..+++..+++++
T Consensus        71 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  150 (186)
T 2bme_A           71 RFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFL  150 (186)
T ss_dssp             GGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEE
T ss_pred             HHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999999999999999988765 6799999999999987788888999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++||++|.||+++|+++++.+.++.
T Consensus       151 ~~Sa~~~~gi~~l~~~l~~~~~~~~  175 (186)
T 2bme_A          151 ETSALTGENVEEAFVQCARKILNKI  175 (186)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EecCCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999987654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.97  E-value=1.6e-29  Score=231.07  Aligned_cols=171  Identities=35%  Similarity=0.649  Sum_probs=142.9

Q ss_pred             cccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          52 ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        52 ~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ..+...+..+||+|+|++|||||||+++| .++.+         ...+.+++|     .++....+.+++..+.+.+|||
T Consensus        18 ~~p~~~~~~~ki~vvG~~~~GKSsLi~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~l~Dt   82 (192)
T 2il1_A           18 GSPRPADFKLQVIIIGSRGVGKTSLMERF-TDDTF---------CEACKSTVG-----VDFKIKTVELRGKKIRLQIWDT   82 (192)
T ss_dssp             ----CCSEEEEEEEECSTTSSHHHHHHHH-CC-----------------CCTT-----EEEEEEEEEETTEEEEEEEEEE
T ss_pred             CCCcccCCceEEEEECCCCCCHHHHHHHH-hcCCC---------CcCCCCccc-----eeEEEEEEEECCeEEEEEEEeC
Confidence            34455678899999999999999999998 33322         222334443     4677778888998999999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhc-
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-  209 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-  209 (432)
                      +|++++..++..+++++|++|+|||++++.+|+++..|+..+.... .++|++||+||+|+.+++++..++++++++.. 
T Consensus        83 ~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~  162 (192)
T 2il1_A           83 AGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQIT  162 (192)
T ss_dssp             CCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTST
T ss_pred             CCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999988776 47999999999999877888889999999885 


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++++||++|.||+++|++|.+.+.+
T Consensus       163 ~~~~~~~SA~~g~gi~~l~~~l~~~i~~  190 (192)
T 2il1_A          163 GMRFCEASAKDNFNVDEIFLKLVDDILK  190 (192)
T ss_dssp             TCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            7899999999999999999999998865

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.97  E-value=1.6e-29  Score=224.30  Aligned_cols=164  Identities=25%  Similarity=0.322  Sum_probs=133.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .+..+.         ....++     .+.++....+.+++..+.+.+|||+|++++..
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l-~~~~~~---------~~~~~~-----~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   66 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTF-GGLQGD---------HAHEME-----NSEDTYERRIMVDKEEVTLIVYDIWEQGDAGG   66 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HCC--------------------------CEEEEEEEETTEEEEEEEECCCCC-----
T ss_pred             cEEEEEECCCCCCHHHHHHHH-HhccCc---------ccccCC-----CcCCeeeEEEEECCeEEEEEEEECCCccccch
Confidence            589999999999999999997 322221         111111     12367778888999999999999999998876


Q ss_pred             -hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC--CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         140 -IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP--GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       140 -l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~--~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                       ++..+++++|++++|||++++++|+.+..|+.++....+  ++|+++|+||+|+.+++++..+++..+++.++++|+++
T Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  146 (169)
T 3q85_A           67 WLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIET  146 (169)
T ss_dssp             ---CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEEC
T ss_pred             hhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEe
Confidence             677788999999999999999999999999999988764  79999999999998888899999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhh
Q psy3450         217 SPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~  238 (432)
                      ||++|.|++++|+++++.+..+
T Consensus       147 Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          147 SAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHT
T ss_pred             cCccCCCHHHHHHHHHHHHHhc
Confidence            9999999999999999988653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.96  E-value=1.4e-29  Score=226.68  Aligned_cols=166  Identities=30%  Similarity=0.462  Sum_probs=142.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECC-eEEEEEEEeCCCCcc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG-KRVKLQLWDTSGQGR  136 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~-~~v~l~i~Dt~G~e~  136 (432)
                      ...+||+++|++|||||||+++| .++.+         ...+.+++|     .++....+.+++ ..+.+++|||+|+++
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~~Dt~G~~~   68 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCF-AQETF---------GKQYKQTIG-----LDFFLRRITLPGNLNVTLQIWDIGGQTI   68 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHH-HGGGT---------THHHHHTTT-----SSEEEEEEEETTTEEEEEEEEECTTCCT
T ss_pred             CceEEEEEECcCCCCHHHHHHHH-HhCcC---------CCCCCCcee-----EEEEEEEEEeCCCCEEEEEEEECCCCcc
Confidence            45699999999999999999998 33332         222334444     477778888876 678999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCc-EEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVP-KVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iP-iILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      +..++..+++++|++|+|||++++++|+++..|+..+....   .+.| ++||+||+|+.+++.+..+++..+++.++++
T Consensus        69 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  148 (178)
T 2hxs_A           69 GGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFS  148 (178)
T ss_dssp             TCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCE
T ss_pred             ccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCc
Confidence            99999999999999999999999999999999999987743   2455 8999999999877888899999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++||++|.||+++|++|++.+.+.
T Consensus       149 ~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (178)
T 2hxs_A          149 SHFVSAKTGDSVFLCFQKVAAEILGI  174 (178)
T ss_dssp             EEEECTTTCTTHHHHHHHHHHHHTTC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999999998654

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=2.4e-30  Score=235.92  Aligned_cols=173  Identities=35%  Similarity=0.636  Sum_probs=149.9

Q ss_pred             cccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          52 ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        52 ~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ..+...++.+||+|+|++|||||||+++| .+..+         ...+.++.|     .++....+.+++..+.+.||||
T Consensus        15 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt   79 (191)
T 3dz8_A           15 YFQGNFDYMFKLLIIGNSSVGKTSFLFRY-ADDTF---------TPAFVSTVG-----IDFKVKTVYRHEKRVKLQIWDT   79 (191)
T ss_dssp             EETTEEEECEEEEEEESTTSSHHHHHHHH-HHHTT---------CCCEEEEET-----TTEEEEEEEETTTTEEEEEECH
T ss_pred             ccccccCeeeEEEEECCCCcCHHHHHHHH-hcCCC---------CcccCCCee-----eEEEEEEEEECCEEEEEEEEeC
Confidence            44556778899999999999999999998 32222         222223333     4677778888888899999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      +|++.+..++..+++++|++|+|||++++++|+.+..|+..+.... +++|++||+||+|+.+++.+..++++.+++.++
T Consensus        80 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  159 (191)
T 3dz8_A           80 AGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLG  159 (191)
T ss_dssp             HHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHT
T ss_pred             CChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999998876 679999999999998888899999999999999


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++++++||++|.||+++|++|++.+.++.
T Consensus       160 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          160 FDFFEASAKENISVRQAFERLVDAICDKM  188 (191)
T ss_dssp             CEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999987654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.96  E-value=2.8e-29  Score=228.67  Aligned_cols=172  Identities=35%  Similarity=0.637  Sum_probs=146.5

Q ss_pred             cccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          52 ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        52 ~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      ......+..+||+|+|++|||||||+++| .+..+.         ..+.+++|     .++....+.+++..+.+.||||
T Consensus        17 ~~~~~~~~~~ki~v~G~~~~GKSsLi~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt   81 (193)
T 2oil_A           17 RGSEDYNFVFKVVLIGESGVGKTNLLSRF-TRNEFS---------HDSRTTIG-----VEFSTRTVMLGTAAVKAQIWDT   81 (193)
T ss_dssp             ---CCCSEEEEEEEESSTTSSHHHHHHHH-HHSCCC---------SSCCCCSS-----EEEEEEEEEETTEEEEEEEEEE
T ss_pred             ccccccCcceEEEEECcCCCCHHHHHHHH-hcCCCC---------CCCCCccc-----eeEEEEEEEECCEEEEEEEEeC
Confidence            33455677899999999999999999998 333332         22233333     4666777888888999999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      +|++++..++..+++++|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+...+.+..+++..+++..+
T Consensus        82 ~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~  161 (193)
T 2oil_A           82 AGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNG  161 (193)
T ss_dssp             SCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTT
T ss_pred             CCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999999998765 579999999999998777888899999999999


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++++||++|.||+++|++|++.+.++
T Consensus       162 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (193)
T 2oil_A          162 LLFLETSALDSTNVELAFETVLKEIFAK  189 (193)
T ss_dssp             CEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999998764

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.96  E-value=2.7e-29  Score=222.20  Aligned_cols=162  Identities=24%  Similarity=0.319  Sum_probs=122.9

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .+..+.          ...++.|      ......+.+++..+.+.+|||+|++++..
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l-~~~~~~----------~~~~~~~------~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   64 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIF-GGVEDG----------PEAEAAG------HTYDRSIVVDGEEASLMVYDIWEQDGGRW   64 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHH-CCC--------------------------CEEEEEEEETTEEEEEEEEECC-------
T ss_pred             eEEEEEECCCCCCHHHHHHHH-cCcccc----------CCCCccc------cceEEEEEECCEEEEEEEEECCCCccchh
Confidence            579999999999999999997 222211          1222333      33346677899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++.+|++++|||++++++|+.+..|+..+....  +++|+++|+||+|+.+++.+..++++.++..++++++++|
T Consensus        65 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  144 (166)
T 3q72_A           65 LPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETS  144 (166)
T ss_dssp             --------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECB
T ss_pred             hhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEec
Confidence            99999999999999999999999999999999988764  6799999999999988889999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhh
Q psy3450         218 PLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~  238 (432)
                      |++|.|++++|++|.+.+.++
T Consensus       145 a~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          145 AALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             GGGTBSHHHHHHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHhc
Confidence            999999999999999988654

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.96  E-value=2.3e-29  Score=222.65  Aligned_cols=163  Identities=36%  Similarity=0.611  Sum_probs=141.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| ..+.+         ...+.+++|     .++....+.+++..+.+.+|||+|++++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~D~~G~~~~   68 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRF-VKGQF---------HEFQESTIG-----AAFLTQTVCLDDTTVKFEIWDTAGQERY   68 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHH-HHSCC---------CTTCCCCSS-----EEEEEEEEEETTEEEEEEEEEECCSGGG
T ss_pred             CceEEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCccc-----eEEEEEEEEECCEEEEEEEEeCCCcHHh
Confidence            35689999999999999999998 33322         222233333     3566677788888999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      ..++..+++++|++|+|||++++.+|+.+..|+..+.... +++|+++|+||+|+.+++.+..+++..+++..+++++++
T Consensus        69 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  148 (170)
T 1r2q_A           69 HSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMET  148 (170)
T ss_dssp             GGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEC
T ss_pred             hhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEE
Confidence            9999999999999999999999999999999999988764 689999999999998777888899999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHH
Q psy3450         217 SPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i  235 (432)
                      ||++|.|++++|++|.+.+
T Consensus       149 Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          149 SAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             CTTTCTTHHHHHHHHHHTS
T ss_pred             eCCCCCCHHHHHHHHHHHH
Confidence            9999999999999998866

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.96  E-value=4.8e-29  Score=222.20  Aligned_cols=166  Identities=25%  Similarity=0.328  Sum_probs=134.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc--
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR--  136 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~--  136 (432)
                      ..+||+++|++|||||||+++| .+..+...          .++.|     .++....+.+++..+.+.+|||+|++.  
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l-~~~~~~~~----------~~~~~-----~~~~~~~~~~~~~~~~~~~~D~~g~~~~~   66 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLF-AGKQERDL----------HEQLG-----EDVYERTLTVDGEDTTLVVVDTWEAEKLD   66 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHH-HCC---------------CCCSS-----SSEEEEEEEETTEEEEEEEECCC------
T ss_pred             eEEEEEEECCCCccHHHHHHHH-hcCCCccc----------cCccc-----cceeEEEEEECCEEEEEEEEecCCCCccc
Confidence            5689999999999999999997 33333211          11222     256667788899999999999999987  


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +..+...+++.+|++|+|||++++.+|+.+..|+..+....  +++|+++|+||+|+.+.+++..++++.++..++++++
T Consensus        67 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~  146 (175)
T 2nzj_A           67 KSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFI  146 (175)
T ss_dssp             -CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEE
T ss_pred             hhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEE
Confidence            67777889999999999999999999999999999888753  5799999999999988888999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ++||++|.||+++|++|++.+.++..
T Consensus       147 ~~Sa~~g~gi~~l~~~l~~~~~~~~~  172 (175)
T 2nzj_A          147 ETSATLQHNVAELFEGVVRQLRLRRR  172 (175)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHHHC
T ss_pred             EEecCCCCCHHHHHHHHHHHHHHhhc
Confidence            99999999999999999999866543

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=5e-29  Score=223.40  Aligned_cols=169  Identities=38%  Similarity=0.657  Sum_probs=137.4

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+++|++|||||||+++| .+..+..        ..+.++.+     .++....+.+++..+.+.+|||+|++
T Consensus         6 ~~~~~~~i~v~G~~~~GKssli~~l-~~~~~~~--------~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~Dt~G~~   71 (180)
T 2g6b_A            6 FYDVAFKVMLVGDSGVGKTCLLVRF-KDGAFLA--------GTFISTVG-----IDFRNKVLDVDGVKVKLQMWDTAGQE   71 (180)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHH-HHSCCCC--------CCCCCCCS-----CEEEEEEEEETTEEEEEEEEECCCC-
T ss_pred             cCCcceEEEEECcCCCCHHHHHHHH-HhCCCCC--------CCcCCcee-----eEEEEEEEEECCEEEEEEEEeCCCcH
Confidence            3467899999999999999999998 3333311        11223333     46666777889999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++..++..+++++|++|+|||++++.+++++..|+..+.... .++|++||+||+|+..++++..++++.+++.++++++
T Consensus        72 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  151 (180)
T 2g6b_A           72 RFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFM  151 (180)
T ss_dssp             -------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEE
Confidence            999999999999999999999999999999999999998866 5799999999999988888889999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++||++|.|++++|++|.+.+.++
T Consensus       152 ~~Sa~~~~gi~~l~~~l~~~~~~~  175 (180)
T 2g6b_A          152 ETSAKTGLNVDLAFTAIAKELKRR  175 (180)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHC-
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999988654

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.96  E-value=3.8e-29  Score=224.39  Aligned_cols=166  Identities=31%  Similarity=0.562  Sum_probs=143.3

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+++| ....+         .....+++|     .++....+.+++..+.+.+|||+|+++
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~   73 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRF-VKDQF---------VEFQESTIG-----AAFFSQTLAVNDATVKFEIWDTAGQER   73 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHH-HHCCC---------TTTSCCCSC-----CSEEEEEEEETTEEEEEEEEECCCSGG
T ss_pred             CccceEEEEECcCCCCHHHHHHHH-HcCCC---------CCcCCCCce-----eEEEEEEEEECCEEEEEEEEeCCCChh
Confidence            456799999999999999999998 33332         222233333     366777788899899999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..++..+++++|++|+|||++++.+|+.+..|+..+.... +++|+++|+||+|+.+.+++..+++..+++..++++++
T Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  153 (181)
T 2efe_B           74 YHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFME  153 (181)
T ss_dssp             GGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEE
T ss_pred             hhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999999999998775 57999999999999887888899999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~  237 (432)
                      +||++|.|++++|++|++.+.+
T Consensus       154 ~Sa~~g~gi~~l~~~l~~~~~~  175 (181)
T 2efe_B          154 TSAKTATNVKEIFYEIARRLPR  175 (181)
T ss_dssp             CCSSSCTTHHHHHHHHHHTCC-
T ss_pred             EECCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999999987744

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.96  E-value=5.4e-29  Score=228.62  Aligned_cols=168  Identities=34%  Similarity=0.639  Sum_probs=146.6

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..++.+||+|+|++|||||||+++| .+..+         ...+.+++|     .++....+.+++..+.+.+|||+|++
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~   68 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRY-ADDSF---------TPAFVSTVG-----IDFKVKTIYRNDKRIKLQIWDTAGLE   68 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHH-HTCCC---------CSCCCCCCS-----EEEEEEEEEETTEEEEEEEEEECCSG
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHH-hcCCC---------CCCcCCccc-----eeEEEEEEEECCeEEEEEEEECCCch
Confidence            3467899999999999999999998 33333         222334443     46667778889989999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++..++..+++++|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+.+.+.+..+++..+++.++++++
T Consensus        69 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (203)
T 1zbd_A           69 RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFF  148 (203)
T ss_dssp             GGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEE
T ss_pred             hhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEE
Confidence            999999999999999999999999999999999999998766 5799999999999988888889999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++||++|.||+++|++|.+.+.++
T Consensus       149 ~~Sa~~~~gi~~l~~~l~~~i~~~  172 (203)
T 1zbd_A          149 EASAKDNINVKQTFERLVDVICEK  172 (203)
T ss_dssp             ECBTTTTBSSHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999988765

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.96  E-value=4.4e-29  Score=228.85  Aligned_cols=169  Identities=25%  Similarity=0.419  Sum_probs=140.0

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .....+||+++|++|||||||+++| .+..+         ...+.++++      +.....+.+++..+.+.+|||+|++
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~   79 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSY-TTNGY---------PTEYIPTAF------DNFSAVVSVDGRPVRLQLCDTAGQD   79 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHH-HC-----------------CCSS------EEEEEEEEETTEEEEEEEEECCCST
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHH-HhCCC---------CCCCCCccc------ceeEEEEEECCEEEEEEEEECCCCH
Confidence            3456799999999999999999998 33223         223334443      4455677889989999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHH
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREA  202 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~  202 (432)
                      +|..++..+++++|++|+|||++++++|+++. .|+..+....+++|++||+||+|+..            .+.+..+++
T Consensus        80 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  159 (201)
T 2q3h_A           80 EFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAA  159 (201)
T ss_dssp             TCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHH
T ss_pred             HHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHH
Confidence            99999999999999999999999999999996 79999998878899999999999965            367888899


Q ss_pred             HHHHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         203 EMYAIKNQM-AFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       203 ~~~a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ..+++.+++ +|+++||++|.||+++|++|++.+.+...
T Consensus       160 ~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          160 KLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             HHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHhcccc
Confidence            999999887 99999999999999999999999876543

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=3.9e-29  Score=234.09  Aligned_cols=171  Identities=22%  Similarity=0.302  Sum_probs=139.7

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ...+..+||+|+|++|||||||+++| .+...       .+...+ +++|     .++..+.+.+++..+++.+|||+|+
T Consensus        32 ~~~~~~~kVvlvG~~~vGKSSLl~r~-~~~~~-------~~~~~~-~~~g-----~d~~~~~i~~~~~~~~l~~~Dt~g~   97 (211)
T 2g3y_A           32 ESGNTYYRVVLIGEQGVGKSTLANIF-AGVHD-------SMDSDC-EVLG-----EDTYERTLMVDGESATIILLDMWEN   97 (211)
T ss_dssp             ---CCEEEEEEECCTTSSHHHHHHHH-HCCCC-------TTCCC----CC-----TTEEEEEEEETTEEEEEEEECCTTT
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHH-HhCCC-------CCCCcC-Cccc-----eeeEEEEEEECCeeeEEEEeecCCC
Confidence            34566799999999999999999997 32111       011111 1122     3677788889999999999999999


Q ss_pred             cc-cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         135 GR-FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       135 e~-~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                      +. +..+...|++.+|++|+|||++++++|+.+..|+..+....  +++|+||||||+||.+.+++..++++.++..+++
T Consensus        98 ~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~  177 (211)
T 2g3y_A           98 KGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDC  177 (211)
T ss_dssp             THHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTC
T ss_pred             cchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCC
Confidence            87 56677788999999999999999999999999998887642  5799999999999987788888999999999999


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +|+||||++|.||+++|++|++.+..+.
T Consensus       178 ~~~e~SAk~g~~v~elf~~l~~~i~~~~  205 (211)
T 2g3y_A          178 KFIETSAAVQHNVKELFEGIVRQVRLRR  205 (211)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999886543

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.96  E-value=3.8e-29  Score=227.71  Aligned_cols=163  Identities=17%  Similarity=0.311  Sum_probs=138.0

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......+||+++|++|||||||+++| .++.|.         ..+.++.       +.+.+.+.+++..+.++||||+|+
T Consensus        15 ~~~~~~~ki~ivG~~~vGKSsL~~~~-~~~~~~---------~~~~~t~-------~~~~~~~~~~~~~~~l~i~Dt~G~   77 (184)
T 3ihw_A           15 YFQGPELKVGIVGNLSSGKSALVHRY-LTGTYV---------QEESPEG-------GRFKKEIVVDGQSYLLLIRDEGGP   77 (184)
T ss_dssp             -CCCCEEEEEEECCTTSCHHHHHHHH-HHSSCC---------CCCCTTC-------EEEEEEEEETTEEEEEEEEECSSS
T ss_pred             CCCCCeeEEEEECCCCCCHHHHHHHH-hcCCCC---------CCcCCCc-------ceEEEEEEECCEEEEEEEEECCCC
Confidence            34456799999999999999999997 333332         2222332       334578889999999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCC--CCcccCHHHHHHHHHhcC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLA--FNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~--~~r~v~~ee~~~~a~~~~  210 (432)
                      +++.     +++++|++|+|||++++.+|+++..|+.++....  +++|++|||||+|+.  .++.+..+++.++++.++
T Consensus        78 ~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~  152 (184)
T 3ihw_A           78 PELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLK  152 (184)
T ss_dssp             CCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTT
T ss_pred             hhhh-----eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcC
Confidence            8876     7889999999999999999999999999998764  579999999999994  467889999999999997


Q ss_pred             -CcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         211 -MAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       211 -~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                       ++|+++||++|.||+++|++|++.+.+++
T Consensus       153 ~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          153 RCTYYETCATYGLNVERVFQDVAQKVVALR  182 (184)
T ss_dssp             TCEEEEEBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             CCeEEEecCCCCCCHHHHHHHHHHHHHHHh
Confidence             89999999999999999999999987654

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.96  E-value=3.4e-29  Score=221.87  Aligned_cols=164  Identities=41%  Similarity=0.698  Sum_probs=139.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| .+..+.         ..+.++++     .++....+.+++..+.+.+|||+|++++.
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~D~~G~~~~~   66 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRF-VEDKFN---------PSFITTIG-----IDFKIKTVDINGKKVKLQIWDTAGQERFR   66 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHH-HHCCCC---------C------------CCEEEEEEESSSCEEEEEEECCTTGGGTS
T ss_pred             CceEEEEECcCCCCHHHHHHHH-HhCCCC---------CCCCCccc-----eeEEEEEEEECCEEEEEEEEeCCCChhhh
Confidence            5689999999999999999998 333332         22233333     36667778888888999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .++..+++++|++|+|||++++.+|+.+..|+..+.... +++|+++|+||+|+ .++.+..+++.++++.++++++++|
T Consensus        67 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~S  145 (170)
T 1g16_A           67 TITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESS  145 (170)
T ss_dssp             CCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECB
T ss_pred             hhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEE
Confidence            999999999999999999999999999999999998776 57999999999999 4567888899999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhh
Q psy3450         218 PLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~  238 (432)
                      |++|.|++++|++|.+.+.++
T Consensus       146 a~~~~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A          146 AKNDDNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999998654

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=5e-29  Score=227.21  Aligned_cols=165  Identities=24%  Similarity=0.409  Sum_probs=141.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+++| .++.+.         ..+.++.+      +.....+.+++..+.+.+|||+|+++
T Consensus        15 ~~~~~ki~v~G~~~~GKssli~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~i~D~~G~~~   78 (194)
T 2atx_A           15 GALMLKCVVVGDGAVGKTCLLMSY-ANDAFP---------EEYVPTVF------DHYAVSVTVGGKQYLLGLYDTAGQED   78 (194)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHH-HHSSCC---------CSCCCSSC------CCEEEEEESSSCEEEEEEECCCCSSS
T ss_pred             CCceEEEEEECCCCCCHHHHHHHH-hcCCCC---------CCCCCccc------ceeEEEEEECCEEEEEEEEECCCCcc
Confidence            346799999999999999999998 333332         22334443      34456677888889999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHH
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAE  203 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~  203 (432)
                      +..++..+++++|++|+|||++++++|+.+. .|+..+....+++|++||+||+|+.+.            +.+..+++.
T Consensus        79 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~  158 (194)
T 2atx_A           79 YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQ  158 (194)
T ss_dssp             STTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHH
T ss_pred             hhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhcccccchhhcccccCcccCHHHHH
Confidence            9999999999999999999999999999996 899999988778999999999999753            578889999


Q ss_pred             HHHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         204 MYAIKNQM-AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       204 ~~a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++.+++ +|+++||++|.||+++|++|++.++.
T Consensus       159 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          159 KLAKEIGACCYVECSALTQKGLKTVFDEAIIAILT  193 (194)
T ss_dssp             HHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHhc
Confidence            99999998 99999999999999999999998753

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=2.4e-29  Score=229.69  Aligned_cols=169  Identities=31%  Similarity=0.499  Sum_probs=143.0

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      ...++..+||+|+|++|||||||+++| .+..+         ...+.+++|     .++....+.+++..+.+.+|||+|
T Consensus        17 ~~~~~~~~ki~vvG~~~~GKSsli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~Dt~G   81 (192)
T 2fg5_A           17 RGSAIRELKVCLLGDTGVGKSSIVCRF-VQDHF---------DHNISPTIG-----ASFMTKTVPCGNELHKFLIWDTAG   81 (192)
T ss_dssp             ----CEEEEEEEEECTTSSHHHHHHHH-HHCCC---------CTTCCCCSS-----EEEEEEEEECSSSEEEEEEEEECC
T ss_pred             ccccCCceEEEEECcCCCCHHHHHHHH-hcCCC---------CCCcCCCcc-----eeEEEEEEEeCCEEEEEEEEcCCC
Confidence            445577899999999999999999998 33222         222334444     355666777788889999999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                      ++++..++..+++++|++|+|||++++.+|+.+..|+..+.... +++|+++|+||+|+.+++.+..++++++++.++++
T Consensus        82 ~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~  161 (192)
T 2fg5_A           82 QERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAI  161 (192)
T ss_dssp             SGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCE
T ss_pred             chhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCE
Confidence            99999999999999999999999999999999999999998876 57999999999999877788899999999999999


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++||++|.||+++|++|.+.+.+
T Consensus       162 ~~~~Sa~~~~gi~~l~~~l~~~i~~  186 (192)
T 2fg5_A          162 VVETSAKNAINIEELFQGISRQIPP  186 (192)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHTCC-
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh
Confidence            9999999999999999999987743

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.96  E-value=2.5e-29  Score=231.48  Aligned_cols=170  Identities=37%  Similarity=0.658  Sum_probs=142.7

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ...+..+||+|+|++|||||||+++| .++.+         ...+.++++     .++....+.+++..+.+.||||+|+
T Consensus        20 ~~~~~~~ki~v~G~~~~GKSsLi~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~l~Dt~G~   84 (200)
T 2o52_A           20 IWSDFLFKFLVIGSAGTGKSCLLHQF-IENKF---------KQDSNHTIG-----VEFGSRVVNVGGKTVKLQIWDTAGQ   84 (200)
T ss_dssp             --CCEEEEEEEEESTTSSHHHHHHHH-HC--------------------------CCEEEEEEEETTEEEEEEEECCTTH
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHH-HhCCC---------CccCCCccc-----ceeEEEEEEECCeeeEEEEEcCCCc
Confidence            34567899999999999999999998 33333         222333333     4677778888998999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                      +++..++..+++.+|++|+|||++++.+|+.+..|+..+.... +++|++||+||+|+..++.+..+++..+++..++++
T Consensus        85 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~  164 (200)
T 2o52_A           85 ERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMF  164 (200)
T ss_dssp             HHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEE
T ss_pred             HhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEE
Confidence            9999999999999999999999999999999999999988765 679999999999998778888899999999999999


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +++||++|.||+++|++|++.+.++.
T Consensus       165 ~~~SA~~g~gi~~l~~~l~~~i~~~~  190 (200)
T 2o52_A          165 LETSALTGENVEEAFLKCARTILNKI  190 (200)
T ss_dssp             EEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999987654

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.96  E-value=3.9e-29  Score=220.35  Aligned_cols=162  Identities=27%  Similarity=0.418  Sum_probs=137.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++|. +..+         ...+.++.+      +.....+.+++..+.+.+|||+|++++..
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~-~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~l~D~~G~~~~~~   67 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFM-YDEF---------VEDYEPTKA------DSYRKKVVLDGEEVQIDILDTAGQEDYAA   67 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHH-HSCC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCC---CHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHH-hCcc---------CCCCCCCcc------eEEEEEEEECCEEEEEEEEECCCcchhHH
Confidence            5899999999999999999983 2222         222233333      34455677889899999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++.+|++++|||++++++|+.+..|+..+....  .++|+++|+||+|+.+.+++..+++..+++.++++++++|
T Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  147 (168)
T 1u8z_A           68 IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETS  147 (168)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECC
T ss_pred             HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeC
Confidence            99999999999999999999999999999999988765  3799999999999987778889999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++|.|++++|++|.+.+.+
T Consensus       148 a~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A          148 AKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             TTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999998854

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.96  E-value=5.1e-29  Score=220.71  Aligned_cols=164  Identities=33%  Similarity=0.552  Sum_probs=142.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|++|||||||+++| .+..+         ...+.++.|     .++....+.+++..+.+.+|||+|++++
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~Dt~G~~~~   68 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRF-VEDSF---------DPNINPTIG-----ASFMTKTVQYQNELHKFLIWDTAGLERF   68 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHH-HHSCC---------CTTCCCCCS-----EEEEEEEEEETTEEEEEEEEEECCSGGG
T ss_pred             CcceEEEEECcCCCCHHHHHHHH-HcCCC---------CCCCCCcee-----EEEEEEEEEECCeEEEEEEEcCCCchhh
Confidence            45799999999999999999998 33332         222334444     3566677788888999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      ..++..+++++|++|+|||++++.+++.+..|+..+.... +++|+++|+||+|+.+.+++..+++..+++..+++++++
T Consensus        69 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~  148 (170)
T 1z0j_A           69 RALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVET  148 (170)
T ss_dssp             GGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEEC
T ss_pred             hcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEE
Confidence            9999999999999999999999999999999999998874 789999999999998778888999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHh
Q psy3450         217 SPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~  236 (432)
                      ||++|.|++++|++|.+.+.
T Consensus       149 Sa~~~~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          149 SAKNAININELFIEISRRIP  168 (170)
T ss_dssp             BTTTTBSHHHHHHHHHHHCC
T ss_pred             eCCCCcCHHHHHHHHHHHHh
Confidence            99999999999999998763

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.96  E-value=2.3e-29  Score=232.90  Aligned_cols=167  Identities=28%  Similarity=0.465  Sum_probs=139.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| ..+.+         ...+.++++      +.....+.+++..+.+.+|||+|+++|
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~   70 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICY-TSNKF---------PTDYIPTVF------DNFSANVAVDGQIVNLGLWDTAGQEDY   70 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHH-HHSCC---------CSSCCCSSC------CCEEEEEECSSCEEEEEEECCCCCCCC
T ss_pred             CceEEEEEECCCCCCHHHHHHHH-hcCCC---------CccCCCccc------eeEEEEEEECCEEEEEEEEECCCcHHH
Confidence            35699999999999999999998 33333         223334444      444566778888899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCCcc--------cCHHHHHHHHHh
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFNRT--------VTTREAEMYAIK  208 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~r~--------v~~ee~~~~a~~  208 (432)
                      ..++..+++++|++|+|||++++++|+++. .|+..+....+++|++||+||+|+.+++.        +..+++.++++.
T Consensus        71 ~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~  150 (212)
T 2j0v_A           71 SRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQ  150 (212)
T ss_dssp             CC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHH
T ss_pred             HHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHH
Confidence            999999999999999999999999999996 89999998877899999999999976554        478889999999


Q ss_pred             cCC-cEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         209 NQM-AFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       209 ~~~-~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +++ +|+++||++|.||+++|++|++.+.+...
T Consensus       151 ~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  183 (212)
T 2j0v_A          151 IGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPR  183 (212)
T ss_dssp             HTCSEEEECCTTTCTTHHHHHHHHHHHHHCC--
T ss_pred             cCCceEEEccCCCCCCHHHHHHHHHHHHhhhhh
Confidence            996 99999999999999999999999976543

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.96  E-value=5.3e-29  Score=222.85  Aligned_cols=168  Identities=28%  Similarity=0.452  Sum_probs=142.6

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+++|. +..+         ...+.++.+      +.....+.+++..+.+.+|||+|+++
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~-~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~~~Dt~G~~~   69 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFI-QSYF---------VSDYDPTIE------DSYTKICSVDGIPARLDILDTAGQEE   69 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHH-HSSC---------CSSCCTTCC------EEEEEEEEETTEEEEEEEEECCCTTT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHH-hCcC---------ccccCCCcC------ceEEEEEEECCEEEEEEEEECCCchh
Confidence            3457899999999999999999983 3222         222334443      33346677889889999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh-C-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH-A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~-~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +..++..+++++|++|+|||++++++|+.+..|+.++... . .++|+++|+||+|+.+.+++..+++..++...+++++
T Consensus        70 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~  149 (181)
T 2fn4_A           70 FGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYF  149 (181)
T ss_dssp             TSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEE
T ss_pred             hHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEE
Confidence            9999999999999999999999999999999999988443 2 5799999999999987788889999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ++||++|.|++++|++|.+.+.+..+
T Consensus       150 ~~Sa~~~~gv~~l~~~l~~~~~~~~~  175 (181)
T 2fn4_A          150 EASAKLRLNVDEAFEQLVRAVRKYQE  175 (181)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             EecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            99999999999999999999876543

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.96  E-value=4.2e-29  Score=233.84  Aligned_cols=171  Identities=40%  Similarity=0.662  Sum_probs=141.7

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+|+|++|||||||+++| .+..+.         ..+.+++|     .++....+.+++..+.+.||||+|++
T Consensus         9 ~~~~~~ki~v~G~~~vGKSsli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~   73 (223)
T 3cpj_B            9 DYDLLFKIVLIGDSGVGKSNLLSRF-TKNEFN---------MDSKSTIG-----VEFATRTLEIEGKRIKAQIWDTAGQE   73 (223)
T ss_dssp             -CCEEEEEEEESCTTSSHHHHHHHH-HHCCCC---------C------C-----CSEEEEEEEETTEEEEEEEECCTTTT
T ss_pred             CCCeeeEEEEECcCCCCHHHHHHHH-hcCCCC---------CCCCCccc-----ceeEEEEEEECCEEEEEEEEECCCcc
Confidence            3467899999999999999999998 333332         22233443     46777788889988999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +|..++..+++.+|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+...+++..+++..+++..+++|+
T Consensus        74 ~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~  153 (223)
T 3cpj_B           74 RYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFT  153 (223)
T ss_dssp             TTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEE
T ss_pred             chhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999999999999999998765 5799999999999987788888999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcCC
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNGM  241 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~~  241 (432)
                      ++||++|.||+++|++|++.+.++...
T Consensus       154 ~~Sa~~~~gi~~l~~~l~~~i~~~~~~  180 (223)
T 3cpj_B          154 ETSALNSENVDKAFEELINTIYQKVSK  180 (223)
T ss_dssp             ECCCC-CCCHHHHHHHHHHHHTTCC--
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHHhhh
Confidence            999999999999999999999775543

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.96  E-value=2.1e-29  Score=228.32  Aligned_cols=164  Identities=23%  Similarity=0.413  Sum_probs=139.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|++|||||||+++| .++.+         ...+.++++      ......+.+++..+.+.+|||+|+++|
T Consensus         5 ~~~~ki~v~G~~~vGKSsli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~   68 (184)
T 1m7b_A            5 NVKCKIVVVGDSQCGKTALLHVF-AKDCF---------PENYVPTVF------ENYTASFEIDTQRIELSLWDTSGSPYY   68 (184)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHH-HHSCC---------CSSCCCCSE------EEEEEEEECSSCEEEEEEEEECCSGGG
T ss_pred             ceEEEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCCccc------eeEEEEEEECCEEEEEEEEECCCChhh
Confidence            45799999999999999999998 33333         222334443      333456677888899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~~  204 (432)
                      ..++..+++++|++|+|||++++++|+++ ..|+..+....+++|++||+||+|+.+            .+.+..+++.+
T Consensus        69 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  148 (184)
T 1m7b_A           69 DNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGAN  148 (184)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHH
T ss_pred             hhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHH
Confidence            99999999999999999999999999999 789999988878899999999999964            26688899999


Q ss_pred             HHHhcC-CcEEEEcCC-CCCCHHHHHHHHHHHHhh
Q psy3450         205 YAIKNQ-MAFFEVSPL-CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       205 ~a~~~~-~~~~evSAk-tg~nI~elf~~L~~~i~~  237 (432)
                      +++.++ ++|+++||+ +|.||+++|+.+++.+++
T Consensus       149 ~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          149 MAKQIGAATYIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             HHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            999987 699999999 689999999999998864

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.96  E-value=4.2e-29  Score=220.89  Aligned_cols=161  Identities=32%  Similarity=0.553  Sum_probs=139.3

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.+.         ..+.++.|     .++....+.+++..+.+.+|||+|++++..
T Consensus         3 ~~~i~v~G~~~~GKssli~~l-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~   67 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRF-VSNDFA---------ENKEPTIG-----AAFLTQRVTINEHTVKFEIWDTAGQERFAS   67 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHSCCC---------TTCCCCSS-----EEEEEEEEEETTEEEEEEEEEECCSGGGGG
T ss_pred             eEEEEEECCCCCCHHHHHHHH-hcCCCC---------CCCCCccc-----eeEEEEEEEECCEEEEEEEEECCCChhhhh
Confidence            589999999999999999998 333322         22333443     356667778899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCC---cccCHHHHHHHHHhcCCcEEE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFN---RTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~---r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ++..+++++|++|+|||++++.+++++..|+..+.... +++|+++|+||+|+..+   +++..++++.+++..++++++
T Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~  147 (170)
T 1ek0_A           68 LAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFE  147 (170)
T ss_dssp             GHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEE
T ss_pred             hhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999999988765 67999999999999655   678888999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i  235 (432)
                      +||++|.|++++|++|.+.+
T Consensus       148 ~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          148 TSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             CCTTTCTTHHHHHHHHHTTS
T ss_pred             EeCCCCCCHHHHHHHHHHHH
Confidence            99999999999999998765

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.96  E-value=5.9e-29  Score=228.03  Aligned_cols=166  Identities=27%  Similarity=0.409  Sum_probs=143.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+|+|++|||||||+++|. ++.+         ...+.++.+      +.....+.+++..+.+.||||+|++++
T Consensus        12 ~~~~ki~v~G~~~~GKSsli~~l~-~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~~   75 (206)
T 2bov_A           12 LALHKVIMVGSGGVGKSALTLQFM-YDEF---------VEDYEPTKA------DSYRKKVVLDGEEVQIDILDTAGQEDY   75 (206)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHH-HSCC---------CTTCCTTCC------EEEEEEEEETTEEEEEEEEECCCTTCC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHH-hCCC---------CCCCCCccc------eEEEEEEEECCEEEEEEEEcCCChhhh
Confidence            457899999999999999999983 2222         222333443      444566778898899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ..++..+++.+|++|+|||++++++|+.+..|+..+....  .++|++||+||+|+.+.+++..+++..+++.+++++++
T Consensus        76 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  155 (206)
T 2bov_A           76 AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVE  155 (206)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             HHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEE
Confidence            9999999999999999999999999999999999998876  37999999999999877888899999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +||++|.||+++|++|++.+.++.
T Consensus       156 ~Sa~~g~gi~~l~~~l~~~i~~~~  179 (206)
T 2bov_A          156 TSAKTRANVDKVFFDLMREIRARK  179 (206)
T ss_dssp             ECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHcc
Confidence            999999999999999999987653

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.96  E-value=3.8e-29  Score=224.40  Aligned_cols=159  Identities=17%  Similarity=0.347  Sum_probs=133.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| .++.+.         . +.++++      +...+.+.+++..+.+++|||+|+++  
T Consensus         6 ~~~ki~~vG~~~vGKTsli~~l-~~~~~~---------~-~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~--   66 (178)
T 2iwr_A            6 PELRLGVLGDARSGKSSLIHRF-LTGSYQ---------V-LEKTES------EQYKKEMLVDGQTHLVLIREEAGAPD--   66 (178)
T ss_dssp             CEEEEEEECCGGGCHHHHHHHH-HHSCCC---------C-CSSCSS------SEEEEEEEETTEEEEEEEEECSSSCC--
T ss_pred             CceEEEEECCCCCCHHHHHHHH-HhCCCC---------C-cCCCcc------eeEEEEEEECCEEEEEEEEECCCCch--
Confidence            4689999999999999999997 333332         1 334454      55567788899999999999999987  


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCC--CCcccCHHHHHHHHHhc-CC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLA--FNRTVTTREAEMYAIKN-QM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~--~~r~v~~ee~~~~a~~~-~~  211 (432)
                         ..+++++|++|+|||++++++|+.+..|+..+....    +++|++|||||+|+.  .++.+..++++++++.. ++
T Consensus        67 ---~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~  143 (178)
T 2iwr_A           67 ---AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRC  143 (178)
T ss_dssp             ---HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSE
T ss_pred             ---hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCC
Confidence               467889999999999999999999999876665432    579999999999994  46788899999999876 68


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +|+++||++|.||+++|++|++.+.+..
T Consensus       144 ~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  171 (178)
T 2iwr_A          144 SYYETXATYGLNVDRVFQEVAQKVVTLR  171 (178)
T ss_dssp             EEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeccccCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999987654

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.96  E-value=1.3e-28  Score=220.11  Aligned_cols=166  Identities=30%  Similarity=0.584  Sum_probs=140.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .+..+||+++|++|||||||+++| .+..+         ...+.++.|     .++....+.+++..+.+.+|||+|+++
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~   68 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRY-VTNKF---------DTQLFHTIG-----VEFLNKDLEVDGHFVTMQIWDTAGQER   68 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHH-HHSCC---------CC----CCS-----EEEEEEEEEETTEEEEEEEEECCCCGG
T ss_pred             ccceeEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCcee-----eeEEEEEEEECCEEEEEEEEeCCCchh
Confidence            356799999999999999999998 32222         223334444     466677888899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCCcccCHHHHHHHHH-hcC
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQ  210 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-~~~  210 (432)
                      +..++..+++.+|++|+|||++++.+++.+..|+..+....     .++|+++|+||+|+. ++++..+++.++++ ..+
T Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~  147 (177)
T 1wms_A           69 FRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGD  147 (177)
T ss_dssp             GHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTC
T ss_pred             hhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999987643     578999999999997 57788899999998 567


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++++||++|.|++++|++|++.+.++
T Consensus       148 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  175 (177)
T 1wms_A          148 YPYFETSAKDATNVAAAFEEAVRRVLAT  175 (177)
T ss_dssp             CCEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            8999999999999999999999998653

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.96  E-value=5.4e-29  Score=219.93  Aligned_cols=161  Identities=25%  Similarity=0.405  Sum_probs=137.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.+         ...+.++.+      +.....+.+++..+.+.+|||+|++++..
T Consensus         3 ~~ki~v~G~~~~GKssli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~l~D~~G~~~~~~   66 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQF-VQGIF---------VEKYDPTIE------DSYRKQVEVDCQQCMLEILDTAGTEQFTA   66 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHCCC---------CCSCCCCSE------EEEEEEEESSSCEEEEEEEEECSSCSSTT
T ss_pred             eeEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCCcc------ceEEEEEEECCEEEEEEEEECCChHHHHH
Confidence            589999999999999999998 32333         222333443      33345667788889999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHhc-CCcEEEE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEV  216 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-~~~~~ev  216 (432)
                      ++..+++++|++++|||++++.+|+.+..|+..+...  .+++|+++|+||+|+.+++.+..+++..+++.+ +++++++
T Consensus        67 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  146 (167)
T 1c1y_A           67 MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLES  146 (167)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEEC
T ss_pred             HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEe
Confidence            9999999999999999999999999999999988765  357999999999999887888899999999987 7899999


Q ss_pred             cCCCCCCHHHHHHHHHHHHh
Q psy3450         217 SPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~  236 (432)
                      ||++|.|++++|++|.+.+.
T Consensus       147 Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A          147 SAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             BTTTTBSHHHHHHHHHHHHT
T ss_pred             cCCCCCCHHHHHHHHHHHHh
Confidence            99999999999999998873

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.96  E-value=1e-28  Score=222.25  Aligned_cols=164  Identities=27%  Similarity=0.458  Sum_probs=140.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| .++.+.         ..+.++.+      +.....+.+++..+.+++|||+|++++.
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   67 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISY-TTNAFP---------GEYIPTVF------DNYSANVMVDGKPVNLGLWDTAGQEDYD   67 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHH-HHSSCC---------SSCCCCSC------CEEEEEEEETTEEEEEEEECCCCSGGGT
T ss_pred             cEEEEEEECCCCCCHHHHHHHH-HcCCCC---------CCcCCccc------ceeEEEEEECCEEEEEEEEECCCCHhHH
Confidence            4589999999999999999997 333332         22333443      4445667789999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHHH
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEMY  205 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~~  205 (432)
                      .++..+++++|++|+|||++++.+|+++. .|+..+....+++|+++|+||+|+.+.            +.+..+++..+
T Consensus        68 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~  147 (186)
T 1mh1_A           68 RLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM  147 (186)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHH
T ss_pred             HHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHH
Confidence            99999999999999999999999999996 799999887778999999999999653            56788899999


Q ss_pred             HHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         206 AIKNQM-AFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       206 a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++.+++ +++++||++|.|++++|++|.+.+.+.
T Consensus       148 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (186)
T 1mh1_A          148 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP  181 (186)
T ss_dssp             HHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSCC
T ss_pred             HHhcCCcEEEEecCCCccCHHHHHHHHHHHHhcc
Confidence            999997 999999999999999999999998653

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.96  E-value=1.1e-28  Score=223.14  Aligned_cols=169  Identities=35%  Similarity=0.608  Sum_probs=143.8

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCcccccccee-EEEEEECCe---------EEE
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK-TTTILLDGK---------RVK  125 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~-~~~i~i~~~---------~v~  125 (432)
                      ..+..+||+|+|++|||||||+++| .+..+         ...+.+++|     .++. .+.+.+++.         .+.
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~   71 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQY-TDGKF---------NSKFITTVG-----IDFREKRVVYRANGPDGAVGRGQRIH   71 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHH-HHSCC---------CCSCCCCCS-----EEEEEEEEEECTTSCCCSSCCCEEEE
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHH-hcCCC---------CcCcccccc-----eeeeeEEEEEecCCcccccccCcEEE
Confidence            4577899999999999999999998 33322         222333443     3444 456666665         789


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +.+|||+|++++..++..+++++|++|+|||++++.+++++..|+..+....  .++|+++|+||+|+.+++.+..+++.
T Consensus        72 ~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~  151 (195)
T 3bc1_A           72 LQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEAR  151 (195)
T ss_dssp             EEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHH
T ss_pred             EEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHH
Confidence            9999999999999999999999999999999999999999999999998766  57999999999999877788889999


Q ss_pred             HHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         204 MYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       204 ~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++++.++++++++||++|.|++++|++|.+.+.++.
T Consensus       152 ~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          152 ELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             HHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999987643

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.96  E-value=5.7e-29  Score=228.52  Aligned_cols=167  Identities=35%  Similarity=0.561  Sum_probs=136.5

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+|+|++|||||||+++| .++.+         ...+.+++|     .++....+.+++..+.+.||||+|++
T Consensus        24 ~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~~   88 (199)
T 2p5s_A           24 SSQKAYKIVLAGDAAVGKSSFLMRL-CKNEF---------RENISATLG-----VDFQMKTLIVDGERTVLQLWDTAGQE   88 (199)
T ss_dssp             ----CEEEEEESSTTSSHHHHHHHH-HHCCC---------C---------------CEEEEEEETTEEEEEEEEECTTCT
T ss_pred             CcCCCeEEEEECcCCCCHHHHHHHH-HhCCC---------CccCCCCcc-----ceeEEEEEEECCEEEEEEEEECCCCc
Confidence            3456799999999999999999998 33333         222333333     36667778889999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCC------CCcccCHHHHHHHHHh
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLA------FNRTVTTREAEMYAIK  208 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~------~~r~v~~ee~~~~a~~  208 (432)
                      ++..++..+++++|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+.      ..+.+..++++.+++.
T Consensus        89 ~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~  168 (199)
T 2p5s_A           89 RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMT  168 (199)
T ss_dssp             TCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHH
T ss_pred             chhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHH
Confidence            999999999999999999999999999999999999988765 579999999999995      4577888999999999


Q ss_pred             cCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         209 NQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       209 ~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .+++++++||++|.||+++|++|++.+.+
T Consensus       169 ~~~~~~~~SA~~g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          169 YGALFCETSAKDGSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             HTCEEEECCTTTCTTHHHHHHHHHHHHTC
T ss_pred             cCCeEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999998854

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.96  E-value=8e-29  Score=225.22  Aligned_cols=167  Identities=31%  Similarity=0.597  Sum_probs=139.6

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......+||+|+|++|||||||+++| .++.+.         ..+.++++     .++....+.+++..+.+.+|||+|+
T Consensus        15 ~~~~~~~ki~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~   79 (189)
T 1z06_A           15 GSRSRIFKIIVIGDSNVGKTCLTYRF-CAGRFP---------DRTEATIG-----VDFRERAVDIDGERIKIQLWDTAGQ   79 (189)
T ss_dssp             ----CEEEEEEECCTTSSHHHHHHHH-HHSSCC---------SSCCCCCS-----CCEEEEEEEETTEEEEEEEEECCCS
T ss_pred             CCCCceEEEEEECCCCCCHHHHHHHH-HcCCCC---------CCCCCCcc-----eEEEEEEEEECCEEEEEEEEECCCc
Confidence            34456799999999999999999997 333332         22233443     4677788888998999999999999


Q ss_pred             cccc-hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         135 GRFC-TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       135 e~~~-~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                      +++. .++..+++++|++|+|||++++.+|+.+..|+.++....  .++|++||+||+|+.+.+++..++++.+++.+++
T Consensus        80 ~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~  159 (189)
T 1z06_A           80 ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSM  159 (189)
T ss_dssp             HHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTC
T ss_pred             hhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCC
Confidence            9998 888999999999999999999999999999999998764  6799999999999987788889999999999999


Q ss_pred             cEEEEcCCCC---CCHHHHHHHHHHHHh
Q psy3450         212 AFFEVSPLCD---FNIRESFTELSRRAL  236 (432)
Q Consensus       212 ~~~evSAktg---~nI~elf~~L~~~i~  236 (432)
                      +++++||++|   .||+++|++|++.+.
T Consensus       160 ~~~~~Sa~~~~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          160 PLFETSAKNPNDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             CEEECCSSSGGGGSCHHHHHHHHC----
T ss_pred             EEEEEeCCcCCcccCHHHHHHHHHHHHh
Confidence            9999999999   999999999988764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.96  E-value=8.3e-29  Score=218.04  Aligned_cols=161  Identities=25%  Similarity=0.414  Sum_probs=139.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.+         ...+.++.+      +.....+.+++..+.+.+|||+|++++..
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l-~~~~~---------~~~~~~~~~------~~~~~~~~~~~~~~~~~l~D~~G~~~~~~   66 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQF-VTGTF---------IEKYDPTIE------DFYRKEIEVDSSPSVLEILDTAGTEQFAS   66 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HHSCC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCCTTCCHH
T ss_pred             EEEEEEECCCCCCHHHHHHHH-HcCCC---------cccCCCCcc------eeEEEEEEECCEEEEEEEEECCCchhhHH
Confidence            489999999999999999998 33332         222333443      44567778899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++++|++++|||++++.+++.+..|+..+....  .+.|+++|+||+|+.+++++..+++..+++.++++++++|
T Consensus        67 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  146 (167)
T 1kao_A           67 MRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETS  146 (167)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEEC
T ss_pred             HHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEec
Confidence            99999999999999999999999999999999887754  5799999999999987788889999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHh
Q psy3450         218 PLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~  236 (432)
                      |++|.|++++|++|.+.+.
T Consensus       147 a~~~~gi~~l~~~l~~~~~  165 (167)
T 1kao_A          147 AKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             TTCHHHHHHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHh
Confidence            9999999999999998874

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.96  E-value=4.3e-29  Score=231.76  Aligned_cols=166  Identities=23%  Similarity=0.423  Sum_probs=139.4

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+++|++|||||||+++| .++.+.         ..+.++++      ......+.+++..+.+.||||+|++
T Consensus        24 ~~~~~~ki~vvG~~~vGKSsLi~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~   87 (205)
T 1gwn_A           24 NQNVKCKIVVVGDSQCGKTALLHVF-AKDCFP---------ENYVPTVF------ENYTASFEIDTQRIELSLWDTSGSP   87 (205)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHH-HHSCCC---------SSCCCCSE------EEEEEEEESSSSEEEEEEEEECCSG
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHH-hcCCCC---------CCcCCccc------eeEEEEEEECCEEEEEEEEeCCCcH
Confidence            4467799999999999999999998 333332         22334443      3334566778888999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHH
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREA  202 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~  202 (432)
                      +|..++..+++++|++|+|||++++++|+++ ..|+..+....+++|++|||||+|+.+            .+.+..+++
T Consensus        88 ~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~  167 (205)
T 1gwn_A           88 YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQG  167 (205)
T ss_dssp             GGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHH
T ss_pred             hhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEechhhccchhhhhhhcccccCCCCHHHH
Confidence            9999999999999999999999999999999 799999988878899999999999964            266888999


Q ss_pred             HHHHHhcC-CcEEEEcCC-CCCCHHHHHHHHHHHHhh
Q psy3450         203 EMYAIKNQ-MAFFEVSPL-CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       203 ~~~a~~~~-~~~~evSAk-tg~nI~elf~~L~~~i~~  237 (432)
                      +++++.++ ++|++|||+ +|.||+++|+.|++.+++
T Consensus       168 ~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          168 ANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             HHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            99999887 699999999 689999999999998865

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.96  E-value=1.2e-28  Score=221.64  Aligned_cols=165  Identities=27%  Similarity=0.410  Sum_probs=141.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+|+|++|||||||+++|. +..+.         ..+.++.+      +.....+.+++..+.+.||||+|++++
T Consensus        16 ~~~~ki~v~G~~~~GKSsli~~l~-~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~~   79 (187)
T 2a9k_A           16 LALHKVIMVGSGGVGKSALTLQFM-YDEFV---------EDYEPTKA------DSYRKKVVLDGEEVQIDILDTAGQEDY   79 (187)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHH-HSCCC---------CSCCTTCC------EEEEEEEEETTEEEEEEEEECCCTTCC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHh-hCCCC---------CcCCCccc------eEEEEEEEECCEEEEEEEEECCCCccc
Confidence            356899999999999999999983 22222         22233333      444566778898899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC--CCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP--GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~--~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ..++..+++.+|++|+|||++++++|+.+..|+.++.....  ++|++||+||+|+.+++++..+++.++++.+++++++
T Consensus        80 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  159 (187)
T 2a9k_A           80 AAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVE  159 (187)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEE
Confidence            99999999999999999999999999999999999887653  7999999999999877788899999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +||++|.||+++|++|.+.+.++
T Consensus       160 ~Sa~~~~gi~~l~~~l~~~i~~~  182 (187)
T 2a9k_A          160 TSAKTRANVDKVFFDLMREIRAR  182 (187)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             eCCCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999998654

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=2.1e-28  Score=222.17  Aligned_cols=167  Identities=37%  Similarity=0.638  Sum_probs=143.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+|+|++|||||||+++| .+..+         ...+.+++|     .++....+.+++..+.+.||||+|+++
T Consensus        12 ~~~~~~i~v~G~~~~GKssli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~   76 (195)
T 1x3s_A           12 VLTTLKILIIGESGVGKSSLLLRF-TDDTF---------DPELAATIG-----VDFKVKTISVDGNKAKLAIWDTAGQER   76 (195)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHH-HHSCC---------CTTCCCCCS-----EEEEEEEEEETTEEEEEEEEEECSSGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHH-HcCCC---------CccCCCccc-----eEEEEEEEEECCeEEEEEEEeCCCchh
Confidence            345799999999999999999998 33332         222334443     466677788899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +..++..+++++|++|+|||++++.+++.+..|+.++....  .++|++||+||+|+. ++++..+++..+++.++++++
T Consensus        77 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~  155 (195)
T 1x3s_A           77 FRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFI  155 (195)
T ss_dssp             GCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEE
T ss_pred             hhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEE
Confidence            99999999999999999999999999999999999998765  579999999999994 467888899999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++||++|.||+++|++|.+.+.+..
T Consensus       156 ~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (195)
T 1x3s_A          156 EASAKTCDGVQCAFEELVEKIIQTP  180 (195)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             EecCCCCCCHHHHHHHHHHHHHhhh
Confidence            9999999999999999999987643

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.96  E-value=1.5e-28  Score=228.86  Aligned_cols=166  Identities=29%  Similarity=0.443  Sum_probs=125.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .++.+.         ..+.++++      +.....+.+++..+.+.+|||+|+++|
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~l~l~Dt~G~~~~   95 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVF-ADGAFP---------ESYTPTVF------ERYMVNLQVKGKPVHLHIWDTAGQDDY   95 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHH-HC----------------CCCCC------EEEEEEEEETTEEEEEEEEEC------
T ss_pred             cceEEEEEECcCCCCHHHHHHHH-HcCCCC---------CCCCCccc------eeEEEEEEECCEEEEEEEEECCCchhh
Confidence            34689999999999999999998 333332         22333443      444566788999999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~  204 (432)
                      ..++..+++++|++|+|||++++.+|+.+. .|+..+....+++|++||+||+|+..+            +.+..+++..
T Consensus        96 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  175 (214)
T 2j1l_A           96 DRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQE  175 (214)
T ss_dssp             ---------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHH
T ss_pred             hHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHH
Confidence            999999999999999999999999999995 799999888788999999999999764            3678889999


Q ss_pred             HHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         205 YAIKNQM-AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       205 ~a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +++.+++ +|+++||++|.||+++|++|++.+++..
T Consensus       176 ~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~~~  211 (214)
T 2j1l_A          176 MARSVGAVAYLECSARLHDNVHAVFQEAAEVALSSR  211 (214)
T ss_dssp             HHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHC-
T ss_pred             HHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            9999998 9999999999999999999999987654

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.96  E-value=1.1e-28  Score=220.33  Aligned_cols=163  Identities=31%  Similarity=0.587  Sum_probs=141.4

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+|+|++|||||||+++| .+..+         ...+.++.+     .++....+.+++..+.+.+|||+|++++.
T Consensus        13 ~~~~i~v~G~~~~GKssli~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~   77 (179)
T 2y8e_A           13 RKFKLVFLGEQSVGKTSLITRF-MYDSF---------DNTYQATIG-----IDFLSKTMYLEDRTVRLQLWDTAGQERFR   77 (179)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHH-HHSCC---------CSSCCCCCS-----EEEEEEEEEETTEEEEEEEEEECCSGGGG
T ss_pred             cceEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCcee-----eEEEEEEEEECCeEEEEEEEECCCcHHHH
Confidence            4589999999999999999998 33332         222233333     46777888889999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .++..+++++|++|+|||++++.+|+.+..|+..+.... .++|+++|+||+|+.+++++..+++..+++..+++++++|
T Consensus        78 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  157 (179)
T 2y8e_A           78 SLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETS  157 (179)
T ss_dssp             GGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEB
T ss_pred             HHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEe
Confidence            999999999999999999999999999999999987654 5799999999999987788888999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHh
Q psy3450         218 PLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~  236 (432)
                      |++|.|++++|++|.+.+.
T Consensus       158 a~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          158 AKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             TTTTBSHHHHHHHHHHTCC
T ss_pred             CCCCCCHHHHHHHHHHHHh
Confidence            9999999999999988663

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.96  E-value=5.6e-29  Score=228.90  Aligned_cols=167  Identities=25%  Similarity=0.345  Sum_probs=137.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+|+|++|||||||+++| .++.+         ...+.++.+      ......+.+++..+.+.||||+|++++
T Consensus        22 ~~~~ki~vvG~~~~GKSsli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~~   85 (201)
T 3oes_A           22 VRYRKVVILGYRCVGKTSLAHQF-VEGEF---------SEGYDPTVE------NTYSKIVTLGKDEFHLHLVDTAGQDEY   85 (201)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHH-HHSCC---------CSCCCCCSE------EEEEEEEC----CEEEEEEEECCCCTT
T ss_pred             CCcEEEEEECCCCcCHHHHHHHH-HhCCC---------CCCCCCccc------eEEEEEEEECCEEEEEEEEECCCccch
Confidence            46799999999999999999998 33333         222333433      333556666777899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ..++..+++++|++|+|||++++++|+.+..|+..+....  .++|++||+||+|+..++.+..+++..+++.++++|++
T Consensus        86 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  165 (201)
T 3oes_A           86 SILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFME  165 (201)
T ss_dssp             CCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             HHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEE
Confidence            9999999999999999999999999999999999998763  57899999999999888889999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +||++|.||+++|++|++.+.+...
T Consensus       166 ~Sa~~~~~v~~l~~~l~~~i~~~~~  190 (201)
T 3oes_A          166 SSARENQLTQGIFTKVIQEIARVEN  190 (201)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHHC--
T ss_pred             EeCCCCCCHHHHHHHHHHHHHhhhh
Confidence            9999999999999999999976543

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.96  E-value=2.8e-28  Score=219.97  Aligned_cols=165  Identities=27%  Similarity=0.453  Sum_probs=139.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++|. +..+         ...+.++.+      +.....+.+++..+.+.+|||+|++++.
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~-~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   66 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLI-QNHF---------VDEYDPTIE------DSYRKQVVIDGETCLLDILDTAGQEEYS   66 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHH-HSSC---------CCCCCTTCC------EEEEEEEEETTEEEEEEEEECCCC---C
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH-hCCC---------CCCCCCCch------heEEEEEEECCcEEEEEEEECCCcHHHH
Confidence            46899999999999999999983 3222         222223332      5566777889999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .++..+++.+|++++|||++++.+|+.+..|+..+....  .++|+++|+||+|+. ++.+..+++..+++.++++++++
T Consensus        67 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~  145 (189)
T 4dsu_A           67 AMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIET  145 (189)
T ss_dssp             TTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSS-SCSSCHHHHHHHHHHHTCCEEEC
T ss_pred             HHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCc-ccccCHHHHHHHHHHcCCeEEEE
Confidence            999999999999999999999999999999999988754  579999999999996 46778889999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         217 SPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ||++|.|++++|++|.+.+.+...
T Consensus       146 Sa~~g~gi~~l~~~l~~~~~~~~~  169 (189)
T 4dsu_A          146 SAKTRQGVDDAFYTLVREIRKHKE  169 (189)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             eCCCCCCHHHHHHHHHHHHHHhhh
Confidence            999999999999999999976543

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=1.9e-28  Score=224.18  Aligned_cols=165  Identities=30%  Similarity=0.404  Sum_probs=140.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .+..+         ...+.++++      ......+.+++..+.+.+|||+|+++ 
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~-   88 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRF-LTKRF---------IWEYDPTLE------STYRHQATIDDEVVSMEILDTAGQED-   88 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHH-HHSCC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCCCCC-
T ss_pred             CCceEEEEECCCCCCHHHHHHHH-HhCCC---------CcccCCCCC------ceEEEEEEECCEEEEEEEEECCCCCc-
Confidence            35689999999999999999998 33333         222334443      33455677889899999999999988 


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ..++..+++.+|++|+|||++++++|+++..|+..+....  +++|++||+||+|+.+.+++..+++..+++.+++++++
T Consensus        89 ~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  168 (196)
T 2atv_A           89 TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYE  168 (196)
T ss_dssp             CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEE
T ss_pred             ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEE
Confidence            7788899999999999999999999999999999887753  57999999999999877889999999999999999999


Q ss_pred             EcCCCCC-CHHHHHHHHHHHHhhhc
Q psy3450         216 VSPLCDF-NIRESFTELSRRALQRN  239 (432)
Q Consensus       216 vSAktg~-nI~elf~~L~~~i~~~~  239 (432)
                      +||++|. ||+++|++|++.+.++.
T Consensus       169 ~Sa~~g~~gi~~l~~~l~~~i~~~~  193 (196)
T 2atv_A          169 CSACTGEGNITEIFYELCREVRRRR  193 (196)
T ss_dssp             CCTTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             ECCCcCCcCHHHHHHHHHHHHHhhc
Confidence            9999999 99999999999987654

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.96  E-value=4.1e-28  Score=223.37  Aligned_cols=164  Identities=29%  Similarity=0.468  Sum_probs=139.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .+..+.         ..+.++++      ......+.+++..+.+.+|||+|++++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~   86 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVF-SKDQFP---------EVYVPTVF------ENYIADIEVDGKQVELALWDTAGQEDY   86 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHH-HHSSCC---------SSCCCSSC------CCCEEEEEETTEEEEEEEECCCCSGGG
T ss_pred             ccceEEEEECCCCCCHHHHHHHH-HhCcCC---------cccCCccc------ceEEEEEEECCEEEEEEEEECCCchhH
Confidence            46789999999999999999997 333332         22333443      222345678888899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~  204 (432)
                      ..++..+++++|++|+|||++++++|+.+ ..|+..+....+++|+++|+||+|+.+.            +.+..+++.+
T Consensus        87 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  166 (201)
T 2gco_A           87 DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRD  166 (201)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHH
T ss_pred             HHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHH
Confidence            99999999999999999999999999999 7899999887778999999999999764            5678889999


Q ss_pred             HHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         205 YAIKNQM-AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       205 ~a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++..++ +++++||++|.||+++|++|++.+++
T Consensus       167 ~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          167 MANRISAFGYLECSAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             HHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHhc
Confidence            9999998 89999999999999999999998753

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.96  E-value=1.8e-28  Score=219.63  Aligned_cols=168  Identities=32%  Similarity=0.572  Sum_probs=128.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCCc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQG  135 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~e  135 (432)
                      .+..+||+++|++|||||||+++| .+..+.         ..+.+++|     .++....+.++ +..+.+.+|||+|++
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~~l~Dt~G~~   69 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRY-VNDKYS---------QQYKATIG-----ADFLTKEVTVDGDKVATMQVWDTAGQE   69 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHH-HHSCCC---------TTC---CC-----CSCEEEEECCSSSCCEEEEEECCC---
T ss_pred             cCceEEEEEECCCCCCHHHHHHHH-HhCcCC---------cccCCccc-----eEEEEEEEEEcCCcEEEEEEEECCCCh
Confidence            356799999999999999999998 333322         22333333     36666777776 567889999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCC-CCcccCHHHHHHHHH-h
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLA-FNRTVTTREAEMYAI-K  208 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~-~~r~v~~ee~~~~a~-~  208 (432)
                      ++..++..+++++|++|+|||++++.+|+.+..|+.++....     .++|+++|+||+|+. ..+.+..+++.++++ .
T Consensus        70 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~  149 (182)
T 1ky3_A           70 RFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSL  149 (182)
T ss_dssp             -------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHT
T ss_pred             HhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhc
Confidence            999999999999999999999999999999999999887653     578999999999995 345678888999988 5


Q ss_pred             cCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         209 NQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       209 ~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      .+++++++||++|.||+++|++|.+.+.+++
T Consensus       150 ~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          150 GDIPLFLTSAKNAINVDTAFEEIARSALQQN  180 (182)
T ss_dssp             TSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            6789999999999999999999999987654

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.96  E-value=7.3e-29  Score=230.36  Aligned_cols=171  Identities=32%  Similarity=0.609  Sum_probs=143.5

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe----------E
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK----------R  123 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~----------~  123 (432)
                      ...++..+||+|+|++|||||||+++| .+..+         ...+.++++     +++..+.+.+++.          .
T Consensus        19 ~~~~~~~~ki~vvG~~~~GKSsLi~~l-~~~~~---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~~~~~   83 (217)
T 2f7s_A           19 SGDYDYLIKLLALGDSGVGKTTFLYRY-TDNKF---------NPKFITTVG-----IDFREKRVVYNAQGPNGSSGKAFK   83 (217)
T ss_dssp             --CCSEEEEEEEESCTTSSHHHHHHHH-HCSCC---------CCEEEEEEE-----EEEEEEEEEEEC-------CCEEE
T ss_pred             CCCcceeEEEEEECcCCCCHHHHHHHH-hcCCC---------CcCCCCcee-----EEEEEEEEEECCccccccccCcee
Confidence            345677899999999999999999998 33332         222333332     3566666777766          7


Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTRE  201 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee  201 (432)
                      +.+.||||+|++++..++..+++++|++|+|||++++.+|+.+..|+..+....  .++|++||+||+|+.+++.+..++
T Consensus        84 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~  163 (217)
T 2f7s_A           84 VHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQ  163 (217)
T ss_dssp             EEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHH
T ss_pred             EEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHH
Confidence            899999999999999999999999999999999999999999999998887654  579999999999998778888999


Q ss_pred             HHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         202 AEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       202 ~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++++++.++++++++||++|.||+++|++|++.+.++.
T Consensus       164 ~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  201 (217)
T 2f7s_A          164 ARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM  201 (217)
T ss_dssp             HHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCcEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999987643

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.96  E-value=2.9e-29  Score=225.33  Aligned_cols=163  Identities=30%  Similarity=0.516  Sum_probs=126.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| ....+.         ..+.++++      +.....+.+++..+.+++|||+|++++.
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~~-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   70 (182)
T 3bwd_D            7 RFIKCVTVGDGAVGKTCLLISY-TSNTFP---------TDYVPTVF------DNFSANVVVNGATVNLGLWDTAGQEDYN   70 (182)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHH-HHSCCC-------------------------CBCCCC-------CEEECCCC-CTTT
T ss_pred             ceEEEEEECCCCCCHHHHHHHH-hcCCCC---------CCCCCeee------eeEEEEEEECCEEEEEEEEECCCChhhh
Confidence            4689999999999999999998 333332         22223332      1112233456777889999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCCcc----------cCHHHHHHHHH
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFNRT----------VTTREAEMYAI  207 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~r~----------v~~ee~~~~a~  207 (432)
                      .++..+++++|++|+|||++++.+|+++. .|+..+....+++|+++|+||+|+.+++.          +..+++.++++
T Consensus        71 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~  150 (182)
T 3bwd_D           71 RLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKK  150 (182)
T ss_dssp             TTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHH
T ss_pred             hhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHH
Confidence            99999999999999999999999999996 79999998877899999999999976554          47888999999


Q ss_pred             hcCC-cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         208 KNQM-AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       208 ~~~~-~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .+++ +|+++||++|.||+++|++|++.+++
T Consensus       151 ~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  181 (182)
T 3bwd_D          151 LIGAPAYIECSSKSQENVKGVFDAAIRVVLQ  181 (182)
T ss_dssp             HHTCSEEEECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             HcCCCEEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            9997 99999999999999999999998753

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.96  E-value=4.7e-28  Score=222.15  Aligned_cols=167  Identities=22%  Similarity=0.300  Sum_probs=136.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +..+||+++|++|||||||+++|... ..|.         ..+ +++|     .++..+.+.+++..+.+.+|||+|++.
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~---------~~~-~~~~-----~~~~~~~~~~~~~~~~l~~~Dt~~~~~   68 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMD---------SDX-EVLG-----EDTYERTLMVDGESATIILLDMWENKG   68 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC--------------GGGC-----TTEEEEEEEETTEEEEEEEECCCCC--
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcC---------ccc-cccc-----eeEEEEEEEECCeEEEEEEEEeccCcc
Confidence            34689999999999999999997321 1111         111 1122     366777888999999999999999876


Q ss_pred             -cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcE
Q psy3450         137 -FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAF  213 (432)
Q Consensus       137 -~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~  213 (432)
                       +..+...|++.+|++|+|||+++++||+.+..|+..+....  +++|+++|+||+|+..++.+..+++..++..++++|
T Consensus        69 ~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~  148 (192)
T 2cjw_A           69 ENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKF  148 (192)
T ss_dssp             --CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEE
T ss_pred             hhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCce
Confidence             56677888999999999999999999999999998887653  579999999999998778888888889999999999


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +|+||++|.||+++|+++++.+..+.
T Consensus       149 ~e~SA~~g~~v~~lf~~l~~~~~~~~  174 (192)
T 2cjw_A          149 IETSAAVQHNVKELFEGIVRQVRLRR  174 (192)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             EEeccccCCCHHHHHHHHHHHHHhhc
Confidence            99999999999999999999886543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.96  E-value=5.7e-28  Score=219.54  Aligned_cols=164  Identities=27%  Similarity=0.472  Sum_probs=137.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeE--------------
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKR--------------  123 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~--------------  123 (432)
                      +..+||+|+|++|||||||+++| .+..+.         ..+.+++|     .++....+.+++..              
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~   69 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRL-TKDTFH---------ENTNTTIG-----ASFCTYVVNLNDINIKNNSNNEKNNNIN   69 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHH-HHSCCC---------SSCCCCCS-----CEEEEEEEETTC----------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHH-HhCcCC---------CCcCcccc-----ceeEEEEEEecCcccccccccccccccc
Confidence            46799999999999999999998 333332         22233333     35555555565544              


Q ss_pred             -----------------------EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCC
Q psy3450         124 -----------------------VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV  180 (432)
Q Consensus       124 -----------------------v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~i  180 (432)
                                             +.+.||||||++++..++..+++.+|++|+|||++++.+++++..|+..+..... .
T Consensus        70 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~-~  148 (208)
T 3clv_A           70 SINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN-Y  148 (208)
T ss_dssp             ---------------CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC-C
T ss_pred             ccccccccccccccccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC-C
Confidence                                   8899999999999999999999999999999999999999999999999987654 8


Q ss_pred             cEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       181 PiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      |+++|+||+| ..++++..+++.++++..+++++++||++|.|++++|++|.+.+.++
T Consensus       149 piilv~NK~D-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  205 (208)
T 3clv_A          149 IIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKN  205 (208)
T ss_dssp             EEEEEEECTT-CC-CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             cEEEEEECCC-cccccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            9999999999 55678889999999999999999999999999999999999988664

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.96  E-value=1.9e-28  Score=217.06  Aligned_cols=162  Identities=25%  Similarity=0.354  Sum_probs=136.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| .++.+         ...+.++.+      ......+..++..+.+.+|||+|++++.
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~~~Dt~G~~~~~   65 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRF-VKGTF---------RESYIPTVE------DTYRQVISCDKSICTLQITDTTGSHQFP   65 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHH-HTCCC---------CSSCCCCSC------EEEEEEEEETTEEEEEEEEECCSCSSCH
T ss_pred             CceEEEEECCCCCCHHHHHHHH-HcCCC---------CCCCCCCcc------ccEEEEEEECCEEEEEEEEECCCchhhH
Confidence            3589999999999999999998 33332         222333443      3334556678888999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      .++..+++.+|++|+|||++++++++.+..|+..+.+..   +++|+++|+||+|+.+.+++..+++..+++.+++++++
T Consensus        66 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~  145 (172)
T 2erx_A           66 AMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFME  145 (172)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             HHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEE
Confidence            999999999999999999999999999999988887653   57999999999999877888888899999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHh
Q psy3450         216 VSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~  236 (432)
                      +||++|.|++++|++|.+.+.
T Consensus       146 ~Sa~~~~gi~~l~~~l~~~~~  166 (172)
T 2erx_A          146 TSAKLNHNVKELFQELLNLEK  166 (172)
T ss_dssp             CBTTTTBSHHHHHHHHHHTCC
T ss_pred             ecCCCCcCHHHHHHHHHHHHh
Confidence            999999999999999998663

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.96  E-value=4.5e-30  Score=235.86  Aligned_cols=173  Identities=40%  Similarity=0.682  Sum_probs=137.5

Q ss_pred             ccccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          51 VATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        51 ~~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      .......+..+||+|+|++|||||||+++| .+..         +...+.++.+     .++....+.+++..+.+.|||
T Consensus        24 ~~~~~~~~~~~ki~vvG~~~~GKSsli~~l-~~~~---------~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~D   88 (199)
T 3l0i_B           24 SSMNPEYDYLFKLLLIGDSGVGKSCLLLRF-ADDT---------YTESYISTIG-----VDFKIRTIELDGKTIKLQIWD   88 (199)
T ss_dssp             -CC-CCCSEEEEEEEECCTTSCCTTTTTSS-BCCC---------CCCHHHHHHC-----CSEEEEEEEETTEEEEEEEEC
T ss_pred             cccCcccCcceEEEEECCCCCCHHHHHHHH-hcCC---------CCCCcCCccc-----ceEEEEEEEECCEEEEEEEEE
Confidence            344455678899999999999999999997 3332         2222233332     477778888999999999999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhc
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN  209 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~  209 (432)
                      |+|++++..++..+++++|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+.+++.+..++++.+++.+
T Consensus        89 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~  168 (199)
T 3l0i_B           89 TAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSL  168 (199)
T ss_dssp             CTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTT
T ss_pred             CCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998765 47999999999999888888888888999999


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +++++++||++|.||+++|++|++.+.++
T Consensus       169 ~~~~~~vSA~~g~gv~~l~~~l~~~l~~~  197 (199)
T 3l0i_B          169 GIPFLETSAKNATNVEQSFMTMAAEIKKR  197 (199)
T ss_dssp             TCCBCCCCC---HHHHHHHHHHTTTTTTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999999999877543

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.96  E-value=1.2e-28  Score=226.04  Aligned_cols=168  Identities=23%  Similarity=0.356  Sum_probs=112.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe--EEEEEEEeCCCCc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK--RVKLQLWDTSGQG  135 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~--~v~l~i~Dt~G~e  135 (432)
                      ...+||+|+|++|||||||+++| .+...       .+...+.+++|     +++....+.+++.  .+.+.+|||+|++
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l-~~~~~-------~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   84 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMF-TSKGS-------KFLKDYAMTSG-----VEVVVAPVTIPDTTVSVELFLLDTAGSD   84 (208)
T ss_dssp             EEEEEEEEC-----------------------------------------------CEEEECTTSSEEEEEEEEETTTTH
T ss_pred             ccceEEEEECCCCCCHHHHHHHH-HhCCC-------cccCCCCCccc-----eEEEEEEEEECCcccEEEEEEEECCCcH
Confidence            56799999999999999999997 22200       22222333332     3566777888887  8999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCC----CCcEEEEEECccCCC-CcccCHHHHHHHHHhcC
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP----GVPKVLVGNRLHLAF-NRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~----~iPiILVgNK~DL~~-~r~v~~ee~~~~a~~~~  210 (432)
                      ++..++..+++++|++|+|||++++.+|+.+..|+..+....+    ++|++||+||+|+.+ ++.+..+++.++++.++
T Consensus        85 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~  164 (208)
T 2yc2_C           85 LYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNT  164 (208)
T ss_dssp             HHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcC
Confidence            9999999999999999999999999999999999999988754    799999999999987 78889999999999999


Q ss_pred             CcEEEEcCCC-CCCHHHHHHHHHHHHhhh
Q psy3450         211 MAFFEVSPLC-DFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~~~evSAkt-g~nI~elf~~L~~~i~~~  238 (432)
                      ++++++||++ |.||+++|++|++.+.+.
T Consensus       165 ~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~  193 (208)
T 2yc2_C          165 LDFFDVSANPPGKDADAPFLSIATTFYRN  193 (208)
T ss_dssp             CEEEECCC-------CHHHHHHHHHHHHH
T ss_pred             CEEEEeccCCCCcCHHHHHHHHHHHHHHH
Confidence            9999999999 999999999999988654

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.96  E-value=5.1e-28  Score=223.19  Aligned_cols=168  Identities=42%  Similarity=0.701  Sum_probs=142.2

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+|+|++|||||||+++| .+..+.         ..+.++++     .++....+.+++..+.+.||||+|++
T Consensus        16 ~~~~~~~i~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~   80 (213)
T 3cph_A           16 SYDSIMKILLIGDSGVGKSCLLVRF-VEDKFN---------PSFITTIG-----IDFKIKTVDINGKKVKLQLWDTAGQE   80 (213)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHH-HHCCCC---------CSSSCCCS-----CCEEEEEEEETTEEEEEEEECCTTGG
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHH-HhCCCC---------cccCCccc-----ceEEEEEEEECCEEEEEEEEeCCCcH
Confidence            3456799999999999999999998 333332         22233333     46777788889989999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++..++..+++.+|++|+|||++++.+|+.+..|+..+.... .++|++||+||+|+ .++.+..+++..+++.++++++
T Consensus        81 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~  159 (213)
T 3cph_A           81 RFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFI  159 (213)
T ss_dssp             GGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999999999999999998766 46999999999999 4577888899999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++||++|.||+++|++|.+.+.++.
T Consensus       160 ~~Sa~~~~gi~~l~~~l~~~~~~~~  184 (213)
T 3cph_A          160 ESSAKNDDNVNEIFFTLAKLIQEKI  184 (213)
T ss_dssp             ECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999999887654

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.96  E-value=4.5e-28  Score=222.57  Aligned_cols=168  Identities=32%  Similarity=0.631  Sum_probs=141.3

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .+..+||+|+|++|||||||+++| .+..+.         ..+.+++|     .++....+.+++..+.+.+|||+|+++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~l~Dt~G~~~   69 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQY-VNKKFS---------NQYKATIG-----ADFLTKEVMVDDRLVTMQIWDTAGQER   69 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHH-HHSCCC---------SSCCCCCS-----EEEEEEEEESSSCEEEEEEEEECSSGG
T ss_pred             cCcceEEEEECcCCCCHHHHHHHH-HcCCCC---------CCCCCccc-----ceEEEEEEEECCEEEEEEEEeCCCcHH
Confidence            456799999999999999999998 333322         22333443     466777788888889999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCCcccCHHHHHHHHH-hcC
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQ  210 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-~~~  210 (432)
                      +..++..+++++|++|+|||++++.+|+.+..|+.++....     .++|++||+||+|+. ++.+..+++..+++ ..+
T Consensus        70 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~  148 (207)
T 1vg8_A           70 FQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNN  148 (207)
T ss_dssp             GSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTS
T ss_pred             HHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999887654     468999999999997 56778888888888 667


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ++++++||++|.||+++|++|++.+.++..
T Consensus       149 ~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  178 (207)
T 1vg8_A          149 IPYFETSAKEAINVEQAFQTIARNALKQET  178 (207)
T ss_dssp             CCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            899999999999999999999999976543

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=9.4e-28  Score=221.94  Aligned_cols=165  Identities=29%  Similarity=0.480  Sum_probs=137.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .++.+.         ..+.++.+      +.....+.+++..+.+.+|||+|++++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~i~Dt~G~~~~   86 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVF-SKDEFP---------EVYVPTVF------ENYVADIEVDGKQVELALWDTAGQEDY   86 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHH-HHSSCC----------------C------CEEEEEEEETTEEEEEEEEECTTCTTC
T ss_pred             ccCcEEEEECcCCCCHHHHHHHH-hcCCCC---------CcCCCccc------ceEEEEEEECCEEEEEEEEECCCcHHH
Confidence            34689999999999999999998 333332         22333443      333445778898999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~  204 (432)
                      ..++..+++++|++|+|||++++++|+.+ ..|+..+....+++|+++|+||+|+...            +.+..+++..
T Consensus        87 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  166 (207)
T 2fv8_A           87 DRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRA  166 (207)
T ss_dssp             TTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHH
T ss_pred             HHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHH
Confidence            99999999999999999999999999999 7899999887778999999999999654            5678888999


Q ss_pred             HHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         205 YAIKNQM-AFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       205 ~a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +++..++ +++++||++|.||+++|++|.+.+++.
T Consensus       167 ~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          167 MAVRIQAYDYLECSAKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             HHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHSC
T ss_pred             HHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence            9999988 999999999999999999999998754

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.95  E-value=1.5e-27  Score=209.39  Aligned_cols=161  Identities=29%  Similarity=0.455  Sum_probs=137.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++|. +..+.         ..+.++.+      +.....+.+++..+.+.+|||+|++++..
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~-~~~~~---------~~~~~~~~------~~~~~~~~~~~~~~~~~~~D~~G~~~~~~   66 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLI-QNHFV---------DECDPTIE------DSYRKQVVIDGETCLLDILDTAGQEEYSA   66 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH-HSSCC---------SCCCTTCC------EEEEEEEEETTEEEEEEEEECCCCSSCCH
T ss_pred             eeEEEEECCCCCCHHHHHHHHH-hCcCc---------cccCCccc------eEEEEEEEECCEEEEEEEEECCCchhhhH
Confidence            4799999999999999999983 33332         22223333      44456677888899999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++.+|++++|||++++++++++..|+..+....  .++|+++|+||+|+.. +.+..+++.+++++++++++++|
T Consensus        67 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~S  145 (166)
T 2ce2_X           67 MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETS  145 (166)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEEC
T ss_pred             HHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEec
Confidence            99999999999999999999999999999999988765  3799999999999976 66778889999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++|.|++++|++|.+.+.+
T Consensus       146 a~~~~gi~~l~~~l~~~~~~  165 (166)
T 2ce2_X          146 AKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             TTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999998753

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.95  E-value=1.8e-27  Score=215.97  Aligned_cols=164  Identities=28%  Similarity=0.434  Sum_probs=129.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      -..+||+++|++|||||||+++|. ++.+.         ..+.++.+      +.....+.+++..+.+.+|||+|++++
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~-~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~~   82 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLI-QNHFV---------DEYDPTIE------DSYRKQVVIDGETCLLDILDTAGQEEY   82 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHH-HSSCC---------SCCCTTCC------EEEEEEEEETTEEEEEEEEECCC----
T ss_pred             cceeEEEEECcCCCCHHHHHHHHH-cCCCc---------cccCCccc------eEEEEEEEECCEEEEEEEEECCChHHH
Confidence            356899999999999999999983 33332         12222332      444567778898999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ..++..+++.+|++++|||+++..+|+++..|+..+....  .++|+++|+||+|+.. +.+..++++++++.+++++++
T Consensus        83 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~  161 (190)
T 3con_A           83 SAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIE  161 (190)
T ss_dssp             -------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEE
T ss_pred             HHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEE
Confidence            9999999999999999999999999999999999987754  4799999999999975 667888999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +||++|.|++++|++|.+.+.+.
T Consensus       162 ~Sa~~~~gi~~l~~~l~~~~~~~  184 (190)
T 3con_A          162 TSAKTRQGVEDAFYTLVREIRQY  184 (190)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999988664

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.95  E-value=1e-28  Score=224.09  Aligned_cols=176  Identities=19%  Similarity=0.176  Sum_probs=137.0

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCc--CccccCCCccccccceeEEEE-EECCeEEEEEEEeCC
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSE--SPFCSGSGKYDDMLAYKTTTI-LLDGKRVKLQLWDTS  132 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~--~~~~~~ig~~~~tid~~~~~i-~i~~~~v~l~i~Dt~  132 (432)
                      ..+..+||+++|++|||||||++.+  .+.+...+......  ....+++|     .++....+ .+++..+.+++|||+
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l--~~~~~~~~~~~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~i~Dt~   82 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWI--YSKVPEGRKGEMVSLATEDERTLF-----FDFLPLDIGEVKGFKTRFHLYTVP   82 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHH--HHTSCGGGBCCCEEEECSSCEEEE-----EEECCSSCCCSSSCEEEEEEEECC
T ss_pred             ccccccEEEEECCCCCCHHHHHHHH--Hhhcccccccccccccccccccee-----eeecccccccccCCceEEEEEeCC
Confidence            4467899999999999999999654  23333222111000  00111221     13333333 456778999999999


Q ss_pred             CCcccchhhhhcccCceEEEEEEeCC------CCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDIT------NKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt------~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                      |+++|..++..+++++|++|+|||++      +.++|+.+..|+.++....+++|++||+||+|+.+  .+..+++++++
T Consensus        83 G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~  160 (198)
T 3t1o_A           83 GQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPD--ALPVEMVRAVV  160 (198)
T ss_dssp             SCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTT--CCCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhccc--ccCHHHHHHHH
Confidence            99999999999999999999999999      56788888889988865557899999999999964  47889999999


Q ss_pred             HhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         207 IKNQM-AFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       207 ~~~~~-~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +.+++ +++++||++|.||+++|++|++.+.++.+
T Consensus       161 ~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          161 DPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             CTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             HhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            99999 99999999999999999999999987654

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.95  E-value=8.8e-28  Score=223.20  Aligned_cols=176  Identities=24%  Similarity=0.436  Sum_probs=140.1

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-CCeEEEEEEEeCCCCc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-DGKRVKLQLWDTSGQG  135 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-~~~~v~l~i~Dt~G~e  135 (432)
                      .+..+||+|+|++|||||||+++|          ....+...+.++.+     ..+....+.. ++..+.+.+|||+|++
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l----------~~~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRV----------LDGRFEKNYNATVG-----AVNHPVTFLDDQGNVIKFNVWDTAGQE   72 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBC----------TTCSTTCEEETTTT-----EEEEEEEEEBTTSCEEEEEEEEECSGG
T ss_pred             ccCccEEEEECCCCCCHHHHHHHH----------hcCCCCCCCCCccc-----eeeEEEEEEeCCCcEEEEEEEecCCch
Confidence            456799999999999999999997          33333333444443     1233333333 3445889999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      .+..++..+++++|++|+|||++++.+|+++..|+..+.... .++|++||+||+|+.+.+++..+++..+++..+++++
T Consensus        73 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  152 (218)
T 4djt_A           73 KKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYF  152 (218)
T ss_dssp             GTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEE
T ss_pred             hhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEE
Confidence            999999999999999999999999999999999999998765 4589999999999988778899999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcCCcccccc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNGMERLWRS  247 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~  247 (432)
                      ++||++|.||+++|++|++.+.+..........
T Consensus       153 ~~Sa~~g~gv~~l~~~l~~~~~~~~~~~~~~~~  185 (218)
T 4djt_A          153 EISAKTAHNFGLPFLHLARIFTGRPDLIFVSNV  185 (218)
T ss_dssp             EEBTTTTBTTTHHHHHHHHHHHCCTTCCBCSCC
T ss_pred             EEecCCCCCHHHHHHHHHHHHhccccccccccc
Confidence            999999999999999999999876655444333

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.95  E-value=4.8e-28  Score=223.79  Aligned_cols=162  Identities=26%  Similarity=0.466  Sum_probs=136.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| ..+.+.         ..+.++.+      +.....+.+++..+.+.||||+|++++
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~   91 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISY-TTNAFP---------GEYIPTVF------DNYSANVMVDGKPVNLGLWDTAGLEDY   91 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHH-HHSCCC---------C-CCCCSE------EEEEEEEECC-CEEEEEEEEECCSGGG
T ss_pred             CCeEEEEEECcCCCCHHHHHHHH-HhCCCC---------CCcCCeec------ceeEEEEEECCEEEEEEEEECCCchhh
Confidence            45689999999999999999997 333332         22223333      556677778888999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCCc------------ccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFNR------------TVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~r------------~v~~ee~~~  204 (432)
                      ..++..+++++|++|+|||++++.+|+++. .|+..+....+++|++||+||+|+...+            .+..+++..
T Consensus        92 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  171 (204)
T 4gzl_A           92 DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLA  171 (204)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHH
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCEEEEEechhhccchhhhhhhhccccccccHHHHHH
Confidence            999999999999999999999999999996 8999999887889999999999997643            378888999


Q ss_pred             HHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         205 YAIKNQM-AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       205 ~a~~~~~-~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +++..++ +++++||++|.||+++|++|++.+
T Consensus       172 ~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          172 MAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             HHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             HHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            9999987 699999999999999999998764

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.95  E-value=5.1e-28  Score=225.72  Aligned_cols=173  Identities=21%  Similarity=0.483  Sum_probs=144.7

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......+||+++|++|||||||+++| ..         +.+...+.++.|     .++....+.+++..+.+.||||+|+
T Consensus        10 ~~~~~~~ki~v~G~~~~GKSsli~~~-~~---------~~~~~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~   74 (221)
T 3gj0_A           10 GEPQVQFKLVLVGDGGTGKTTFVKRH-LT---------GEFEKKYVATLG-----VEVHPLVFHTNRGPIKFNVWDTAGQ   74 (221)
T ss_dssp             TCCCCEEEEEEEECTTSSHHHHHTTB-HH---------HHHTCEEETTTT-----EEEEEEEEEETTEEEEEEEEEECSG
T ss_pred             CCcccceEEEEECCCCCCHHHHHHHH-Hc---------CCCCCCCCCccc-----eeEEEEEEEECCEEEEEEEEeCCCh
Confidence            34567799999999999999999996 22         222233444554     3566667778899999999999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +.+..++..+++++|++|+|||++++.+|+.+..|+..+....+++|++||+||+|+.+.+ +. +++..+++..+++|+
T Consensus        75 ~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~-~~-~~~~~~~~~~~~~~~  152 (221)
T 3gj0_A           75 EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRK-VK-AKSIVFHRKKNLQYY  152 (221)
T ss_dssp             GGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCCEEEEEECTTSSSCS-SC-GGGCCHHHHHTCEEE
T ss_pred             HHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCcccccc-cc-HHHHHHHHHcCCEEE
Confidence            9999999999999999999999999999999999999999888889999999999996543 22 356678888899999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcCCccc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNGMERL  244 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~~~~~  244 (432)
                      ++||++|.||+++|++|.+.+.........
T Consensus       153 ~~Sa~~~~gi~~l~~~l~~~l~~~~~~~~~  182 (221)
T 3gj0_A          153 DISAKSNYNFEKPFLWLARKLIGDPNLEFV  182 (221)
T ss_dssp             ECBGGGTBTTTHHHHHHHHHHHTCTTCCEE
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHhCcccccc
Confidence            999999999999999999999877654433

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.95  E-value=1.4e-27  Score=217.75  Aligned_cols=169  Identities=19%  Similarity=0.298  Sum_probs=125.4

Q ss_pred             ccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcC-ccccCCCccccccceeEEEEEECCeEEEEEEEeC
Q psy3450          53 TQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSES-PFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        53 ~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~-~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      +........||+|+|++|||||||+++| .+..         +.. .+.+++|       +....+.  +..+.+.||||
T Consensus        10 ~~~~~~~~~ki~v~G~~~~GKSsl~~~l-~~~~---------~~~~~~~~t~~-------~~~~~~~--~~~~~~~i~Dt   70 (199)
T 4bas_A           10 HMGQSKTKLQVVMCGLDNSGKTTIINQV-KPAQ---------SSSKHITATVG-------YNVETFE--KGRVAFTVFDM   70 (199)
T ss_dssp             ------CEEEEEEECCTTSCHHHHHHHH-SCCC-------------CCCCCSS-------EEEEEEE--ETTEEEEEEEE
T ss_pred             cccCCCCCcEEEEECCCCCCHHHHHHHH-hcCC---------Ccccccccccc-------eeEEEEE--eCCEEEEEEEC
Confidence            3445667889999999999999999998 3333         322 2344443       3333333  44578999999


Q ss_pred             CCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---------CCCcEEEEEECccCCCCcc---cCH
Q psy3450         132 SGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---------PGVPKVLVGNRLHLAFNRT---VTT  199 (432)
Q Consensus       132 ~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---------~~iPiILVgNK~DL~~~r~---v~~  199 (432)
                      +|++++..++..+++++|++|+|||++++++|+++..|+..+....         +++|++||+||+|+.....   +..
T Consensus        71 ~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~  150 (199)
T 4bas_A           71 GGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVE  150 (199)
T ss_dssp             CCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHH
T ss_pred             CCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHH
Confidence            9999999999999999999999999999999999999998886542         2789999999999975422   111


Q ss_pred             HHHH-HHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         200 REAE-MYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       200 ee~~-~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      .... .+++..+++++++||++|.||+++|++|++.+.++.+
T Consensus       151 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~  192 (199)
T 4bas_A          151 ILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQSG  192 (199)
T ss_dssp             HHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             HhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHhc
Confidence            1111 1124567899999999999999999999999977643

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=1.9e-27  Score=216.77  Aligned_cols=164  Identities=26%  Similarity=0.376  Sum_probs=137.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .++.+         ...+.++++      ......+..++..+.+.+|||+|++++
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~~   69 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRF-VKGTF---------RDTYIPTIE------DTYRQVISCDKSVCTLQITDTTGSHQF   69 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHH-HHSCC---------CCTTSCCCC------EEEEEEEEETTEEEEEEEEECCGGGSC
T ss_pred             CCeeEEEEECCCCCcHHHHHHHH-HcCCC---------CCcccCccc------cceeEEEEECCEEEEEEEEeCCChHHh
Confidence            34689999999999999999998 33332         222333443      333455677888899999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ..++..+++.+|++|+|||++++.+|+.+..|+..+....   +++|+++|+||+|+.+ +.+..+++..+++.++++++
T Consensus        70 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~  148 (199)
T 2gf0_A           70 PAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFM  148 (199)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEE
T ss_pred             HHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEE
Confidence            9999999999999999999999999999988888776643   4689999999999964 66788889999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++||++|.||+++|++|++.+.++
T Consensus       149 ~~Sa~~~~gi~~l~~~l~~~~~~~  172 (199)
T 2gf0_A          149 ETSAKMNYNVKELFQELLTLETRR  172 (199)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHCSSS
T ss_pred             EEecCCCCCHHHHHHHHHHHHhhh
Confidence            999999999999999999887553

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.94  E-value=1.5e-27  Score=216.47  Aligned_cols=166  Identities=19%  Similarity=0.354  Sum_probs=123.9

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE---CCeEEEEEEEeCCCCcc
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL---DGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~Dt~G~e~  136 (432)
                      .+||+++|++|||||||+++| .+..       ..+...+.+++|     +++....+.+   ++..+.+.+|||+|+++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l-~~~~-------~~~~~~~~~t~g-----~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~   68 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQL-MKTK-------KSDLGMQSATVG-----IDVKDWPIQIRDKRKRDLVLNVWDFAGREE   68 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHH-TCC------------------CS-----EEEEEEEC---------CEEEEEEECSHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH-hcCC-------CccCCCcceecc-----EEeEEeeeccccCCCCceEEEEEecCCCHH
Confidence            479999999999999999998 2210       011122333443     3554444433   34577899999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCC-CChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC---HHHHHHHHHhcCCc
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNK-WSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT---TREAEMYAIKNQMA  212 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~-~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~---~ee~~~~a~~~~~~  212 (432)
                      |..+++.++++++++++|||++++ .+|+.+..|+.++....+++|++|||||+|+.+.+.+.   .+.+..+++.++++
T Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  148 (184)
T 2zej_A           69 FYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFP  148 (184)
T ss_dssp             HHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSC
T ss_pred             HHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCc
Confidence            999999999999999999999998 58999999999998777789999999999997655443   34456677677776


Q ss_pred             ----EEEEcCCCCC-CHHHHHHHHHHHHhhh
Q psy3450         213 ----FFEVSPLCDF-NIRESFTELSRRALQR  238 (432)
Q Consensus       213 ----~~evSAktg~-nI~elf~~L~~~i~~~  238 (432)
                          |+++||++|. +++++++.|.+.+.+.
T Consensus       149 ~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          149 AIRDYHFVNATEESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             EEEEEEECCTTSCCHHHHHHHHHHHHHHHCC
T ss_pred             chhheEEEecccCchhHHHHHHHHHHHHhcc
Confidence                9999999997 9999999999888653

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.94  E-value=1.8e-26  Score=204.74  Aligned_cols=157  Identities=17%  Similarity=0.205  Sum_probs=123.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| ..+.+.          .+.+++       .+....+.+++  +.+.+|||+|++++.
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l-~~~~~~----------~~~~t~-------~~~~~~~~~~~--~~~~~~Dt~G~~~~~   65 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRL-QVGEVV----------TTIPTI-------GFNVETVTYKN--LKFQVWDLGGLTSIR   65 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHH-HHSSCC----------CCCCCS-------SEEEEEEEETT--EEEEEEEECCCGGGG
T ss_pred             CccEEEEECCCCCCHHHHHHHH-hcCCCC----------CcCCcC-------ccceEEEEECC--EEEEEEECCCChhhh
Confidence            4589999999999999999998 333321          122333       34455566664  678999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHH-----HHHhcCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEM-----YAIKNQM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~-----~a~~~~~  211 (432)
                      .++..+++++|++|+|||++++++|+.+..|+..+....  .++|+++|+||+|+.+...  .++...     +++..++
T Consensus        66 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~  143 (171)
T 1upt_A           66 PYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKW  143 (171)
T ss_dssp             GGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCE
T ss_pred             HHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCce
Confidence            999999999999999999999999999999988876543  5799999999999965432  222222     2233456


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++||++|.|++++|++|.+.+.+
T Consensus       144 ~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          144 QIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             EEEECcCCCCcCHHHHHHHHHHHHhh
Confidence            89999999999999999999998854

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.94  E-value=3.9e-27  Score=207.86  Aligned_cols=155  Identities=17%  Similarity=0.240  Sum_probs=118.4

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .++.+..          +.+++       .+....+..+  .+.+.+|||+|++++..+
T Consensus         1 ~ki~~~G~~~~GKssl~~~l-~~~~~~~----------~~~t~-------~~~~~~~~~~--~~~~~i~Dt~G~~~~~~~   60 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKL-KLGEIVT----------TIPTI-------GFNVETVEYK--NISFTVWDVGGQDKIRPL   60 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHH-HHHCSSC----------CCCCS-------SCCEEEEECS--SCEEEEEECCCCGGGHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH-HcCCcCc----------ccCcC-------ceeEEEEEEC--CEEEEEEEcCCChhhHHH
Confidence            58999999999999999998 3333321          12333       2333444443  477899999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHH-----HHhcCCcE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMY-----AIKNQMAF  213 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~-----a~~~~~~~  213 (432)
                      +..+++++|++|+|||++++++|+.+..|+..+....  +++|+++|+||+|+.++  ...++....     ++..++++
T Consensus        61 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~  138 (164)
T 1r8s_A           61 WRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRHRNWYI  138 (164)
T ss_dssp             HHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCSSCCEEE
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC--CCHHHHHHHhCcccccCccEEE
Confidence            9999999999999999999999999999998887642  57999999999999653  222322221     11234579


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++||++|.||+++|++|.+.+.+
T Consensus       139 ~~~Sa~~~~gi~~l~~~l~~~i~~  162 (164)
T 1r8s_A          139 QATCATSGDGLYEGLDWLSNQLRN  162 (164)
T ss_dssp             EECBTTTTBTHHHHHHHHHHHC--
T ss_pred             EEcccCCCcCHHHHHHHHHHHHhh
Confidence            999999999999999999988743

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.94  E-value=4.3e-27  Score=215.63  Aligned_cols=167  Identities=17%  Similarity=0.176  Sum_probs=123.5

Q ss_pred             cccccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-CCeEEEEEEEe
Q psy3450          52 ATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-DGKRVKLQLWD  130 (432)
Q Consensus        52 ~~~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-~~~~v~l~i~D  130 (432)
                      ......+..+||+++|++|||||||++++ .+. +.         .....+.+     .........+ ++..+.+++||
T Consensus        12 ~~~~~~~~~~ki~~vG~~~vGKTsLi~~l-~~~-~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~l~i~D   75 (196)
T 3llu_A           12 ENLYFQGSKPRILLMGLRRSGKSSIQKVV-FHK-MS---------PNETLFLE-----STNKIYKDDISNSSFVNFQIWD   75 (196)
T ss_dssp             --------CCEEEEEESTTSSHHHHHHHH-HSC-CC---------GGGGGGCC-----CCCSCEEEEECCTTSCCEEEEE
T ss_pred             CCCcccCcceEEEEECCCCCCHHHHHHHH-Hhc-CC---------Ccceeeec-----cccceeeeeccCCCeeEEEEEE
Confidence            33445667899999999999999999976 221 21         11112221     0111122223 35678899999


Q ss_pred             CCCCcccchhh---hhcccCceEEEEEEeCCCC--CChhhHHHHHHHHHhhCCCCcEEEEEECccCCC-------CcccC
Q psy3450         131 TSGQGRFCTII---RSYSRGAQGILLVYDITNK--WSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF-------NRTVT  198 (432)
Q Consensus       131 t~G~e~~~~l~---~~~~~~ad~iIlV~Dvt~~--~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~-------~r~v~  198 (432)
                      |+|+++|..+.   ..+++++|++|+|||++++  ++++.+..|+.++....+++|++|||||+|+..       .+.+.
T Consensus        76 t~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~v~  155 (196)
T 3llu_A           76 FPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIH  155 (196)
T ss_dssp             CCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHH
T ss_pred             CCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCchhhhhHHHhHHH
Confidence            99999987776   7999999999999999998  566677778887766678899999999999854       35666


Q ss_pred             HHHHHHHHH----hcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         199 TREAEMYAI----KNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       199 ~ee~~~~a~----~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+++..+++    .++++|+++||++ .||+++|+.|++.+
T Consensus       156 ~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          156 QRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             HHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            777888888    6788999999999 99999999999875

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.94  E-value=2.3e-26  Score=211.74  Aligned_cols=153  Identities=16%  Similarity=0.238  Sum_probs=120.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.+.          .+.++++       .....+.+++  +.+++|||+|++++..
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l-~~~~~~----------~~~~t~~-------~~~~~~~~~~--~~l~i~Dt~G~~~~~~   84 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHML-KDDRLG----------QHVPTLH-------PTSEELTIAG--MTFTTFDLGGHIQARR   84 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHH-SCC----------------CCCC-------CSCEEEEETT--EEEEEEEECC----CC
T ss_pred             CcEEEEECCCCCCHHHHHHHH-hcCCCC----------ccCCCCC-------ceeEEEEECC--EEEEEEECCCcHhhHH
Confidence            479999999999999999997 333332          1233443       2235566777  7889999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh---------
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK---------  208 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~---------  208 (432)
                      ++..+++++|++|+|||++++++|+++..|+.++.+..  .++|+++|+||+|+..  .+..+++.+++..         
T Consensus        85 ~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~  162 (198)
T 1f6b_A           85 VWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGS  162 (198)
T ss_dssp             GGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSC
T ss_pred             HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccc
Confidence            99999999999999999999999999999999887642  5799999999999964  5677888777653         


Q ss_pred             --------cCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         209 --------NQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       209 --------~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                              .++++++|||++|.||+++|++|.+.
T Consensus       163 ~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          163 VSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             CCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             cccccccCceEEEEEEECCCCCCHHHHHHHHHHh
Confidence                    24589999999999999999999764

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.94  E-value=4.9e-26  Score=207.95  Aligned_cols=154  Identities=21%  Similarity=0.255  Sum_probs=124.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||++++ .++.+.          .+.+++       ......+.+++  +.+.+|||+|++++.
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l-~~~~~~----------~~~~t~-------~~~~~~~~~~~--~~~~i~Dt~G~~~~~   81 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHML-KNDRLA----------TLQPTW-------HPTSEELAIGN--IKFTTFDLGGHIQAR   81 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHH-HHSCCC----------CCCCCC-------SCEEEEEEETT--EEEEEEECCCSGGGT
T ss_pred             CccEEEEECCCCCCHHHHHHHH-hcCCCC----------ccccCC-------CCCeEEEEECC--EEEEEEECCCCHHHH
Confidence            3479999999999999999997 333332          122344       33456667777  778999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHh--------
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK--------  208 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~--------  208 (432)
                      .++..+++++|++|+|||++++++|+++..|+.++....  .++|+++|+||+|+.+  .+..+++.+++..        
T Consensus        82 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~  159 (190)
T 1m2o_B           82 RLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQR  159 (190)
T ss_dssp             TSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---
T ss_pred             HHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCcccccccc
Confidence            999999999999999999999999999999999887642  6799999999999964  5667777666543        


Q ss_pred             ----cCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         209 ----NQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       209 ----~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                          .+++|+++||++|.||+++|++|.+.
T Consensus       160 ~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          160 IEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             ccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence                34689999999999999999999753

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.94  E-value=6.1e-26  Score=223.47  Aligned_cols=165  Identities=27%  Similarity=0.451  Sum_probs=141.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+++| ..+.+.         ..+.++++      +.....+.+++..+.+++|||+|++.
T Consensus       152 ~~~~~~i~i~G~~~~GKssli~~~-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~~~l~Dt~G~~~  215 (332)
T 2wkq_A          152 AKELIKCVVVGDGAVGKTCLLISY-TTNAFP---------GEYIPTVF------DNYSANVMVDGKPVNLGLWDTAGLED  215 (332)
T ss_dssp             HTTCEEEEEEESTTSSHHHHHHHH-HHSCCC---------CSCCCCSE------EEEEEEEEETTEEEEEEEEEECCCGG
T ss_pred             ccceeEEEEECCCCCChHHHHHHH-HhCCCC---------cccCCccc------ceeEEEEEECCEEEEEEEEeCCCchh
Confidence            345689999999999999999997 333332         22233333      55566778899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHH
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAE  203 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~  203 (432)
                      +..++..+++++|++|+|||++++.+|+++. .|+..+....+++|+++|+||+|+...            +.+..+++.
T Consensus       216 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~  295 (332)
T 2wkq_A          216 YDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGL  295 (332)
T ss_dssp             GTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHH
T ss_pred             hhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCcEEEEEEchhcccccchhhhccccccccccHHHHH
Confidence            9999999999999999999999999999996 799999888778999999999999653            678889999


Q ss_pred             HHHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         204 MYAIKNQM-AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       204 ~~a~~~~~-~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .+++..++ +|+++||++|.||+++|+.|++.+++
T Consensus       296 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          296 AMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             HHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhc
Confidence            99999997 99999999999999999999998865

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.94  E-value=7.9e-26  Score=205.02  Aligned_cols=157  Identities=16%  Similarity=0.209  Sum_probs=121.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| .++.+.          .+.+++|       +....+.+++  +.+.+|||+|++++.
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l-~~~~~~----------~~~~t~~-------~~~~~~~~~~--~~~~i~Dt~G~~~~~   74 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQF-SMNEVV----------HTSPTIG-------SNVEEIVINN--TRFLMWDIGGQESLR   74 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHH-HTTSCE----------EEECCSC-------SSCEEEEETT--EEEEEEECCC----C
T ss_pred             CccEEEEECCCCCCHHHHHHHH-hcCCCC----------cCcCCCc-------cceEEEEECC--EEEEEEECCCCHhHH
Confidence            4689999999999999999998 333322          2334443       3334555665  778999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHH-----hcCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----KNQM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~~~~  211 (432)
                      .++..+++++|++|+|||++++++|+++..|+..+...  ..+.|+++|+||+|+.+  ....+++.+...     ..++
T Consensus        75 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~  152 (187)
T 1zj6_A           75 SSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE--CMTVAEISQFLKLTSIKDHQW  152 (187)
T ss_dssp             GGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCE
T ss_pred             HHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcC--CCCHHHHHHHhChhhhcCCCc
Confidence            99999999999999999999999999999999998775  26799999999999964  234455444332     3456


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++||++|.||+++|++|++.+..
T Consensus       153 ~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (187)
T 1zj6_A          153 HIQACCALTGEGLCQGLEWMMSRLKI  178 (187)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHHCC
T ss_pred             EEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            89999999999999999999998844

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.89  E-value=2.3e-28  Score=225.04  Aligned_cols=162  Identities=27%  Similarity=0.474  Sum_probs=135.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .++.+.         ..+.++.+      +.....+.+++..+.+++|||+|++++
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~t~~------~~~~~~~~~~~~~~~l~i~Dt~G~~~~   91 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISY-TTNAFP---------GEYIPTVF------DNYSANVMVDGKPVNLGLWDTAGQEDY   91 (204)
Confidence            45689999999999999999997 333332         22233333      334455667788889999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHH-HHHHHHHhhCCCCcEEEEEECccCCCCc------------ccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGID-RWLKEVEEHAPGVPKVLVGNRLHLAFNR------------TVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~DL~~~r------------~v~~ee~~~  204 (432)
                      ..++..+++++|++|+|||++++.+|+++. .|+..+....+++|+++|+||+|+.+.+            .+..+++..
T Consensus        92 ~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~  171 (204)
T 3th5_A           92 DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLA  171 (204)
Confidence            999999999999999999999999999996 8999888776789999999999996543            566778888


Q ss_pred             HHHhcCC-cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         205 YAIKNQM-AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       205 ~a~~~~~-~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +++..++ +++++||++|.||+++|++|++.+
T Consensus       172 ~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          172 MAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            8888887 999999999999999999998765

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.94  E-value=6.8e-26  Score=205.98  Aligned_cols=162  Identities=16%  Similarity=0.244  Sum_probs=125.8

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ......+||+++|++|||||||+++|.....+.         ..+.+++       .+....+.+++  +.+.+|||+|+
T Consensus        16 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~---------~~~~~t~-------~~~~~~~~~~~--~~~~l~Dt~G~   77 (190)
T 2h57_A           16 PRGSKEVHVLCLGLDNSGKTTIINKLKPSNAQS---------QNILPTI-------GFSIEKFKSSS--LSFTVFDMSGQ   77 (190)
T ss_dssp             -----CEEEEEEECTTSSHHHHHHHTSCGGGCC---------SSCCCCS-------SEEEEEEECSS--CEEEEEEECCS
T ss_pred             cCCCCccEEEEECCCCCCHHHHHHHHhcCCCCC---------CCcCCcc-------ceeEEEEEECC--EEEEEEECCCC
Confidence            334567999999999999999999982221121         1122333       45556666665  67899999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCCCCcccCHHHHHHHHH---
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI---  207 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~---  207 (432)
                      +++..++..+++++|++|+|||++++++|+++..|+..+....    .++|+++|+||+|+.+  .+..+++.+++.   
T Consensus        78 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~  155 (190)
T 2h57_A           78 GRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD--AVTSVKVSQLLCLEN  155 (190)
T ss_dssp             TTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT--CCCHHHHHHHHTGGG
T ss_pred             HHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc--CCCHHHHHHHhChhh
Confidence            9999999999999999999999999999999999998887653    4799999999999964  345566666553   


Q ss_pred             --hcCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         208 --KNQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       208 --~~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                        ..+++++++||++|.||+++|++|.+.+.
T Consensus       156 ~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  186 (190)
T 2h57_A          156 IKDKPWHICASDAIKGEGLQEGVDWLQDQIQ  186 (190)
T ss_dssp             CCSSCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             ccCCceEEEEccCCCCcCHHHHHHHHHHHHH
Confidence              23578999999999999999999998763

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.93  E-value=1.4e-25  Score=206.03  Aligned_cols=167  Identities=41%  Similarity=0.700  Sum_probs=142.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ++.+||+++|++|||||||+++| .+..+.         ..+.+++|     +++....+.+++..+.+.+|||+|++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l-~~~~~~---------~~~~~t~~-----~~~~~~~i~~~g~~~~~~i~Dt~g~~~~   67 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRF-TRNEFN---------LESKSTIG-----VEFATRSIQVDGKTIKAQIWDTAGQERY   67 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHH-HHSCCC---------C---CCCS-----CEEEEEEEEETTEEEEEEEEECSSGGGT
T ss_pred             cceEEEEEECcCCCCHHHHHHHH-hcCCCC---------CCCCCccc-----eeEEEEEEEECCEEEEEEEEECCCchhh
Confidence            56799999999999999999997 333332         22233443     4667778889999999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      ..++..++++++++|+|||+++..+|+++..|+..+.... .+.|+++|+||+|+.+.+.+..+++..++.+.++.++++
T Consensus        68 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~  147 (199)
T 2f9l_A           68 RRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIET  147 (199)
T ss_dssp             TCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEEC
T ss_pred             hhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEE
Confidence            8888899999999999999999999999999998887654 568999999999998777888889999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         217 SPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ||+++.|++++|+.|.+.+.+..
T Consensus       148 Sal~~~~i~~l~~~l~~~~~~~~  170 (199)
T 2f9l_A          148 SALDSTNVEEAFKNILTEIYRIV  170 (199)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             eCCCCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999987643

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.93  E-value=1.7e-25  Score=202.10  Aligned_cols=158  Identities=17%  Similarity=0.261  Sum_probs=124.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++|          .... ...+.+++       .+....+.+++  +.+.+|||+|++++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l----------~~~~-~~~~~~t~-------~~~~~~~~~~~--~~~~~~Dt~G~~~~   75 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKF----------NGED-VDTISPTL-------GFNIKTLEHRG--FKLNIWDVGGQKSL   75 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHH----------TTCC-CSSCCCCS-------SEEEEEEEETT--EEEEEEEECCSHHH
T ss_pred             CCeeEEEEECCCCCCHHHHHHHH----------hcCC-CCcccccC-------ccceEEEEECC--EEEEEEECCCCHhH
Confidence            35689999999999999999998          2222 22233344       34455566654  67899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHH-----hcC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAI-----KNQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-----~~~  210 (432)
                      ..++..+++++|++|+|||++++++|+++..|+..+...  .+++|+++|+||+|+.++.  ..++..+...     ..+
T Consensus        76 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~  153 (186)
T 1ksh_A           76 RSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHH  153 (186)
T ss_dssp             HTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSC
T ss_pred             HHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCC--CHHHHHHHhChhhccCCc
Confidence            999999999999999999999999999999999888764  2679999999999996543  3344333221     345


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++++||++|.|++++|++|.+.+.+
T Consensus       154 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~  180 (186)
T 1ksh_A          154 WRIQGCSAVTGEDLLPGIDWLLDDISS  180 (186)
T ss_dssp             EEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             eEEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            689999999999999999999998854

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.93  E-value=5.4e-26  Score=205.26  Aligned_cols=159  Identities=16%  Similarity=0.208  Sum_probs=121.6

Q ss_pred             cccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          54 QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        54 ~~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .......+||+++|++|||||||+++| .++.+          ..+.+++|       +....+.+++  +.+.+|||+|
T Consensus        15 ~~~~~~~~~i~v~G~~~~GKSsli~~l-~~~~~----------~~~~~t~~-------~~~~~~~~~~--~~~~i~Dt~G   74 (181)
T 2h17_A           15 VPRGSQEHKVIIVGLDNAGKTTILYQF-SMNEV----------VHTSPTIG-------SNVEEIVINN--TRFLMWDIGG   74 (181)
T ss_dssp             ------CEEEEEEEETTSSHHHHHHHH-HTTSC----------EEEECCSS-------SSCEEEEETT--EEEEEEEESS
T ss_pred             cCCCCceeEEEEECCCCCCHHHHHHHH-hcCCC----------CccCCcCc-------eeeEEEEECC--EEEEEEECCC
Confidence            334456799999999999999999998 33332          22334443       2234455665  7789999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHH-----
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYA-----  206 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----  206 (432)
                      ++++..++..+++++|++|+|||++++++|+++..|+..+...  ..++|+++|+||+|+.+.  ...++..+..     
T Consensus        75 ~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~  152 (181)
T 2h17_A           75 QESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSI  152 (181)
T ss_dssp             SGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGC
T ss_pred             CHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccc
Confidence            9999999999999999999999999999999999999888765  367999999999999643  3344444333     


Q ss_pred             HhcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         207 IKNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       207 ~~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      +..+++++++||++|.||+++|++|++.
T Consensus       153 ~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          153 KDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             CSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             cCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence            2245689999999999999999999754

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.93  E-value=2.1e-26  Score=210.75  Aligned_cols=158  Identities=15%  Similarity=0.211  Sum_probs=117.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| ..+.+.          .+.+++       .+....+..++  +.+.+|||+|++++
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l-~~~~~~----------~~~~t~-------~~~~~~~~~~~--~~~~i~Dt~G~~~~   86 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKL-KLGEIV----------TTIPTI-------GFNVETVEYKN--ICFTVWDVGGQDKI   86 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHH-CSSCCE----------EEEEET-------TEEEEEEEETT--EEEEEEECC-----
T ss_pred             CCccEEEEECCCCCCHHHHHHHH-HhCCcc----------ccCCcC-------ceeEEEEEECC--EEEEEEECCCCHhH
Confidence            34589999999999999999997 333332          123344       44445555554  77899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHH-----HHhcC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMY-----AIKNQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~-----a~~~~  210 (432)
                      ..++..+++++|++|+|||++++++|+.+..|+..+....  +++|++||+||+|+.+..  ..++..+.     ++..+
T Consensus        87 ~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~  164 (192)
T 2b6h_A           87 RPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRT  164 (192)
T ss_dssp             CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCC
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCc
Confidence            9999999999999999999999999999999999887543  579999999999996532  22322221     11234


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++++||++|.||+++|++|++.+.+
T Consensus       165 ~~~~~~SA~~g~gi~~l~~~l~~~i~~  191 (192)
T 2b6h_A          165 WYVQATCATQGTGLYDGLDWLSHELSK  191 (192)
T ss_dssp             EEEEECBTTTTBTHHHHHHHHHHHTTT
T ss_pred             eEEEECcCCCcCCHHHHHHHHHHHHhc
Confidence            579999999999999999999988743

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.93  E-value=4.1e-26  Score=207.02  Aligned_cols=159  Identities=16%  Similarity=0.204  Sum_probs=123.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| ..+.+.          .+.+++       .+....+.+++  +.+.+|||+|++++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l-~~~~~~----------~~~~t~-------~~~~~~~~~~~--~~~~~~Dt~G~~~~   79 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRL-HLGDVV----------TTVPTV-------GVNLETLQYKN--ISFEVWDLGGQTGV   79 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHT-CCSCCE----------EECSST-------TCCEEEEEETT--EEEEEEEECCSSSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHH-HcCCCC----------CcCCCC-------ceEEEEEEECC--EEEEEEECCCCHhH
Confidence            34689999999999999999997 333322          122343       33344555654  67899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHH-----HHHhcC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEM-----YAIKNQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~-----~a~~~~  210 (432)
                      ..++..+++++|++|+|||++++++|+++..|+..+....  +++|+++|+||+|+.+..  ..++...     .++..+
T Consensus        80 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~  157 (189)
T 2x77_A           80 RPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAA--SEAEIAEQLGVSSIMNRT  157 (189)
T ss_dssp             CCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSC
T ss_pred             HHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCC--CHHHHHHHhChhhccCCc
Confidence            9999999999999999999999999999999988886643  579999999999996542  2222222     122335


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++++||++|.||+++|++|.+.+.++
T Consensus       158 ~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          158 WTIVKSSSKTGDGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             EEEEECCTTTCTTHHHHHHHHHHHHHHT
T ss_pred             eEEEEccCCCccCHHHHHHHHHHHHHhc
Confidence            6899999999999999999999988653

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.93  E-value=1e-26  Score=211.52  Aligned_cols=160  Identities=20%  Similarity=0.335  Sum_probs=121.8

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+|+|++|||||||+++| .++.+.         ..+.+++|       .....+..+  .+.+.+|||+|+++
T Consensus        19 ~~~~~ki~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~t~~-------~~~~~~~~~--~~~~~l~Dt~G~~~   79 (188)
T 1zd9_A           19 SKEEMELTLVGLQYSGKTTFVNVI-ASGQFN---------EDMIPTVG-------FNMRKITKG--NVTIKLWDIGGQPR   79 (188)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHH-HHSCCC---------CSCCCCCS-------EEEEEEEET--TEEEEEEEECCSHH
T ss_pred             CCCccEEEEECCCCCCHHHHHHHH-HcCCCC---------CccCCCCc-------eeEEEEEeC--CEEEEEEECCCCHh
Confidence            345799999999999999999998 333332         22334443       222233333  47789999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHH-----Hhc
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKN  209 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~  209 (432)
                      +..++..+++++|++|+|||++++++|+.+..|+..+...  ..++|++||+||+|+...  ...++..+..     ...
T Consensus        80 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~  157 (188)
T 1zd9_A           80 FRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA--LDEKELIEKMNLSAIQDR  157 (188)
T ss_dssp             HHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSS
T ss_pred             HHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC--CCHHHHHHHhChhhhccC
Confidence            9999999999999999999999999999999999888764  267999999999999653  2223322211     123


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++++||++|.||+++|++|++.+.+
T Consensus       158 ~~~~~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          158 EICCYSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4689999999999999999999987744

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.93  E-value=5.7e-26  Score=205.73  Aligned_cols=158  Identities=21%  Similarity=0.326  Sum_probs=122.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|++|||||||+++| .+..+          ..+.+++|       +....+.+++  +.+.+|||+|++.+
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l-~~~~~----------~~~~~t~g-------~~~~~~~~~~--~~l~i~Dt~G~~~~   73 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQL-ASEDI----------SHITPTQG-------FNIKSVQSQG--FKLNVWDIGGQRKI   73 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHH-CCSCC----------EEEEEETT-------EEEEEEEETT--EEEEEEECSSCGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHH-hcCCC----------CcccCcCC-------eEEEEEEECC--EEEEEEECCCCHHH
Confidence            45689999999999999999998 22221          12334443       4445566664  67899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHH-----HhcC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKNQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~~  210 (432)
                      ..++..+++++|++|+|||++++++|+++..|+..+...  ..++|+++|+||+|+.+.+.  .++..+..     ...+
T Consensus        74 ~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~  151 (181)
T 1fzq_A           74 RPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRV  151 (181)
T ss_dssp             HHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSC
T ss_pred             HHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCc
Confidence            999999999999999999999999999999998887543  25799999999999975432  23332221     1234


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++++||++|.||+++|++|++.+.+
T Consensus       152 ~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          152 WQIQSCSALTGEGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             EEEEECCTTTCTTHHHHHHHHHHTC--
T ss_pred             eEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence            689999999999999999999987744

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.93  E-value=3.8e-25  Score=202.42  Aligned_cols=165  Identities=41%  Similarity=0.714  Sum_probs=142.1

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      +.+..+||+++|++|||||||++++ .+..++         ..+.+++|     .++....+.+++..+.+++||++|++
T Consensus        25 ~~~~~~kv~lvG~~g~GKSTLl~~l-~~~~~~---------~~~~~t~~-----~~~~~~~i~~~g~~~~~~i~Dt~g~~   89 (191)
T 1oix_A           25 EYDYLFKVVLIGDSGVGKSNLLSRF-TRNEFN---------LESKSTIG-----VEFATRSIQVDGKTIKAQIWDTAGLE   89 (191)
T ss_dssp             CCSEEEEEEEEECTTSSHHHHHHHH-HHSCCC---------CSCCCCCS-----EEEEEEEEEETTEEEEEEEEEECSCC
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHH-hcCCCC---------CCCCCccc-----eEEEEEEEEECCEEEEEEEEECCCCc
Confidence            4567899999999999999999997 333332         22334444     46777888899999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      ++..++..+++.++++++|||+++..+|+++..|+..+.... .+.|+++|+||+|+.+.+.+..+++..++.+.++.++
T Consensus        90 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~l  169 (191)
T 1oix_A           90 RYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFI  169 (191)
T ss_dssp             SSSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEE
T ss_pred             chhhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEE
Confidence            999999999999999999999999999999999998887654 5689999999999987777888899999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHH
Q psy3450         215 EVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i  235 (432)
                      ++||+++.|++++|+.|.+.+
T Consensus       170 d~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          170 ETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHh
Confidence            999999999999999998876

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.93  E-value=5.4e-26  Score=224.49  Aligned_cols=206  Identities=18%  Similarity=0.167  Sum_probs=158.3

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ..+.-.|+++|.+|||||||+|+| .+..+....          +..+   +|.+........+ ...++.||||||+.+
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l-~g~~~~i~s----------~~~~---tT~~~~~~~~~~~-~~~~i~lvDTPG~~~   71 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNL-LGTKVSIIS----------PKAG---TTRMRVLGVKNIP-NEAQIIFLDTPGIYE   71 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHH-HTSCCSCCC----------SSSC---CCCSCEEEEEEET-TTEEEEEEECCCCCC
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHH-hCCCccccC----------CCCC---ceeeEEEEEEecC-CCCeEEEEECcCCCc
Confidence            345679999999999999999997 444432211          1111   1123333333333 146789999999966


Q ss_pred             cc----------hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         137 FC----------TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       137 ~~----------~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                      +.          .....+++++|++|+|+|+++..++++...|+..+...  ++|+++|+||+|+...+....+....+.
T Consensus        72 ~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~--~~pvilV~NK~Dl~~~~~~~~~~~~~l~  149 (308)
T 3iev_A           72 PKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPL--NKPVIVVINKIDKIGPAKNVLPLIDEIH  149 (308)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGG--CCCEEEEEECGGGSSSGGGGHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhc--CCCEEEEEECccCCCCHHHHHHHHHHHH
Confidence            54          45567889999999999999999999988888887763  5899999999999755666677778888


Q ss_pred             HhcC--CcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCc
Q psy3450         207 IKNQ--MAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGK  284 (432)
Q Consensus       207 ~~~~--~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk  284 (432)
                      +.++  .+++++||++|.|++++|+.|.+.+              +...+.++.+..++...+++               
T Consensus       150 ~~~~~~~~i~~vSA~~g~gv~~L~~~l~~~l--------------~~~~~~~~~~~~td~~~~~~---------------  200 (308)
T 3iev_A          150 KKHPELTEIVPISALKGANLDELVKTILKYL--------------PEGEPLFPEDMITDLPLRLL---------------  200 (308)
T ss_dssp             HHCTTCCCEEECBTTTTBSHHHHHHHHHHHS--------------CBCCCSSCTTCCBCCCHHHH---------------
T ss_pred             HhccCCCeEEEEeCCCCCCHHHHHHHHHHhC--------------ccCCCCCCcccccCCCHHHH---------------
Confidence            8875  6899999999999999999999887              23344566667777777776               


Q ss_pred             eeEEEEEEeeccccCCccccccccccccchhhh
Q psy3450         285 HLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVI  317 (432)
Q Consensus       285 ~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (432)
                               .+|++|+++...+++|+||+.+|+
T Consensus       201 ---------~~e~irek~~~~~~~eiP~~~~v~  224 (308)
T 3iev_A          201 ---------AAEIVREKAMMLTREEVPTSIAVK  224 (308)
T ss_dssp             ---------HHHHHHHHHHHTCCTTHHHHCEEE
T ss_pred             ---------HHHHHHHHHHhhhhhhcCCeeEEE
Confidence                     678999999999999999999984

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.93  E-value=2.9e-25  Score=199.64  Aligned_cols=159  Identities=18%  Similarity=0.221  Sum_probs=121.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||++++ .++.+          ..+.+++|       +....+.+++  +.+.+|||+|++++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l-~~~~~----------~~~~~t~~-------~~~~~~~~~~--~~~~i~Dt~G~~~~   75 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRL-QIGEV----------VTTKPTIG-------FNVETLSYKN--LKLNVWDLGGQTSI   75 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHT-CCSEE----------EEECSSTT-------CCEEEEEETT--EEEEEEEEC----C
T ss_pred             CCccEEEEECCCCCCHHHHHHHH-hcCCc----------CccCCcCc-------cceEEEEECC--EEEEEEECCCCHhH
Confidence            45689999999999999999997 32222          12334443       3345556665  77899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHh-----cC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-----NQ  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-----~~  210 (432)
                      ..++..+++++|++|+|||++++++|+++..|+..+...  ..++|+++|+||+|+.+.  ...++..+....     .+
T Consensus        76 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~  153 (183)
T 1moz_A           76 RPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRS  153 (183)
T ss_dssp             CTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSC
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCc
Confidence            999999999999999999999999999999999988765  367999999999999643  334444433321     23


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++++||++|.||+++|++|.+.+.++
T Consensus       154 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          154 WSIVASSAIKGEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             EEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             eEEEEccCCCCcCHHHHHHHHHHHHHhc
Confidence            5799999999999999999999988654

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.92  E-value=5.5e-26  Score=218.26  Aligned_cols=175  Identities=17%  Similarity=0.221  Sum_probs=124.3

Q ss_pred             cccccccceEEEEEeCcc---------cchhHHHHHhhhcC---CCCcccccCCCCcCccccCCCcccccccee------
Q psy3450          52 ATQKQYDYLLKFLLVGDS---------DVGKQEILSGLYLE---SRFPRFWLDGSSESPFCSGSGKYDDMLAYK------  113 (432)
Q Consensus        52 ~~~~~~~~~iKVvvvG~~---------gvGKSSLln~L~~~---~~~~~~~~~~~~~~~~~~~ig~~~~tid~~------  113 (432)
                      +.....+..+||+|+|++         |||||||+++| .+   ..+...+....      .+......++.+.      
T Consensus        11 ~~~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l-~~~~~~~~~~~~~~t~------~~~~~~~~~i~~~~~~~~~   83 (255)
T 3c5h_A           11 RENLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRF-VRPSADEFHLDHTSVL------STSDFGGRVVNNDHFLYWG   83 (255)
T ss_dssp             CTTSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHH-HCCSTTTCCSCCCCEE------CHHHHTSTTTTTCSEEEEE
T ss_pred             cCCCCCCceeEEEEECCCccccccCCCCcCHHHHHHHH-HhccCCccccccCCcc------cccccceeEeecccccccc
Confidence            344456778999999999         99999999997 44   23321111100      0000000111110      


Q ss_pred             -EEEEEECCeEEEEEEEe-----------------------CCCCcccchhhhhccc---------------------Cc
Q psy3450         114 -TTTILLDGKRVKLQLWD-----------------------TSGQGRFCTIIRSYSR---------------------GA  148 (432)
Q Consensus       114 -~~~i~i~~~~v~l~i~D-----------------------t~G~e~~~~l~~~~~~---------------------~a  148 (432)
                       .....+++..+.++|||                       ++|+++|..++..+++                     ++
T Consensus        84 ~~~~~~~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  163 (255)
T 3c5h_A           84 EVSRSLEDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLV  163 (255)
T ss_dssp             EEC---------CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEEC
T ss_pred             cccccccCCcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccC
Confidence             01122567789999999                       7888888888888888                     79


Q ss_pred             eEEEEEEeCCCC--CChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHh-cCCcEEEEcCCCCCC
Q psy3450         149 QGILLVYDITNK--WSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFN  223 (432)
Q Consensus       149 d~iIlV~Dvt~~--~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~-~~~~~~evSAktg~n  223 (432)
                      |++|+|||++++  ++|+.+..|+.++...  .+++|++||+||+|+.+++.+  ++++++++. .+++|+++||++|.|
T Consensus       164 d~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~g  241 (255)
T 3c5h_A          164 DGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVN  241 (255)
T ss_dssp             CEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBS
T ss_pred             CEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCC
Confidence            999999999998  9999999999998765  267999999999999765555  577788876 488999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy3450         224 IRESFTELSRRA  235 (432)
Q Consensus       224 I~elf~~L~~~i  235 (432)
                      |+++|++|++.+
T Consensus       242 v~elf~~l~~~l  253 (255)
T 3c5h_A          242 VDLAFSTLVQLI  253 (255)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999999876

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.92  E-value=2.3e-24  Score=222.61  Aligned_cols=223  Identities=17%  Similarity=0.180  Sum_probs=158.1

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC--
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ--  134 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~--  134 (432)
                      .+..+||+++|++|||||||+|+|........           ....|   +|.+.....+..++..  +.||||||+  
T Consensus       172 ~~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~-----------~~~~g---tT~d~~~~~~~~~~~~--~~l~DT~G~~~  235 (436)
T 2hjg_A          172 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIV-----------SNVAG---TTRDAVDTSFTYNQQE--FVIVDTAGMRK  235 (436)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEE-----------C------------CCEEEEETTEE--EEETTHHHHTC
T ss_pred             cccCcEEEEEcCCCCCHHHHHHHHhCCCceee-----------cCCCC---ceeeeeEEEEEECCeE--EEEEECCCcCc
Confidence            34578999999999999999999833222110           01111   2345555667777754  799999997  


Q ss_pred             --------cccchhhh-hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHH
Q psy3450         135 --------GRFCTIIR-SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMY  205 (432)
Q Consensus       135 --------e~~~~l~~-~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~  205 (432)
                              |.|..+.. .+++.+|++|+|+|+++..++++. +|+..+..  .+.|+++|+||+|+.+++.+..++..+.
T Consensus       236 ~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~--~~~~iiiv~NK~Dl~~~~~~~~~~~~~~  312 (436)
T 2hjg_A          236 KGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE--AGKAVVIVVNKWDAVDKDESTMKEFEEN  312 (436)
T ss_dssp             BTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH--TTCEEEEEEECGGGSCCCTTHHHHHHHH
T ss_pred             CccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH--cCCcEEEEEECccCCCcchHHHHHHHHH
Confidence                    45544443 478899999999999999998875 57777665  4589999999999987666554444332


Q ss_pred             -HHh----cCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhccccccccc
Q psy3450         206 -AIK----NQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRS  280 (432)
Q Consensus       206 -a~~----~~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~  280 (432)
                       .+.    .+++++++||++|.||+++|+.+.+.+........                  +....+++...........
T Consensus       313 ~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~~~~~~------------------t~~ln~~l~~~~~~~~pp~  374 (436)
T 2hjg_A          313 IRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHSLRVQ------------------TNVLNDVIMDAVAMNPTPT  374 (436)
T ss_dssp             HHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHTCCCC------------------HHHHHHHHHHHHHHSCCCE
T ss_pred             HHHhcccCCCCCEEEEecccCCCHHHHHHHHHHHHHHhhcCCC------------------HHHHHHHHHHHHHhCCCCc
Confidence             232    36799999999999999999999998865432111                  2223344444433344445


Q ss_pred             CCCceeEEEEEEeeccccCCccccccccccccchhhh
Q psy3450         281 NKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVI  317 (432)
Q Consensus       281 ~~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (432)
                      .+||.+++||..|. +.-+|.+.++.|++..++++=.
T Consensus       375 ~~~~~~~i~y~~q~-~~~pp~~~~~~n~~~~~~~~y~  410 (436)
T 2hjg_A          375 HNGSRLKIYYATQV-SVKPPSFVVFVNDPELMHFSYE  410 (436)
T ss_dssp             ETTEECCEEEEEEE-ETTTTEEEEEESCGGGCCHHHH
T ss_pred             cCCcceeEEeEecC-CCCCCEEEEEeCCcccCCHHHH
Confidence            68999999999999 6689999999999988888753

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.91  E-value=2.1e-24  Score=192.26  Aligned_cols=153  Identities=18%  Similarity=0.184  Sum_probs=115.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc-
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC-  138 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~-  138 (432)
                      .+||+++|++|||||||+++| .+..+..         ...++.     +++.....+.+++  ..+.+|||+|++++. 
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l-~~~~~~~---------~~~~~~-----t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~   65 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNAL-TGENVYI---------GNWPGV-----TVEKKEGEFEYNG--EKFKVVDLPGVYSLTA   65 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HCCSSSC---------C----------CCCCCEEEEEETT--EEEEEEECCCCSCSSS
T ss_pred             ccEEEEECCCCCCHHHHHHHH-hCCCeec---------cCCCCc-----ceeeeEEEEEECC--cEEEEEECCCcccCCC
Confidence            479999999999999999997 3333211         111111     2355555666666  568999999998875 


Q ss_pred             -----hhhhhccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         139 -----TIIRSYSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       139 -----~l~~~~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                           .+...|++  ++|++++|+|+++.   +....|+.++.+.  ++|+++|+||+|+...+.+.. +++.+++.+++
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~i~v~D~~~~---~~~~~~~~~~~~~--~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~  139 (165)
T 2wji_A           66 NSIDEIIARDYIINEKPDLVVNIVDATAL---ERNLYLTLQLMEM--GANLLLALNKMDLAKSLGIEI-DVDKLEKILGV  139 (165)
T ss_dssp             SSHHHHHHHHHHHHHCCSEEEEEEETTCH---HHHHHHHHHHHHT--TCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTS
T ss_pred             cchhHHHHHHHHhcCCCCEEEEEecCCch---hHhHHHHHHHHhc--CCCEEEEEEchHhccccChhh-HHHHHHHHhCC
Confidence                 34456665  89999999999874   4556688877653  689999999999965455543 46778888899


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +++++||++|.||+++|++|.+.+
T Consensus       140 ~~~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          140 KVVPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             CEEECBGGGTBSHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHh
Confidence            999999999999999999998865

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.91  E-value=9.3e-24  Score=219.22  Aligned_cols=224  Identities=17%  Similarity=0.175  Sum_probs=162.1

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC--
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG--  133 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G--  133 (432)
                      ..+..+||+++|++|||||||+|+|...+.+..           ....|   ++.+.....+..++.  .+.||||||  
T Consensus       191 ~~~~~~ki~ivG~~~vGKSslin~l~~~~~~~~-----------~~~~g---tt~~~~~~~~~~~~~--~~~l~DT~G~~  254 (456)
T 4dcu_A          191 YNEEVIQFCLIGRPNVGKSSLVNAMLGEERVIV-----------SNVAG---TTRDAVDTSFTYNQQ--EFVIVDTAGMR  254 (456)
T ss_dssp             CCTTCEEEEEECSTTSSHHHHHHHHHTSTTEEE-----------CC---------CTTSEEEEETTE--EEEETTGGGTT
T ss_pred             cccccceeEEecCCCCCHHHHHHHHhCCCcccc-----------CCCCC---eEEEEEEEEEEECCc--eEEEEECCCCC
Confidence            345678999999999999999999833222211           01111   223555556667775  679999999  


Q ss_pred             --------Ccccchhhhh-cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH
Q psy3450         134 --------QGRFCTIIRS-YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM  204 (432)
Q Consensus       134 --------~e~~~~l~~~-~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~  204 (432)
                              +++|..+... +++.+|++|+|+|+++..+.. ...|+..+.+  .++|++||+||+|+.+++++..+++.+
T Consensus       255 ~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~-~~~~~~~~~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~  331 (456)
T 4dcu_A          255 KKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQ-DKRIAGYAHE--AGKAVVIVVNKWDAVDKDESTMKEFEE  331 (456)
T ss_dssp             TBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHH-HHHHHHHHHH--TTCEEEEEEECGGGSCCCSSHHHHHHH
T ss_pred             cCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHH-HHHHHHHHHH--cCCCEEEEEEChhcCCCchHHHHHHHH
Confidence                    6777766554 789999999999998865433 2456666655  458999999999998877777788777


Q ss_pred             HHHhc-----CCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccc
Q psy3450         205 YAIKN-----QMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWR  279 (432)
Q Consensus       205 ~a~~~-----~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~  279 (432)
                      .+++.     +++++++||++|.||+++|+.+.+.+.+......                  +....+++..........
T Consensus       332 ~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~~~~~------------------t~~ln~~l~~~~~~~~pp  393 (456)
T 4dcu_A          332 NIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHSLRVQ------------------TNVLNDVIMDAVAMNPTP  393 (456)
T ss_dssp             HHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHTCCCC------------------HHHHHHHHHHHHHHSCCC
T ss_pred             HHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHHHHHHHhcccCC------------------HHHHHHHHHHHHHhCCCC
Confidence            77654     5799999999999999999999998866543221                  122233333333333334


Q ss_pred             cCCCceeEEEEEEeeccccCCccccccccccccchhhh
Q psy3450         280 SNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSVI  317 (432)
Q Consensus       280 ~~~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (432)
                      ..+||..++||..|. ..-||.+.++.|++..++++-.
T Consensus       394 ~~~~~~~ki~y~~q~-~~~pp~~~~~~n~~~~~~~~y~  430 (456)
T 4dcu_A          394 THNGSRLKIYYATQV-SVKPPSFVVFVNDPELMHFSYE  430 (456)
T ss_dssp             EETTEECCEEEEEEE-ETTTTEEEEEESCGGGSCHHHH
T ss_pred             CCCCceeeEEEEecC-CCCCCEEEEEecCcccCCHHHH
Confidence            468999999999998 7889999999999988887653

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.91  E-value=3.4e-25  Score=219.46  Aligned_cols=157  Identities=16%  Similarity=0.209  Sum_probs=119.0

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch--
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT--  139 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~--  139 (432)
                      ||+++|+.|||||||+++++ .+.++..      .....+++|     +++.  .  ++ ..++++||||+||++|..  
T Consensus         1 KIvllGdsgvGKTSLl~~~~-~~~~~~~------~~~~~~Tig-----~~~~--~--v~-~~v~LqIWDTAGQErf~~~~   63 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVF-HNMQPLD------TLYLESTSN-----PSLE--H--FS-TLIDLAVMELPGQLNYFEPS   63 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHH-SCCCSGG------GTTCCCCCS-----CCCE--E--EC-SSSCEEEEECCSCSSSCCCS
T ss_pred             CEEEECCCCCCHHHHHHHHH-cCCCCCc------cceecCeee-----eeeE--E--Ec-cEEEEEEEECCCchhccchh
Confidence            78999999999999999863 3322211      112334554     2333  2  23 358899999999999964  


Q ss_pred             -hhhhcccCceEEEEEEeCCCCCChhhHH---HHHHHHHhhCCCCcEEEEEECccCCCC-------cccCHHHHHHHHHh
Q psy3450         140 -IIRSYSRGAQGILLVYDITNKWSFDGID---RWLKEVEEHAPGVPKVLVGNRLHLAFN-------RTVTTREAEMYAIK  208 (432)
Q Consensus       140 -l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~---~~l~~i~~~~~~iPiILVgNK~DL~~~-------r~v~~ee~~~~a~~  208 (432)
                       ++..|+++++++|+|||++++ .++.+.   +|+.++.+..+++|++|||||+||..+       |++..++++++++.
T Consensus        64 l~~~~yyr~a~~~IlV~Ditd~-~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~  142 (331)
T 3r7w_B           64 YDSERLFKSVGALVYVIDSQDE-YINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLEL  142 (331)
T ss_dssp             HHHHHHHTTCSEEEEECCCSSC-TTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSS
T ss_pred             hhhhhhccCCCEEEEEEECCch-HHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhh
Confidence             468899999999999999998 333333   345555556688999999999999764       56788888888886


Q ss_pred             ----cCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         209 ----NQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       209 ----~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                          +++.|+|+||++ .||.++|..+++.+..
T Consensus       143 ~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          143 GLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             SCSCCCEEEECCCSSS-SHHHHHHHHHHTTSST
T ss_pred             cccccCceEEEeccCC-CcHHHHHHHHHHHHHh
Confidence                678999999998 5999999999987753

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.91  E-value=8.2e-25  Score=202.53  Aligned_cols=159  Identities=15%  Similarity=0.216  Sum_probs=108.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe-EEEEEEEeCCCCcc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK-RVKLQLWDTSGQGR  136 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~-~v~l~i~Dt~G~e~  136 (432)
                      ...+||+++|++|||||||+++| .++.+...         +.+..      .++.  .+.+++. .+.+++|||+|+++
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l-~~~~~~~~---------~~~~~------~~~~--~~~~~~~~~~~~~i~Dt~G~~~   66 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRL-LTGQYRDT---------QTSIT------DSSA--IYKVNNNRGNSLTLIDLPGHES   66 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHH-HHSCCCCB---------CCCCS------CEEE--EEECSSTTCCEEEEEECCCCHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-hCCCcccc---------cCCcc------eeeE--EEEecCCCccEEEEEECCCChh
Confidence            34689999999999999999998 33333321         11111      1222  2556654 58899999999999


Q ss_pred             cch-hhhhcccCceEEEEEEeCCCCC-ChhhHHH-HHHHHHhh---CCCCcEEEEEECccCCCCcccC--HHHHHH----
Q psy3450         137 FCT-IIRSYSRGAQGILLVYDITNKW-SFDGIDR-WLKEVEEH---APGVPKVLVGNRLHLAFNRTVT--TREAEM----  204 (432)
Q Consensus       137 ~~~-l~~~~~~~ad~iIlV~Dvt~~~-Sf~~l~~-~l~~i~~~---~~~iPiILVgNK~DL~~~r~v~--~ee~~~----  204 (432)
                      +.. ++..|++++|++|+|||+++.. ++..+.. |...+...   .+++|++||+||+|+...+...  .+...+    
T Consensus        67 ~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~  146 (214)
T 2fh5_B           67 LRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNT  146 (214)
T ss_dssp             HHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHH
Confidence            987 8889999999999999999853 4555544 44444431   3578999999999997543211  111111    


Q ss_pred             ----------------------------HHH-hc--CCcEEEEcCCCC------CCHHHHHHHHHHH
Q psy3450         205 ----------------------------YAI-KN--QMAFFEVSPLCD------FNIRESFTELSRR  234 (432)
Q Consensus       205 ----------------------------~a~-~~--~~~~~evSAktg------~nI~elf~~L~~~  234 (432)
                                                  ++. .+  +++|+||||++|      .||+++|++|.+.
T Consensus       147 ~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          147 LRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             HHHHCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             HhccchhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                                        111 11  568999999999      9999999999875

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.90  E-value=4.4e-23  Score=193.65  Aligned_cols=164  Identities=15%  Similarity=0.087  Sum_probs=118.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC---
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ---  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~---  134 (432)
                      ...+||+|+|++|||||||+++| .+..+...           ...   .++.+.....+..++  +.+.||||||+   
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l-~~~~~~~~-----------~~~---~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~   89 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIV-SRANVDVQ-----------SYS---FTTKNLYVGHFDHKL--NKYQIIDTPGLLDR   89 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHH-TTTCEEEE-----------CC--------CEEEEEEEETT--EEEEEEECTTTTTS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-hCCCCccC-----------CCC---CcceeeeeeeeecCC--CeEEEEECCCCcCc
Confidence            45689999999999999999997 33333211           000   011233333444444  67899999999   


Q ss_pred             ---cc----cchhhhhcccCceEEEEEEeCCCCCChhh--HHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHH---HH
Q psy3450         135 ---GR----FCTIIRSYSRGAQGILLVYDITNKWSFDG--IDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTR---EA  202 (432)
Q Consensus       135 ---e~----~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~--l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~e---e~  202 (432)
                         +.    +.. +..++..+|++|+|||++++.+|+.  ...|+..+....+++|+++|+||+|+.+.+++..+   .+
T Consensus        90 ~~~~~~~~~~~~-~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~  168 (228)
T 2qu8_A           90 AFENRNTIEMTT-ITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMDSLSIDNKLLI  168 (228)
T ss_dssp             CGGGCCHHHHHH-HHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--CCCHHHHHHH
T ss_pred             ccchhhhHHHHH-HHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCchhhHHHHHHHH
Confidence               33    222 2345788999999999999988863  24677777765567999999999999877777654   45


Q ss_pred             HHHHHhcC--CcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         203 EMYAIKNQ--MAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       203 ~~~a~~~~--~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ..+++..+  ++++++||++|.||+++|++|++.+.+..
T Consensus       169 ~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          169 KQILDNVKNPIKFSSFSTLTGVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             HHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCceEEEEecccCCCHHHHHHHHHHHHHHHH
Confidence            66777777  89999999999999999999999986644

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.90  E-value=5e-24  Score=212.32  Aligned_cols=157  Identities=17%  Similarity=0.225  Sum_probs=116.4

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+|+|++|||||||+++| .+..+..         . .+++       ......+..++  +.++||||+|++.|.
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l-~~~~~~~---------~-~pT~-------~~~~~~~~~~~--~~l~i~Dt~G~~~~~  223 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKL-KLGEIVT---------T-IPTI-------GFNVETVEYKN--ISFTVWDVGGQDKIR  223 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHT-CSSCCEE---------E-EEET-------TEEEEEEEETT--EEEEEEECC-----C
T ss_pred             CcceEEEECCCCccHHHHHHHH-hCCCCCC---------c-cccc-------ceEEEEEecCc--EEEEEEECCCCHhHH
Confidence            4579999999999999999997 3333321         1 1233       33344444444  778999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHH-----HhcCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKNQM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~~~  211 (432)
                      .++..+++.+|++|+|||++++.+|+.+..|+..+....  +++|++||+||+|+.+..  ..++.....     +..++
T Consensus       224 ~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~  301 (329)
T 3o47_A          224 PLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNW  301 (329)
T ss_dssp             CSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTCTTCCSSCE
T ss_pred             HHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCccc--CHHHHHHHhchhhhhcCCC
Confidence            999999999999999999999999999988887776543  579999999999996543  223322222     12345


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++||++|.||+++|++|++.+.+
T Consensus       302 ~~~~vSAk~g~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          302 YIQATCATSGDGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHHTC
T ss_pred             EEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            79999999999999999999998854

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.90  E-value=9.7e-24  Score=208.16  Aligned_cols=160  Identities=17%  Similarity=0.266  Sum_probs=126.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCC-CCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLES-RFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~-~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ..+||+++|++|||||||+++|+.+. .+.        ...+.++       ++.....+.+++ .+.+.+|||+|++++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~--------~~~~~~T-------i~~~~~~~~~~~-~~~l~i~Dt~G~~~~   65 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFD--------TRRLGAT-------IDVEHSHLRFLG-NMTLNLWDCGGQDVF   65 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGG--------GGGCCCC-------CSEEEEEEEETT-TEEEEEEEECCSHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCcc--------ccCcCCc-------cceEEEEEEeCC-ceEEEEEECCCcHHH
Confidence            35899999999999999999973321 111        0112223       344444555555 688999999999988


Q ss_pred             -----chhhhhcccCceEEEEEEeCCCCCChhhHHHHHH---HHHhhCCCCcEEEEEECccCCC--Ccc----cCHHHHH
Q psy3450         138 -----CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLK---EVEEHAPGVPKVLVGNRLHLAF--NRT----VTTREAE  203 (432)
Q Consensus       138 -----~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~---~i~~~~~~iPiILVgNK~DL~~--~r~----v~~ee~~  203 (432)
                           ..++..+++++|++|+|||++++++|+++..|..   ++....+++|++|||||+|+.+  +++    +..+++.
T Consensus        66 ~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~  145 (307)
T 3r7w_A           66 MENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLS  145 (307)
T ss_dssp             HHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHH
Confidence                 7788889999999999999999999999977654   4455567899999999999976  455    6678889


Q ss_pred             HHHHhcC---CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         204 MYAIKNQ---MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       204 ~~a~~~~---~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++++.++   ++++++||++ .++.++|..+++.+
T Consensus       146 ~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          146 ETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             HHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHHTT
T ss_pred             HHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHHHH
Confidence            9999987   7999999999 89999999988765

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.90  E-value=2.1e-24  Score=212.55  Aligned_cols=198  Identities=15%  Similarity=0.087  Sum_probs=135.7

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc---
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR---  136 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~---  136 (432)
                      ..+|+++|++|||||||+|+| .+..+....          ...+   +|.+.....+..+  ..++.||||||+.+   
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l-~g~~~~ivs----------~~~~---tTr~~i~~i~~~~--~~~l~l~DTpG~~~~~~   70 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNL-LGVKVAPIS----------PRPQ---TTRKRLRGILTEG--RRQIVFVDTPGLHKPMD   70 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HTSCCSCCC----------SSSC---CCCSCEEEEEEET--TEEEEEEECCCCCCCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHH-hCCceeeec----------CCCC---ceeEEEEEEEEeC--CcEEEEecCccccchhh
Confidence            458999999999999999997 444332111          0111   1112222222233  46789999999876   


Q ss_pred             -----cchhhhhcccCceEEEEEEeCCCCCChhhHHHHH-HHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhc-
Q psy3450         137 -----FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWL-KEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-  209 (432)
Q Consensus       137 -----~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l-~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-  209 (432)
                           +......+++++|++|+|||+++..+..  ..|+ +.+....++.|+++|+||+|+...+..    ..+.++.+ 
T Consensus        71 ~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~~~~~~~p~ilV~NK~Dl~~~~~~----~~~~~~~~~  144 (301)
T 1wf3_A           71 ALGEFMDQEVYEALADVNAVVWVVDLRHPPTPE--DELVARALKPLVGKVPILLVGNKLDAAKYPEE----AMKAYHELL  144 (301)
T ss_dssp             HHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHH--HHHHHHHHGGGTTTSCEEEEEECGGGCSSHHH----HHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHhcCCEEEEEEECCCCCChH--HHHHHHHHHhhcCCCCEEEEEECcccCCchHH----HHHHHHHhc
Confidence                 3445567889999999999999876544  4554 455555457899999999999654330    22233332 


Q ss_pred             C-CcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCc-hhHHHHHHHhcccccccccCCCceeE
Q psy3450         210 Q-MAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESF-TELSRRALQRNGMERLWRSNKGKHLL  287 (432)
Q Consensus       210 ~-~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~-~~~~~r~l~~~~l~r~~~~~~Gk~~~  287 (432)
                      + .+++++||++|.|++++|+.|.+.+.+              ..+.++.+.+ ++...+++                  
T Consensus       145 ~~~~~~~iSA~~g~gv~~l~~~l~~~l~~--------------~~~~y~~~~~~td~~~~~~------------------  192 (301)
T 1wf3_A          145 PEAEPRMLSALDERQVAELKADLLALMPE--------------GPFFYPEDYAKSDQTFGEW------------------  192 (301)
T ss_dssp             TTSEEEECCTTCHHHHHHHHHHHHTTCCB--------------CCCSSCTTCCSBSSCHHHH------------------
T ss_pred             CcCcEEEEeCCCCCCHHHHHHHHHHhccc--------------CCCCCCcccccCCCCHHHH------------------
Confidence            3 479999999999999999999876522              2223333444 45555554                  


Q ss_pred             EEEEEeeccccCCccccccccccccchhhh
Q psy3450         288 TYFQYCFAGLVRPSVDVNKNKYNLLSFSVI  317 (432)
Q Consensus       288 ~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~  317 (432)
                            .++++|+++...+.+++||++.|.
T Consensus       193 ------~~e~~Re~~~~~l~~eiP~~~~v~  216 (301)
T 1wf3_A          193 ------VAEILREEAMKRLWHEVPYAVATK  216 (301)
T ss_dssp             ------HHHHHHHHHHHTCCTTHHHHCEEE
T ss_pred             ------HHHHHHHHHHHHhhcccCceEEEE
Confidence                  467889999999999999999884

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.89  E-value=9.4e-23  Score=182.08  Aligned_cols=158  Identities=13%  Similarity=0.159  Sum_probs=112.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .+..+..         ...++.+     .++....+.+++.  .+.+|||+|++++
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l-~~~~~~~---------~~~~~~~-----~~~~~~~~~~~~~--~~~l~Dt~G~~~~   68 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAI-RHSKVTE---------QEAGGIT-----QHIGAYQVTVNDK--KITFLDTPGHEAF   68 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHH-HTTCSSC---------SSCCSSS-----TTCCCCEEEETTE--EEEESCCCSSSSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-hCCcccc---------CCCCcee-----EeeeEEEEEeCCc--eEEEEECCCCHHH
Confidence            34679999999999999999997 3333322         1112221     2444455667774  4689999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhc-------C
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-------Q  210 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-------~  210 (432)
                      ..++..+++.+|++|+|||+++....+.. .++..+..  .++|+++|+||+|+.+.   ..++.....+..       +
T Consensus        69 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~-~~l~~~~~--~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~  142 (178)
T 2lkc_A           69 TTMRARGAQVTDIVILVVAADDGVMPQTV-EAINHAKA--ANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWG  142 (178)
T ss_dssp             SCSCCSSCCCCCEEEEEEETTCCCCHHHH-HHHHHHGG--GSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTT
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCCcHHHH-HHHHHHHh--CCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcC
Confidence            99999999999999999999886443322 22233222  46899999999999653   223333333222       2


Q ss_pred             --CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 --MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 --~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                        ++++++||++|.||+++|++|++.+...
T Consensus       143 ~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  172 (178)
T 2lkc_A          143 GDTIFCKLSAKTKEGLDHLLEMILLVSEME  172 (178)
T ss_dssp             SSEEEEECCSSSSHHHHHHHHHHHHHHHHT
T ss_pred             CcccEEEEecCCCCCHHHHHHHHHHhhhhh
Confidence              5899999999999999999999988654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.89  E-value=1e-23  Score=190.28  Aligned_cols=155  Identities=21%  Similarity=0.247  Sum_probs=116.5

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC-------
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG-------  133 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G-------  133 (432)
                      +||+++|++|||||||+++| .+..+..         .+.++.       ......+.++    .+.+|||||       
T Consensus         2 ~ki~v~G~~~~GKSsli~~l-~~~~~~~---------~~~~~~-------t~~~~~~~~~----~~~l~Dt~G~~~~~~~   60 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRL-TGKKVRR---------GKRPGV-------TRKIIEIEWK----NHKIIDMPGFGFMMGL   60 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHH-HSCCCSS---------SSSTTC-------TTSCEEEEET----TEEEEECCCBSCCTTS
T ss_pred             cEEEEECCCCCCHHHHHHHH-hCcCCcc---------CCCCCc-------cceeEEEecC----CEEEEECCCccccccC
Confidence            69999999999999999997 3333322         122222       1222233333    579999999       


Q ss_pred             ----CcccchhhhhcccC-ceEEEEEEeCCCCCChhhH-HHHHHH--------HHh-h-CCCCcEEEEEECccCCCCccc
Q psy3450         134 ----QGRFCTIIRSYSRG-AQGILLVYDITNKWSFDGI-DRWLKE--------VEE-H-APGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       134 ----~e~~~~l~~~~~~~-ad~iIlV~Dvt~~~Sf~~l-~~~l~~--------i~~-~-~~~iPiILVgNK~DL~~~r~v  197 (432)
                          ++.+..++..++++ ++++++|||+.|..+|+++ ..|...        +.. . ..++|+++|+||+|+...+  
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--  138 (190)
T 2cxx_A           61 PKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV--  138 (190)
T ss_dssp             CHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH--
T ss_pred             CHHHHHHHHHHHHHHHHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH--
Confidence                67777788888887 8988888888889999887 677653        211 1 1579999999999997644  


Q ss_pred             CHHHHHHHHHhcCCc-------EEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         198 TTREAEMYAIKNQMA-------FFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~-------~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                       .++++++++.++++       ++++||++|.||+++|++|++.+.+..
T Consensus       139 -~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  186 (190)
T 2cxx_A          139 -QEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQ  186 (190)
T ss_dssp             -HHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC-
T ss_pred             -HHHHHHHHHHhhhhhhccCCcEEEEecCCCCCHHHHHHHHHHhcchhh
Confidence             56778888888864       799999999999999999999886643

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.89  E-value=3.8e-23  Score=186.73  Aligned_cols=157  Identities=18%  Similarity=0.181  Sum_probs=120.4

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| .+..+..         ...++.     +++.....+.+++  ..+.+|||+|++.+.
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l-~~~~~~~---------~~~~~~-----t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~   68 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNAL-TGENVYI---------GNWPGV-----TVEKKEGEFEYNG--EKFKVVDLPGVYSLT   68 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHH-HTTCEEE---------EECTTS-----CCEEEEEEEEETT--EEEEEEECCCCSCCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHH-hCCCccc---------cCCCCe-----eccceEEEEEeCC--cEEEEEECCCcCccc
Confidence            3589999999999999999998 3322211         111222     2355566666666  678999999998875


Q ss_pred             ------hhhhhccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         139 ------TIIRSYSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       139 ------~l~~~~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                            .++..+++  .+|++++|+|.++   ++....|+.++..  .+.|+++|+||+|+...+.+. ++++++++.++
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~  142 (188)
T 2wjg_A           69 ANSIDEIIARDYIINEKPDLVVNIVDATA---LERNLYLTLQLME--MGANLLLALNKMDLAKSLGIE-IDVDKLEKILG  142 (188)
T ss_dssp             SSSHHHHHHHHHHHHHCCSEEEEEEEGGG---HHHHHHHHHHHHT--TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHT
T ss_pred             cccHHHHHHHHHHhccCCCEEEEEecchh---HHHHHHHHHHHHh--cCCCEEEEEEhhhccccccch-HHHHHHHHHhC
Confidence                  34566664  5999999999875   6777888888776  468999999999996544444 45678888889


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++++||++|.|++++|+++++.+.+.
T Consensus       143 ~~~~~~Sa~~~~~v~~l~~~i~~~~~~~  170 (188)
T 2wjg_A          143 VKVVPLSAAKKMGIEELKKAISIAVKDK  170 (188)
T ss_dssp             SCEEECBGGGTBSHHHHHHHHHHHHTTC
T ss_pred             CCeEEEEecCCCCHHHHHHHHHHHHHhc
Confidence            9999999999999999999999988543

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.88  E-value=9.8e-23  Score=185.11  Aligned_cols=157  Identities=15%  Similarity=0.250  Sum_probs=107.9

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC----
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG----  133 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G----  133 (432)
                      +..+||+++|++|||||||+++| .+..+.         ..+.++.|.   +.+  .....+++   .+.+|||||    
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l-~~~~~~---------~~~~~~~~~---t~~--~~~~~~~~---~~~l~Dt~G~~~~   82 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSL-INRKNL---------ARTSSKPGK---TQT--LNFYIIND---ELHFVDVPGYGFA   82 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHH-HTC-------------------------CC--EEEEEETT---TEEEEECCCBCCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-hCCCCc---------cccCCCCCc---eee--EEEEEECC---cEEEEECCCCCcc
Confidence            45789999999999999999998 333221         112222221   111  12223344   479999999    


Q ss_pred             ------CcccchhhhhcccCc---eEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH--HHH
Q psy3450         134 ------QGRFCTIIRSYSRGA---QGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT--REA  202 (432)
Q Consensus       134 ------~e~~~~l~~~~~~~a---d~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~--ee~  202 (432)
                            ++.+..++..+++.+   |++++|+|+++..++.+.. ++..+..  .++|+++|+||+|+...+++..  +++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~--~~~p~i~v~nK~Dl~~~~~~~~~~~~~  159 (195)
T 1svi_A           83 KVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY--YGIPVIVIATKADKIPKGKWDKHAKVV  159 (195)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH--TTCCEEEEEECGGGSCGGGHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH--cCCCEEEEEECcccCChHHHHHHHHHH
Confidence                  777777788888776   9999999999988887643 2222332  4689999999999976554432  233


Q ss_pred             HH-HHHhcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         203 EM-YAIKNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       203 ~~-~a~~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+ ++...+++++++||++|.||+++|++|.+.+
T Consensus       160 ~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          160 RQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             HHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHcccCCCceEEEEccCCCCHHHHHHHHHHHh
Confidence            32 3323467999999999999999999999876

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.88  E-value=6.2e-23  Score=184.54  Aligned_cols=153  Identities=17%  Similarity=0.136  Sum_probs=112.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .+..+..       .   ....   .++.++....+.+++.  .+.+|||+|++++..
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l-~~~~~~~-------~---~~~~---~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~   67 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNAL-AGREAAI-------V---TDIA---GTTRDVLREHIHIDGM--PLHIIDTAGLREASD   67 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHH-HTSCCSC-------C---CSST---TCCCSCEEEEEEETTE--EEEEEECCCCSCCSS
T ss_pred             CCEEEEECCCCCCHHHHHHHH-hCCCcce-------e---eCCC---CceeceeeEEEEECCe--EEEEEECCCcccchh
Confidence            479999999999999999998 3222210       0   0011   1234677777888875  478999999976422


Q ss_pred             h--------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         140 I--------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       140 l--------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      .        ...+++++|++|+|||++++.+++. ..|+..+.+.. .++|+++|+||+|+.++..       .+++..+
T Consensus        68 ~~~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~  139 (172)
T 2gj8_A           68 EVERIGIERAWQEIEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNG  139 (172)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETT
T ss_pred             HHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccC
Confidence            1        1136799999999999999999874 57888877655 4799999999999854211       1122346


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      .+++++||++|.||+++|++|.+.+.
T Consensus       140 ~~~~~~SA~~g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          140 HALIRLSARTGEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             EEEEECCTTTCTTHHHHHHHHHHHC-
T ss_pred             CceEEEeCCCCCCHHHHHHHHHHHhh
Confidence            78999999999999999999988763

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.88  E-value=1.5e-22  Score=177.54  Aligned_cols=151  Identities=17%  Similarity=0.142  Sum_probs=106.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc----
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR----  136 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~----  136 (432)
                      .||+++|++|||||||+++|. +..+...       . ..++     .+.+.....+..++.  .+.+|||+|++.    
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~-~~~~~~~-------~-~~~~-----~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~   65 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLL-KKRSAVV-------A-DVPG-----VTRDLKEGVVETDRG--RFLLVDTGGLWSGDKW   65 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH-HCCC------------------------CCEEEEEEETTE--EEEEEECGGGCSSSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHh-CCCeeec-------c-CCCC-----ceecceEEEEEeCCc--eEEEEECCCCCCccch
Confidence            689999999999999999983 3222100       0 0011     123555666677775  679999999887    


Q ss_pred             ---cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-c
Q psy3450         137 ---FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-A  212 (432)
Q Consensus       137 ---~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-~  212 (432)
                         +...+..+++.+|++|+|||+++..+...  .|+..+... .++|+++|+||+|+.+.+    +++.+++ ++++ +
T Consensus        66 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~--~~~~~~~~~-~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~  137 (161)
T 2dyk_A           66 EKKIQEKVDRALEDAEVVLFAVDGRAELTQAD--YEVAEYLRR-KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGD  137 (161)
T ss_dssp             CHHHHHHHHHHTTTCSEEEEEEESSSCCCHHH--HHHHHHHHH-HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCS
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEECCCcccHhH--HHHHHHHHh-cCCCEEEEEECcccccch----HhHHHHH-hCCCCC
Confidence               34455678899999999999998755432  333332222 358999999999996532    3344555 6677 8


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++++||++|.|++++|++|++.+
T Consensus       138 ~~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          138 PIPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             CEECBTTTTBSHHHHHHHHHHHC
T ss_pred             eEEEecccCCChHHHHHHHHHhC
Confidence            99999999999999999998764

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.87  E-value=8.1e-23  Score=216.14  Aligned_cols=165  Identities=18%  Similarity=0.225  Sum_probs=125.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEE------EE--EECCeEEEEEE
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT------TI--LLDGKRVKLQL  128 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~------~i--~i~~~~v~l~i  128 (432)
                      ....+||+++|++|||||||+++| .+..+         ...+.+++|     +++..+      .+  ..++..+.+.+
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l-~~~~~---------~~~~~~t~g-----~~~~~~~~~~~~~v~~~~~~~~~~~~i  102 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQL-IGETF---------DPKESQTHG-----LNVVTKQAPNIKGLENDDELKECLFHF  102 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHH-HC--------------------C-----CCEEEEEGGGSGGGTTCSTTTTCEEEE
T ss_pred             cccceEEEEECCCCCCHHHHHHHH-hcCCC---------CCCCCCccc-----eEEEEeccccccceeecCCCceEEEEE
Confidence            456799999999999999999998 33333         222334443     122222      11  12344678999


Q ss_pred             EeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         129 WDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       129 ~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                      |||+|++.+..+...+++++|++|+|||+++   ++.+..|+.++....+++|+|||+||+|+...+.+..+++++++..
T Consensus       103 ~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~---~~~~~~~~~~l~~~~~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~  179 (535)
T 3dpu_A          103 WDFGGQEIMHASHQFFMTRSSVYMLLLDSRT---DSNKHYWLRHIEKYGGKSPVIVVMNKIDENPSYNIEQKKINERFPA  179 (535)
T ss_dssp             ECCCSCCTTTTTCHHHHHSSEEEEEEECGGG---GGGHHHHHHHHHHHSSSCCEEEEECCTTTCTTCCCCHHHHHHHCGG
T ss_pred             EECCcHHHHHHHHHHHccCCcEEEEEEeCCC---chhHHHHHHHHHHhCCCCCEEEEEECCCcccccccCHHHHHHHHHh
Confidence            9999999999999999999999999999875   4677899999999888899999999999988888888889999888


Q ss_pred             cCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         209 NQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       209 ~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      .+++++++||++|.||+++|+.|.+.+.+..
T Consensus       180 ~~~~~~~vSA~~g~gi~eL~~~l~~~~~~~~  210 (535)
T 3dpu_A          180 IENRFHRISCKNGDGVESIAKSLKSAVLHPD  210 (535)
T ss_dssp             GTTCEEECCC-----CTTHHHHHHHHHTCTT
T ss_pred             cCCceEEEecCcccCHHHHHHHHHHHHhccc
Confidence            9999999999999999999999999886643

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.86  E-value=3.6e-22  Score=196.48  Aligned_cols=201  Identities=13%  Similarity=0.077  Sum_probs=137.1

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc-c--
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG-R--  136 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e-~--  136 (432)
                      ..+|+++|++|||||||+|++ .+..+....          ...+   ++.+.....+..++  .++.+|||||.+ .  
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L-~g~~~~i~s----------~~~~---tTr~~~~gi~~~~~--~~i~~iDTpG~~~~~~   71 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKL-LGQKISITS----------RKAQ---TTRHRIVGIHTEGA--YQAIYVDTPGLHMEEK   71 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHH-HTCSEEECC----------CCSS---CCSSCEEEEEEETT--EEEEEESSSSCCHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH-HCCCccccC----------CCCC---cceeeEEEEEEECC--eeEEEEECcCCCccch
Confidence            358999999999999999997 443332110          0111   11122222233333  578999999997 2  


Q ss_pred             ------cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         137 ------FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       137 ------~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                            +......+++.+|++++|+|+++   +.....|+.+.... .+.|+++|+||+|+...+....+.+.++++.++
T Consensus        72 ~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~~-~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~  147 (301)
T 1ega_A           72 RAINRLMNKAASSSIGDVELVIFVVEGTR---WTPDDEMVLNKLRE-GKAPVILAVNKVDNVQEKADLLPHLQFLASQMN  147 (301)
T ss_dssp             HHHHHHHTCCTTSCCCCEEEEEEEEETTC---CCHHHHHHHHHHHS-SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSC
T ss_pred             hhHHHHHHHHHHHHHhcCCEEEEEEeCCC---CCHHHHHHHHHHHh-cCCCEEEEEECcccCccHHHHHHHHHHHHHhcC
Confidence                  33344567899999999999977   44444555443322 358999999999986533333455566666677


Q ss_pred             C-cEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhcccccccccCCCceeEEE
Q psy3450         211 M-AFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRSNKGKHLLTY  289 (432)
Q Consensus       211 ~-~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~~~Gk~~~~y  289 (432)
                      + .++++||++|.|++++++.+.+.+..              ....++.+..++...+++                    
T Consensus       148 ~~~~i~iSA~~g~~v~~l~~~i~~~l~~--------------~~~~~~~~~~~d~~~~~~--------------------  193 (301)
T 1ega_A          148 FLDIVPISAETGLNVDTIAAIVRKHLPE--------------ATHHFPEDYITDRSQRFM--------------------  193 (301)
T ss_dssp             CSEEEECCTTTTTTHHHHHHHHHTTCCB--------------CCCSSCTTCCSCCSHHHH--------------------
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHhCCc--------------CCCCCCccccCCCCHHHH--------------------
Confidence            6 79999999999999999999876622              223344444555555554                    


Q ss_pred             EEEeeccccCCccccccccccccchhhhh
Q psy3450         290 FQYCFAGLVRPSVDVNKNKYNLLSFSVIS  318 (432)
Q Consensus       290 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (432)
                          .++++|+++...+++|+||+.+|+.
T Consensus       194 ----~~e~~re~l~~~l~~e~p~~~~v~i  218 (301)
T 1ega_A          194 ----ASEIIREKLMRFLGAELPYSVTVEI  218 (301)
T ss_dssp             ----HHHHHHHHHHHHHGGGCCTTEEEEE
T ss_pred             ----HHHHHHHHHHHHhCCCCCeEEEEEE
Confidence                4678899999999999999988854

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.86  E-value=1.4e-21  Score=188.19  Aligned_cols=155  Identities=19%  Similarity=0.150  Sum_probs=116.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+|+| .+..+..         ...++     .+++.....+..++  ..+.+|||||++.+.
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l-~g~~~~~---------~~~pg-----~tv~~~~~~~~~~~--~~~~l~DtpG~~~~~   66 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNAL-TGTKQYV---------ANWPG-----VTVEKKEGVFTYKG--YTINLIDLPGTYSLG   66 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHH-HTTCEEE---------EECTT-----SCCEEEEEEEEETT--EEEEEEECCCCSSCC
T ss_pred             CceEEEEECCCCCCHHHHHHHH-HCCCCcc---------cCCCC-----ceEEEEEEEEEECC--eEEEEEECCCcCccC
Confidence            4689999999999999999998 3322211         11122     22355555555544  678999999998776


Q ss_pred             h------hhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         139 T------IIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       139 ~------l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      .      +...|+  .++|++|+|+|+++.++   ...|..++.+.  ++|+++|+||+|+...+.+.. ++..+++.++
T Consensus        67 ~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~---~~~~~~~l~~~--~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg  140 (258)
T 3a1s_A           67 YSSIDEKIARDYLLKGDADLVILVADSVNPEQ---SLYLLLEILEM--EKKVILAMTAIDEAKKTGMKI-DRYELQKHLG  140 (258)
T ss_dssp             SSSHHHHHHHHHHHHSCCSEEEEEEETTSCHH---HHHHHHHHHTT--TCCEEEEEECHHHHHHTTCCB-CHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHhhcCCCEEEEEeCCCchhh---HHHHHHHHHhc--CCCEEEEEECcCCCCccchHH-HHHHHHHHcC
Confidence            5      335565  58999999999998643   34566666654  589999999999965555543 4678888999


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ++++++||++|.|++++|+++.+.+.
T Consensus       141 ~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          141 IPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            99999999999999999999998764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.86  E-value=3.8e-21  Score=173.87  Aligned_cols=157  Identities=18%  Similarity=0.220  Sum_probs=109.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC---
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG---  133 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G---  133 (432)
                      ....+||+++|++|||||||+++|+.. .+..          ..++.|.     .........+.   ++.+|||+|   
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~-~~~~----------~~~~~~~-----t~~~~~~~~~~---~~~i~Dt~G~~~   80 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNR-KIAF----------VSKTPGK-----TRSINFYLVNS---KYYFVDLPGYGY   80 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTS-CCSC----------CCSSCCC-----CCCEEEEEETT---TEEEEECCCBSS
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcC-cccc----------ccCCCCC-----ccCeEEEEECC---cEEEEECCCCcc
Confidence            345689999999999999999998332 2211          1122221     11111222232   468999999   


Q ss_pred             -------CcccchhhhhcccCc---eEEEEEEeCCCCCChhhH--HHHHHHHHhhCCCCcEEEEEECccCCCC--cccCH
Q psy3450         134 -------QGRFCTIIRSYSRGA---QGILLVYDITNKWSFDGI--DRWLKEVEEHAPGVPKVLVGNRLHLAFN--RTVTT  199 (432)
Q Consensus       134 -------~e~~~~l~~~~~~~a---d~iIlV~Dvt~~~Sf~~l--~~~l~~i~~~~~~iPiILVgNK~DL~~~--r~v~~  199 (432)
                             ++.+..++..+++.+   |++++|+|.++..+....  ..|+..   .  ++|+++|+||+|+.++  ++...
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~---~--~~p~i~v~nK~Dl~~~~~~~~~~  155 (195)
T 3pqc_A           81 AKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKS---L--NIPFTIVLTKMDKVKMSERAKKL  155 (195)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH---T--TCCEEEEEECGGGSCGGGHHHHH
T ss_pred             ccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHH---c--CCCEEEEEEChhcCChHHHHHHH
Confidence                   666777777777665   999999999887554432  334433   2  5899999999999643  33444


Q ss_pred             HHHHHHHHhcC-CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         200 REAEMYAIKNQ-MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       200 ee~~~~a~~~~-~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++.+++...+ ++++++||++|.||+++|++|.+.+.+
T Consensus       156 ~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          156 EEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             HHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            56667777644 799999999999999999999988743

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.86  E-value=7.9e-22  Score=191.49  Aligned_cols=153  Identities=16%  Similarity=0.171  Sum_probs=113.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+|+|.....+...          .++.     +++.  +...++. ...+.+|||||++.+.
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~----------~pg~-----tv~~--~~~~~~~-~~~l~l~DtpG~~~~~   63 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGN----------WPGV-----TVER--KSGLVKK-NKDLEIQDLPGIYSMS   63 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCS----------SSCC-----CCSC--EEEECTT-CTTEEEEECCCCSCSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccC----------CCCC-----cEEE--EEEEEec-CCeEEEEECCCcCccC
Confidence            3579999999999999999998332222111          1111     1232  2333444 5678999999998875


Q ss_pred             ------hhhhhccc--CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         139 ------TIIRSYSR--GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       139 ------~l~~~~~~--~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                            .+...|+.  ++|++|+|||+++.+   ....|..++.+  .++|+++|+||+|+...+.+. .++..+++.++
T Consensus        64 ~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e---~~~~~~~~l~~--~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg  137 (272)
T 3b1v_A           64 PYSPEAKVARDYLLSQRADSILNVVDATNLE---RNLYLTTQLIE--TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLG  137 (272)
T ss_dssp             CSSHHHHHHHHHHHTTCCSEEEEEEEGGGHH---HHHHHHHHHHH--TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHT
T ss_pred             CCChHHHHHHHHHhcCCCCEEEEEecCCchH---hHHHHHHHHHh--cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcC
Confidence                  45566765  699999999998854   34567666665  368999999999986544444 45677888899


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++++++||++|.||+++|+++++.+
T Consensus       138 ~~vi~~SA~~g~gi~el~~~i~~~~  162 (272)
T 3b1v_A          138 VPVVATSALKQTGVDQVVKKAAHTT  162 (272)
T ss_dssp             SCEEECBTTTTBSHHHHHHHHHHSC
T ss_pred             CCEEEEEccCCCCHHHHHHHHHHHH
Confidence            9999999999999999999998764

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.84  E-value=2.3e-20  Score=192.77  Aligned_cols=217  Identities=18%  Similarity=0.161  Sum_probs=141.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +..+||+++|++|||||||+|++.......           ..+..|   +|.+.....+.+++.  .+.+|||+|+.++
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~-----------v~~~~g---tT~d~~~~~i~~~g~--~~~l~Dt~G~~~~  241 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERAL-----------VSPIPG---TTRDPVDDEVFIDGR--KYVFVDTAGLRRK  241 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEE-----------ECCCC---------CCEEEEETTE--EEEESSCSCC---
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccc-----------cCCCCC---CcCCceEEEEEECCE--EEEEEECCCCccc
Confidence            356899999999999999999983222111           011111   223455566778886  4689999998543


Q ss_pred             chhh------------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH-
Q psy3450         138 CTII------------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM-  204 (432)
Q Consensus       138 ~~l~------------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~-  204 (432)
                      ....            ..+++.+|++++|+|+++..++++. .+...+..  .+.|+++|+||+|+.+++....++..+ 
T Consensus       242 ~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~  318 (439)
T 1mky_A          242 SRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER--RGRASVVVFNKWDLVVHREKRYDEFTKL  318 (439)
T ss_dssp             --------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH--TTCEEEEEEECGGGSTTGGGCHHHHHHH
T ss_pred             cccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH--cCCCEEEEEECccCCCchhhHHHHHHHH
Confidence            3221            2356789999999999988777653 23333333  358999999999997665555554432 


Q ss_pred             HHHh----cCCcEEEEcCCCCCCHHHHHHHHHHHHhhhcCCcccccccCCCCCCCcCCCCchhHHHHHHHhccccccccc
Q psy3450         205 YAIK----NQMAFFEVSPLCDFNIRESFTELSRRALQRNGMERLWRSNKVGRKPLINFESFTELSRRALQRNGMERLWRS  280 (432)
Q Consensus       205 ~a~~----~~~~~~evSAktg~nI~elf~~L~~~i~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~r~l~~~~l~r~~~~  280 (432)
                      +.+.    .+++++++||++|.||+++|+.+.+.+.......                  .+...-+++.......... 
T Consensus       319 ~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~~~i------------------~t~~ln~~l~~~~~~~~~~-  379 (439)
T 1mky_A          319 FREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASYTTKV------------------PSSAINSALQKVLAFTNLP-  379 (439)
T ss_dssp             HHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHHTCCC------------------CHHHHHHHHHHHHTTCCCS-
T ss_pred             HHHHhccCCCCcEEEEECCCCCCHHHHHHHHHHHHHhhcccC------------------CHHHHHHHHHHHHHcCCCC-
Confidence            2233    3579999999999999999999998775542211                  1222333343333221111 


Q ss_pred             CCCceeEEEEEEeeccccCCccccccccccccchhh
Q psy3450         281 NKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLLSFSV  316 (432)
Q Consensus       281 ~~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~  316 (432)
                         |+.++||..+. +.-+|.+-++.|++..++++-
T Consensus       380 ---~~~ki~y~~q~-~~~p~~~~~~~n~~~~~~~~y  411 (439)
T 1mky_A          380 ---RGLKIFFGVQV-DIKPPTFLFFVNSIEKVKNPQ  411 (439)
T ss_dssp             ---TTCCEEEEEEE-ETTTTEEEEEESCSTTCCHHH
T ss_pred             ---CCcEEEEEEec-CCCCCEEEEEEcCcccCCHHH
Confidence               77899999998 557899999999998887654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.84  E-value=1.2e-20  Score=175.42  Aligned_cols=162  Identities=13%  Similarity=0.118  Sum_probs=107.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC-CeEEEEEEEeCCCC--
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD-GKRVKLQLWDTSGQ--  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~-~~~v~l~i~Dt~G~--  134 (432)
                      ...+||+|+|++|||||||+|+|.....+..          .....|   ++.+..  ...+. .....+.||||||.  
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~~~~~----------~~~~~~---~t~~~~--~~~~~~~~~~~~~l~DtpG~~~   91 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQKRLAF----------ASKTPG---RTQHIN--YFSVGPAAEPVAHLVDLPGYGY   91 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCSSSSC----------TTCCCC---SCCCEE--EEEESCTTSCSEEEEECCCCCS
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCccee----------ecCCCC---cccceE--EEEecCCCCCcEEEEcCCCCCc
Confidence            4568999999999999999999833221111          111111   111222  22233 33456899999994  


Q ss_pred             --------cccchhhhhcccC---ceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC--HHH
Q psy3450         135 --------GRFCTIIRSYSRG---AQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT--TRE  201 (432)
Q Consensus       135 --------e~~~~l~~~~~~~---ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~--~ee  201 (432)
                              +.+..+...|++.   +|++|+|+|+++..+.. ...|+..+..  .++|+++|+||+|+...+++.  .++
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~-~~~~~~~l~~--~~~p~i~v~nK~Dl~~~~~~~~~~~~  168 (223)
T 4dhe_A           92 AEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTEL-DRRMIEWFAP--TGKPIHSLLTKCDKLTRQESINALRA  168 (223)
T ss_dssp             SCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHGG--GCCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             ccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHH-HHHHHHHHHh--cCCCEEEEEeccccCChhhHHHHHHH
Confidence                    4445666667655   89999999998865432 2455665554  458999999999996543321  122


Q ss_pred             HHHHHHh-------cCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         202 AEMYAIK-------NQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       202 ~~~~a~~-------~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ..+....       .+.+++++||++|.||+++|++|.+.+..
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  211 (223)
T 4dhe_A          169 TQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRP  211 (223)
T ss_dssp             HHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC-
T ss_pred             HHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCc
Confidence            2222222       45689999999999999999999998854

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.83  E-value=3e-21  Score=185.74  Aligned_cols=151  Identities=18%  Similarity=0.151  Sum_probs=111.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch-
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT-  139 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~-  139 (432)
                      .||+++|.+|||||||+|+|.. ..+.         ....++     .+++.....+.+++.  .+.+|||||+..+.. 
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g-~~~~---------v~~~pg-----~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~   64 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTN-ANQR---------VGNWPG-----VTVEKKTGEFLLGEH--LIEITDLPGVYSLVAN   64 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHT-TSEE---------EEECTT-----SSSEEEEEEEEETTE--EEEEEECCCCSSCC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHC-CCCC---------ccCCCC-----ceEEEEEEEEEECCe--EEEEEeCCCccccccc
Confidence            4899999999999999999832 2221         111122     235667777777775  679999999987764 


Q ss_pred             ---------hhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         140 ---------IIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       140 ---------l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                               +...|+  +++|++|+|+|+++.+++..+..|   +.+  .++|+++|+||+|+...+.+.. ....+++.
T Consensus        65 ~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~~~~~~~l~~~---l~~--~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~  138 (256)
T 3iby_A           65 AEGISQDEQIAAQSVIDLEYDCIINVIDACHLERHLYLTSQ---LFE--LGKPVVVALNMMDIAEHRGISI-DTEKLESL  138 (256)
T ss_dssp             ----CHHHHHHHHHHHHSCCSEEEEEEEGGGHHHHHHHHHH---HTT--SCSCEEEEEECHHHHHHTTCEE-CHHHHHHH
T ss_pred             ccCCCHHHHHHHHHHhhCCCCEEEEEeeCCCchhHHHHHHH---HHH--cCCCEEEEEEChhcCCcCCcHH-HHHHHHHH
Confidence                     455677  899999999999986554443333   333  2589999999999865443322 24557788


Q ss_pred             cCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         209 NQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       209 ~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      ++++++++||++|.|++++|++|.+.
T Consensus       139 lg~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          139 LGCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             HCSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            89999999999999999999999876

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.83  E-value=2.2e-21  Score=179.86  Aligned_cols=146  Identities=16%  Similarity=0.210  Sum_probs=104.5

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+++| .+..+...      ...+.++++     .++         ..+.+.+|||+|++.
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l-~~~~~~~~------~~~~~~~~~-----~~~---------~~~~~~l~Dt~G~~~   67 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLL-TTDSVRPT------VVSQEPLSA-----ADY---------DGSGVTLVDFPGHVK   67 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHH-HHSSCCCB------CCCSSCEEE-----TTG---------GGSSCEEEECCCCGG
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHH-hcCCCCCe------eeecCceEE-----EEe---------eCceEEEEECCCcHH
Confidence            345689999999999999999998 33333210      001111111     111         345689999999999


Q ss_pred             cchhhhhcccC----ceEEEEEEeCC-CCCChhhHHHHHHHHHhh-----CCCCcEEEEEECccCCCCcccC------HH
Q psy3450         137 FCTIIRSYSRG----AQGILLVYDIT-NKWSFDGIDRWLKEVEEH-----APGVPKVLVGNRLHLAFNRTVT------TR  200 (432)
Q Consensus       137 ~~~l~~~~~~~----ad~iIlV~Dvt-~~~Sf~~l~~~l~~i~~~-----~~~iPiILVgNK~DL~~~r~v~------~e  200 (432)
                      +...+..++++    +|++|+|||++ ++++|..+..|+.++...     ..++|+++|+||+|+...+.+.      .+
T Consensus        68 ~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~  147 (218)
T 1nrj_B           68 LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALES  147 (218)
T ss_dssp             GTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHH
Confidence            99988888887    89999999999 889999999998887653     2579999999999998766544      45


Q ss_pred             HHHHHHHhcCCcEEEEcCCCCCC
Q psy3450         201 EAEMYAIKNQMAFFEVSPLCDFN  223 (432)
Q Consensus       201 e~~~~a~~~~~~~~evSAktg~n  223 (432)
                      ++..++...+++|+++||++|.+
T Consensus       148 ~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          148 EIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             HHHHHHHHHHHHHHC--------
T ss_pred             HHHHHHHHHhccccccccccccc
Confidence            67777777788999999998875

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.82  E-value=3.5e-20  Score=179.11  Aligned_cols=156  Identities=19%  Similarity=0.102  Sum_probs=116.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+|+| .+..+.         ....++.     +++.....+..++.  .+.+|||||+..+..
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l-~g~~~~---------~~~~~~~-----t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~   65 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNAL-TGLRQH---------VGNWPGV-----TVEKKEGIMEYREK--EFLVVDLPGIYSLTA   65 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHH-HTTCEE---------EEECTTS-----SCEEEEEEEEETTE--EEEEEECCCCSCCCS
T ss_pred             eeEEEEECCCCCCHHHHHHHH-hCCCcc---------cCCCCCe-----EEEeeEEEEEECCc--eEEEEeCCCcccccc
Confidence            579999999999999999998 322221         1112222     24666667777774  479999999988766


Q ss_pred             ------hhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         140 ------IIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       140 ------l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                            +...|+  .++|++|+|+|+++.   +....|..++... ..+|+++|+||+|+.+.+.+..+ ...+++.+++
T Consensus        66 ~~~~~~~~~~~~~~~~~d~vi~v~D~~~~---~~~~~~~~~~~~~-~~~p~ilv~NK~Dl~~~~~~~~~-~~~l~~~lg~  140 (271)
T 3k53_A           66 HSIDELIARNFILDGNADVIVDIVDSTCL---MRNLFLTLELFEM-EVKNIILVLNKFDLLKKKGAKID-IKKMRKELGV  140 (271)
T ss_dssp             SCHHHHHHHHHHHTTCCSEEEEEEEGGGH---HHHHHHHHHHHHT-TCCSEEEEEECHHHHHHHTCCCC-HHHHHHHHSS
T ss_pred             CCHHHHHHHHhhhccCCcEEEEEecCCcc---hhhHHHHHHHHhc-CCCCEEEEEEChhcCcccccHHH-HHHHHHHcCC
Confidence                  556666  789999999999875   3334455555543 23899999999998654444333 6778888999


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++||++|.|++++|+.+.+.+..
T Consensus       141 ~~~~~Sa~~g~gi~~l~~~i~~~~~~  166 (271)
T 3k53_A          141 PVIPTNAKKGEGVEELKRMIALMAEG  166 (271)
T ss_dssp             CEEECBGGGTBTHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999988744

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.82  E-value=9.3e-20  Score=189.96  Aligned_cols=158  Identities=19%  Similarity=0.152  Sum_probs=102.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+|+| .+.....          .....   .+|.+.....+.+++  +.+.+|||+|++++.
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L-~~~~~a~----------vs~~~---gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~  295 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTL-LGQERAI----------VSHMP---GTTRDYIEECFIHDK--TMFRLTDTAGLREAG  295 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHC-C-------------------------------CEEEEETT--EEEEEEC--------
T ss_pred             CCCEEEEECCCCCCHHHHHHHH-hCCCCcc----------cCCCC---CceEEEEEEEEEECC--eEEEEEECCCCCcch
Confidence            4589999999999999999997 2221100          00111   133466667777777  468999999998765


Q ss_pred             hhh--------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         139 TII--------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       139 ~l~--------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      ..+        ..+++++|++|+|||++++.+++++..+...+... .++|+++|+||+|+...+.+.   .+.+.+...
T Consensus       296 ~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l-~~~piIvV~NK~Dl~~~~~~~---~~~l~~~~~  371 (476)
T 3gee_A          296 EEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAH-PAAKFLTVANKLDRAANADAL---IRAIADGTG  371 (476)
T ss_dssp             ------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHC-TTSEEEEEEECTTSCTTTHHH---HHHHHHHHT
T ss_pred             hHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhc-CCCCEEEEEECcCCCCccchh---HHHHHhcCC
Confidence            443        34789999999999999999987554444433333 368999999999997655432   233444434


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      .+++++||++|.||+++|++|.+.+.
T Consensus       372 ~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          372 TEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             SCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             CceEEEEECCCCCHHHHHHHHHHHHh
Confidence            78999999999999999999999885

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.81  E-value=1.5e-20  Score=182.38  Aligned_cols=154  Identities=19%  Similarity=0.166  Sum_probs=111.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .++|+++|.+|||||||+|+|. +..+..         ...++     .+++.....+..++.  .+.+|||||++.+..
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~-g~~~~v---------~~~~g-----~t~~~~~~~~~~~~~--~~~liDtpG~~~~~~   65 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLT-GSRQRV---------GNWAG-----VTVERKEGQFSTTDH--QVTLVDLPGTYSLTT   65 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH-TTCEEE---------EECTT-----SSSEEEEEEEECSSC--EEEEEECCCCSCSCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHh-CCCccc---------CCCCC-----eeEEEEEEEEEeCCC--ceEEEECcCCCcccc
Confidence            4799999999999999999983 222211         11122     234666666666664  468899999987762


Q ss_pred             ----------hhhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         140 ----------IIRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       140 ----------l~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                                +...|+  +++|++|+|+|+++.+.+   ..|...+.+.  ++|+++|+||+|+.+.+.+. .+...+++
T Consensus        66 ~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~~~~---~~~~~~l~~~--~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~  139 (274)
T 3i8s_A           66 ISSQTSLDEQIACHYILSGDADLLINVVDASNLERN---LYLTLQLLEL--GIPCIVALNMLDIAEKQNIR-IEIDALSA  139 (274)
T ss_dssp             ----CCHHHHHHHHHHHHTCCSEEEEEEEGGGHHHH---HHHHHHHHHH--TCCEEEEEECHHHHHHTTEE-ECHHHHHH
T ss_pred             ccccCCHHHHHHHHHHhhcCCCEEEEEecCCChHHH---HHHHHHHHhc--CCCEEEEEECccchhhhhHH-HHHHHHHH
Confidence                      223333  799999999999985544   3444444443  58999999999986543332 23466778


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      .++++++++||++|.|++++|++|.+.+.
T Consensus       140 ~lg~~~i~~SA~~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          140 RLGCPVIPLVSTRGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             HHTSCEEECCCGGGHHHHHHHHHHHTCCC
T ss_pred             hcCCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            88999999999999999999999987653

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.80  E-value=4.4e-19  Score=178.31  Aligned_cols=161  Identities=15%  Similarity=0.143  Sum_probs=118.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...++|+++|.+|||||||+++| .+..+...         ..+     .++.+.....+..++  ..+.+|||+|...+
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L-~~~~~~~~---------~~~-----~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~  227 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKAL-TTAKPEIA---------SYP-----FTTRGINVGQFEDGY--FRYQIIDTPGLLDR  227 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHH-CSSCCEEE---------CCT-----TCSSCEEEEEEEETT--EEEEEEECTTTSSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-hCCCCccC---------CCC-----CeeeceeEEEEEecC--ceEEEEeCCCcccc
Confidence            35679999999999999999998 32222100         000     011233333344443  56899999998543


Q ss_pred             ch---------hhhhcccCceEEEEEEeCCCCC--ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         138 CT---------IIRSYSRGAQGILLVYDITNKW--SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       138 ~~---------l~~~~~~~ad~iIlV~Dvt~~~--Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                      ..         ....+...+|++|+|+|+++..  +++....|+.++....++.|+++|+||+|+...+.+  +++.+++
T Consensus       228 ~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~NK~Dl~~~~~~--~~~~~~~  305 (357)
T 2e87_A          228 PISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVINKIDVADEENI--KRLEKFV  305 (357)
T ss_dssp             CSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEECCTTTCCHHHH--HHHHHHH
T ss_pred             chhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEEECcccCChHHH--HHHHHHH
Confidence            21         1223456799999999999887  778888999999876657999999999999754433  5566777


Q ss_pred             HhcCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         207 IKNQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       207 ~~~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +..+++++++||++|.||+++|++|.+.+..
T Consensus       306 ~~~~~~~~~iSA~~g~gi~~l~~~i~~~l~~  336 (357)
T 2e87_A          306 KEKGLNPIKISALKGTGIDLVKEEIIKTLRP  336 (357)
T ss_dssp             HHTTCCCEECBTTTTBTHHHHHHHHHHHHHH
T ss_pred             HhcCCCeEEEeCCCCcCHHHHHHHHHHHHHH
Confidence            7888999999999999999999999998854

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.80  E-value=4.2e-20  Score=189.71  Aligned_cols=161  Identities=16%  Similarity=0.124  Sum_probs=118.4

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .....+||+|+|+.|+|||||+++| .+..+...          ...   ..++++.....+.+.+. ..+.+|||||++
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L-~~~~~~~~----------~~~---~gtT~d~~~~~~~~~~~-~~l~liDTpG~~   94 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNAL-VGQNVSIV----------SDY---AGTTTDPVYKSMELHPI-GPVTLVDTPGLD   94 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSS-CC--------------------------CCCCEEEEEETTT-EEEEEEECSSTT
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHH-HcCCCCcc----------CCC---CCeeeeeEEEEEEECCC-CeEEEEECcCCC
Confidence            4456789999999999999999997 33322110          011   11234666677777664 368999999998


Q ss_pred             ccchh-------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         136 RFCTI-------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       136 ~~~~l-------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                      ++..+       ...+++++|++|+|||++.   ......|+..+.+.  ++|+++|+||+|+...+..  +.++.+++.
T Consensus        95 d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~---~~~~~~~l~~l~~~--~~piIvV~NK~Dl~~~~~~--~~~~~l~~~  167 (423)
T 3qq5_A           95 DVGELGRLRVEKARRVFYRADCGILVTDSAP---TPYEDDVVNLFKEM--EIPFVVVVNKIDVLGEKAE--ELKGLYESR  167 (423)
T ss_dssp             CCCTTCCCCHHHHHHHHTSCSEEEEECSSSC---CHHHHHHHHHHHHT--TCCEEEECCCCTTTTCCCT--HHHHHSSCC
T ss_pred             cccchhHHHHHHHHHHHhcCCEEEEEEeCCC---hHHHHHHHHHHHhc--CCCEEEEEeCcCCCCccHH--HHHHHHHHH
Confidence            87655       2347889999999999832   23447788887776  5899999999999765544  566677777


Q ss_pred             cCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         209 NQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       209 ~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++++++||++|.|++++|++|.+.+.+.
T Consensus       168 ~g~~v~~vSAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          168 YEAKVLLVSALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             TTCCCCCCSSCCTTSTTTHHHHHHHHSCCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhhhhh
Confidence            889999999999999999999999988554

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.79  E-value=6.9e-19  Score=183.61  Aligned_cols=154  Identities=17%  Similarity=0.173  Sum_probs=113.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc-ccc
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG-RFC  138 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e-~~~  138 (432)
                      .+||+++|.+|||||||+|+|...+....           ...   ..+|.++....+.+++.  .+.+|||+|++ ++.
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~v-----------s~~---~gTT~d~~~~~i~~~g~--~~~l~DTaG~~~~~~  306 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIV-----------TDI---PGTTRDVISEEIVIRGI--LFRIVDTAGVRSETN  306 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCC-----------CCS---SCCSSCSCCEEEEETTE--EEEEEESSCCCSSCC
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCcc-----------CCC---CCeeeeeEEEEEecCCe--EEEEEECCCccccch
Confidence            48999999999999999999833321110           001   11334666677778774  57999999988 654


Q ss_pred             h--------hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         139 T--------IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       139 ~--------l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      .        ....+++.+|++|+|||++++.++++.. +++.+    .+.|+++|+||+|+...  +..+++.+++. .+
T Consensus       307 ~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~-il~~l----~~~piivV~NK~DL~~~--~~~~~~~~~~~-~~  378 (482)
T 1xzp_A          307 DLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRK-ILERI----KNKRYLVVINKVDVVEK--INEEEIKNKLG-TD  378 (482)
T ss_dssp             TTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHH-HHHHH----TTSSEEEEEEECSSCCC--CCHHHHHHHHT-CS
T ss_pred             hhHHHHHHHHHHHHhhcccEEEEEecCCCCCCHHHHH-HHHHh----cCCCEEEEEECcccccc--cCHHHHHHHhc-CC
Confidence            2        2345789999999999999998887643 33333    36899999999999643  44555555432 44


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++++||++|.||+++|++|.+.+..
T Consensus       379 ~~~i~iSAktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          379 RHMVKISALKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             TTEEEEEGGGTCCHHHHHHHHHHHTHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            789999999999999999999997653

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.78  E-value=3e-19  Score=178.66  Aligned_cols=157  Identities=18%  Similarity=0.184  Sum_probs=115.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc----c
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG----R  136 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e----~  136 (432)
                      .+|+|+|.+|||||||+++|.........+               ..+|++.....+.+++ ...+.||||||+.    +
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~---------------~ftTl~p~~g~v~~~~-~~~~~l~DtPG~i~~a~~  222 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADY---------------HFTTLVPNLGMVETDD-GRSFVMADLPGLIEGAHQ  222 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESST---------------TSSCCCCCEEEEECSS-SCEEEEEEHHHHHHHTTC
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccC---------------CccccCceEEEEEeCC-CceEEEecCCCCcccccc
Confidence            368899999999999999973221110000               0112233333455554 2468999999963    3


Q ss_pred             cchhhhhccc---CceEEEEEEeCCC---CCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         137 FCTIIRSYSR---GAQGILLVYDITN---KWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       137 ~~~l~~~~~~---~ad~iIlV~Dvt~---~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                      +..+...|++   .+|++|+|+|+++   +++++++..|+.++..+.   .++|++||+||+|+...+    +..+++++
T Consensus       223 ~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~  298 (342)
T 1lnz_A          223 GVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKE  298 (342)
T ss_dssp             TTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHH
T ss_pred             cchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHH
Confidence            4445566654   4999999999998   788999999999998865   479999999999996422    44566777


Q ss_pred             hcC--CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         208 KNQ--MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       208 ~~~--~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .++  .+++++||+++.|++++|++|.+.+.+
T Consensus       299 ~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          299 KLTDDYPVFPISAVTREGLRELLFEVANQLEN  330 (342)
T ss_dssp             HCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             HhhcCCCEEEEECCCCcCHHHHHHHHHHHHhh
Confidence            766  689999999999999999999998854

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.77  E-value=1.1e-18  Score=173.16  Aligned_cols=127  Identities=14%  Similarity=0.121  Sum_probs=104.3

Q ss_pred             ceeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCC----------CCCChhhHHHHHHHHHhhC--C
Q psy3450         111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDIT----------NKWSFDGIDRWLKEVEEHA--P  178 (432)
Q Consensus       111 d~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt----------~~~Sf~~l~~~l~~i~~~~--~  178 (432)
                      .+....+.+++  +.+++|||+||++++.+|..|+++++++|+|||++          +..+|++...|+..+....  .
T Consensus       156 Gi~~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~  233 (327)
T 3ohm_A          156 GIIEYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQ  233 (327)
T ss_dssp             SEEEEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGT
T ss_pred             eEEEEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccC
Confidence            34445555554  78999999999999999999999999999999665          6677888878888876543  6


Q ss_pred             CCcEEEEEECccCCCCc----------------ccCHHHHHHHHH----------hcCCcEEEEcCCCCCCHHHHHHHHH
Q psy3450         179 GVPKVLVGNRLHLAFNR----------------TVTTREAEMYAI----------KNQMAFFEVSPLCDFNIRESFTELS  232 (432)
Q Consensus       179 ~iPiILVgNK~DL~~~r----------------~v~~ee~~~~a~----------~~~~~~~evSAktg~nI~elf~~L~  232 (432)
                      ++|++|+|||+||.+++                .++.+++.+++.          ..++.++++||+++.||+++|+.+.
T Consensus       234 ~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~  313 (327)
T 3ohm_A          234 NSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVK  313 (327)
T ss_dssp             TCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             CceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHH
Confidence            79999999999996543                467888888843          3556789999999999999999999


Q ss_pred             HHHhhhc
Q psy3450         233 RRALQRN  239 (432)
Q Consensus       233 ~~i~~~~  239 (432)
                      +.+++++
T Consensus       314 ~~Il~~~  320 (327)
T 3ohm_A          314 DTILQLN  320 (327)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHh
Confidence            9998754

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.76  E-value=2.2e-18  Score=177.96  Aligned_cols=155  Identities=19%  Similarity=0.197  Sum_probs=105.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc---
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF---  137 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~---  137 (432)
                      .+|+++|++|||||||+|+| .+.+...          .....|   .|.+.....+.+++..  +++|||+|++..   
T Consensus         2 ~~v~ivG~pnvGKStL~nrl-~~~~~~~----------v~~~~g---~T~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~   65 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKL-VKKKKAI----------VEDEEG---VTRDPVQDTVEWYGKT--FKLVDTCGVFDNPQD   65 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHH-HC---------------------------CCSEEEEEETTEE--EEEEECTTTTSSGGG
T ss_pred             CEEEEECCCCCCHHHHHHHH-hCCCCce----------ecCCCC---CccceeeEEEEECCeE--EEEEECCCccccccc
Confidence            37999999999999999998 3333211          011112   2246666777788754  689999998742   


Q ss_pred             ------chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHH-HHHHHhcC
Q psy3450         138 ------CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREA-EMYAIKNQ  210 (432)
Q Consensus       138 ------~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~-~~~a~~~~  210 (432)
                            ......+++++|++|+|||+++..++.+  .|+..+.+. .++|++||+||+|+.+.  . ..++ .++. ..+
T Consensus        66 ~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d--~~i~~~l~~-~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg  138 (439)
T 1mky_A           66 IISQKMKEVTLNMIREADLVLFVVDGKRGITKED--ESLADFLRK-STVDTILVANKAENLRE--F-EREVKPELY-SLG  138 (439)
T ss_dssp             CCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHH--HHHHHHHHH-HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGS
T ss_pred             hHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH--HHHHHHHHH-cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcC
Confidence                  3345668899999999999998766543  222222211 25899999999998421  1 1223 3443 456


Q ss_pred             C-cEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         211 M-AFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       211 ~-~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      + +++++||++|.|++++|+++.+.+.+.
T Consensus       139 ~~~~~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          139 FGEPIPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             SCSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEeccCCCCHHHHHHHHHHhcccc
Confidence            6 789999999999999999999988643

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.75  E-value=2.4e-17  Score=168.35  Aligned_cols=174  Identities=12%  Similarity=0.097  Sum_probs=115.1

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcc---ccc-----CCCCcCccccCCCccccccceeEEEEEECCeEEEEEE
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPR---FWL-----DGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQL  128 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~---~~~-----~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i  128 (432)
                      ....+||+++|.+|+|||||+++|. +.....   ...     ......................    ........+.|
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~i   79 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAIT-GIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSD----DEPKFLRRISF   79 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHH-SCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCC----SCCEEEEEEEE
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHh-CcccccccCccccceeeccccccccceeccccccccccc----ccccccceEEE
Confidence            3456899999999999999999983 211110   000     0000000000000000000000    00123467899


Q ss_pred             EeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHHHHHHHH
Q psy3450         129 WDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTREAEMYA  206 (432)
Q Consensus       129 ~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~ee~~~~a  206 (432)
                      |||||+++|......++..+|++|+|+|+++..++....+|+..+.... ..|+++|+||+|+.+..+.  ..++..++.
T Consensus        80 iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~-~~~iivviNK~Dl~~~~~~~~~~~~i~~~l  158 (403)
T 3sjy_A           80 IDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG-VKNLIIVQNKVDVVSKEEALSQYRQIKQFT  158 (403)
T ss_dssp             EECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT-CCCEEEEEECGGGSCHHHHHHHHHHHHHHH
T ss_pred             EECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC-CCCEEEEEECccccchHHHHHHHHHHHHHH
Confidence            9999999999888889999999999999999887888888888776653 2589999999999653321  122333333


Q ss_pred             Hhc---CCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         207 IKN---QMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       207 ~~~---~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +..   +++++++||++|.|++++|+.|.+.+.
T Consensus       159 ~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~  191 (403)
T 3sjy_A          159 KGTWAENVPIIPVSALHKINIDSLIEGIEEYIK  191 (403)
T ss_dssp             TTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HhhCCCCCEEEEEECCCCcChHHHHHHHHHhCC
Confidence            332   568999999999999999999988663

>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=99.75  E-value=5.3e-19  Score=178.20  Aligned_cols=172  Identities=19%  Similarity=0.290  Sum_probs=99.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC--
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ--  134 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~--  134 (432)
                      .+..++|+|+|++|+|||||+++++....+...+..... ....++++     +++....+..++..+.+.+|||+|+  
T Consensus        34 ~~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~-~~~~~ti~-----~~~~~~~~~~~~~~~~l~i~DTpG~gd  107 (361)
T 2qag_A           34 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAA-EKIERTVQ-----IEASTVEIEERGVKLRLTVVDTPGYGD  107 (361)
T ss_dssp             HCCEECEEECCCTTSCHHHHHHHHTTCCC----------------CEE-----EEEEEEC----CEEEEEEEEC------
T ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCC-cccCCcee-----EEEEEEEeecCCcccceEEEEeccccc
Confidence            356789999999999999999998665555432211000 00011211     2333334445677789999999999  


Q ss_pred             -----cccchhhh-------hcccCceEE-----------EEEEeCCC-CCChhhHH-HHHHHHHhhCCCCcEEEEEECc
Q psy3450         135 -----GRFCTIIR-------SYSRGAQGI-----------LLVYDITN-KWSFDGID-RWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       135 -----e~~~~l~~-------~~~~~ad~i-----------IlV~Dvt~-~~Sf~~l~-~~l~~i~~~~~~iPiILVgNK~  189 (432)
                           +.+..+..       .|++.++++           +++|++++ ..++..+. .|+..+   ..++|+|+|+||+
T Consensus       108 ~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l---~~~~piIlV~NK~  184 (361)
T 2qag_A          108 AINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI---HNKVNIVPVIAKA  184 (361)
T ss_dssp             --------CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT---CS-SCEEEEEECC
T ss_pred             cCccHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh---ccCCCEEEEEECC
Confidence                 67777766       666555443           46777765 56777774 455444   3578999999999


Q ss_pred             cCCCCcccCH--HHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         190 HLAFNRTVTT--REAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       190 DL~~~r~v~~--ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      |+...+++..  +++.++++.++++++++||++|.| ++.|.++.+.+...
T Consensus       185 Dl~~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~  234 (361)
T 2qag_A          185 DTLTLKERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKAS  234 (361)
T ss_dssp             SSSCHHHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhc
Confidence            9976665544  567777888899999999999999 99999999888654

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.74  E-value=1.6e-18  Score=179.99  Aligned_cols=154  Identities=21%  Similarity=0.242  Sum_probs=102.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+|+|...+.....         ..+  |   ++.++....+.+++.  .+.+|||+|..++.
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~---------~~~--g---tT~d~~~~~i~~~g~--~v~liDT~G~~~~~  286 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVT---------DLP--G---TTRDVVESQLVVGGI--PVQVLDTAGIRETS  286 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCS---------CCT--T---CCHHHHHHEEEETTE--EEEECC--------
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCccccc---------CCC--C---eeEEEEEEEEEECCE--EEEEEECCccccch
Confidence            4589999999999999999998332211000         001  1   234555556667774  56999999986654


Q ss_pred             hhh--------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         139 TII--------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       139 ~l~--------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      ...        ..+++.+|++|+|||++++.++.. ..|+..+.    +.|+++|+||+|+...+.+.  ....+.  .+
T Consensus       287 ~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~----~~piivV~NK~Dl~~~~~~~--~~~~~~--~~  357 (462)
T 3geh_A          287 DQVEKIGVERSRQAANTADLVLLTIDAATGWTTGD-QEIYEQVK----HRPLILVMNKIDLVEKQLIT--SLEYPE--NI  357 (462)
T ss_dssp             ------------CCCCSCSEEEEEEETTTCSCHHH-HHHHHHHT----TSCEEEEEECTTSSCGGGST--TCCCCT--TC
T ss_pred             hHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHH-HHHHHhcc----CCcEEEEEECCCCCcchhhH--HHHHhc--cC
Confidence            332        236789999999999999877655 45665553    36999999999997654433  111111  34


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .+++++||++|.|++++|++|.+.+..
T Consensus       358 ~~~i~iSAktg~Gi~eL~~~i~~~~~~  384 (462)
T 3geh_A          358 TQIVHTAAAQKQGIDSLETAILEIVQT  384 (462)
T ss_dssp             CCEEEEBTTTTBSHHHHHHHHHHHHTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            689999999999999999999998854

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.74  E-value=2.1e-18  Score=167.00  Aligned_cols=167  Identities=15%  Similarity=0.227  Sum_probs=95.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc--
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG--  135 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e--  135 (432)
                      ...++|+|+|.+|+|||||+|+++..+.+...+....  ....++++     ++.....+..++..+.+.+|||||..  
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~--~~~~~t~~-----~~~~~~~~~~~~~~~~l~liDTpG~~d~   78 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPS--HRIKKTVQ-----VEQSKVLIKEGGVQLLLTIVDTPGFGDA   78 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC-----------------CC-----CEEEEEEECC--CCEEEEEEECCCCSCC
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcc--cccCCceE-----EEEEEEEEecCCeEEEEEEEECCCcccc
Confidence            4679999999999999999999866666554321110  11122222     34455555556667899999999973  


Q ss_pred             -----ccchhh-------hhccc-------------CceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECc
Q psy3450         136 -----RFCTII-------RSYSR-------------GAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       136 -----~~~~l~-------~~~~~-------------~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                           .+..+.       ..|++             ++|++++++|.++.. +... ..++..+..   ++|+|+|+||+
T Consensus        79 ~~~~~~~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~-~~~~d~~~l~~l~~---~~pvi~V~nK~  154 (274)
T 3t5d_A           79 VDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHG-LKPLDIEFMKRLHE---KVNIIPLIAKA  154 (274)
T ss_dssp             SCCTTTTHHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSS-CCHHHHHHHHHHTT---TSCEEEEESSG
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCC-CCHHHHHHHHHHhc---cCCEEEEEecc
Confidence                 233332       33333             377999999776532 3333 445555544   68999999999


Q ss_pred             cCCCCcccC--HHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         190 HLAFNRTVT--TREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       190 DL~~~r~v~--~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      |+....+..  .+.+.+.....+++++++||+++.|+++++++|.+.+
T Consensus       155 D~~~~~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          155 DTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             GGSCHHHHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            986433221  1234555567789999999999999999999987654

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.74  E-value=3.8e-18  Score=170.12  Aligned_cols=124  Identities=13%  Similarity=0.123  Sum_probs=100.2

Q ss_pred             eeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCC----------CCCChhhHHHHHHHHHhhC--CC
Q psy3450         112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDIT----------NKWSFDGIDRWLKEVEEHA--PG  179 (432)
Q Consensus       112 ~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt----------~~~Sf~~l~~~l~~i~~~~--~~  179 (432)
                      +....+.++  .+.+++|||+||++++.+|..|+++++++|+|||++          +..+|++...|+..+....  .+
T Consensus       151 i~~~~~~~~--~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~  228 (340)
T 4fid_A          151 IHEYDFVVK--DIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKG  228 (340)
T ss_dssp             CEEEEEESS--SCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTT
T ss_pred             eEEEEEEee--eeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCC
Confidence            334444444  478999999999999999999999999999999998          7788888888888877543  67


Q ss_pred             CcEEEEEECccCCCCc---------------ccCHHHHHHHHHh-c--------------------------CCcEEEEc
Q psy3450         180 VPKVLVGNRLHLAFNR---------------TVTTREAEMYAIK-N--------------------------QMAFFEVS  217 (432)
Q Consensus       180 iPiILVgNK~DL~~~r---------------~v~~ee~~~~a~~-~--------------------------~~~~~evS  217 (432)
                      +|++|+|||+||..++               ....+++.+++.+ +                          .+.++++|
T Consensus       229 ~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~Ts  308 (340)
T 4fid_A          229 AVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTN  308 (340)
T ss_dssp             SEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEEC
T ss_pred             CeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEE
Confidence            9999999999984321               1246677665533 2                          36789999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++..||+++|+.+.+.|++
T Consensus       309 A~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          309 ATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             TTCHHHHHHHHHHHHHHHHH
T ss_pred             eeCcHHHHHHHHHHHHHHHH
Confidence            99999999999999999976

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.74  E-value=4.6e-18  Score=177.62  Aligned_cols=163  Identities=13%  Similarity=0.150  Sum_probs=100.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCccc--------------------ccCCCCcCccccCCCccccccceeEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRF--------------------WLDGSSESPFCSGSGKYDDMLAYKTTT  116 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~--------------------~~~~~~~~~~~~~ig~~~~tid~~~~~  116 (432)
                      ...+||+++|.+|+|||||+++|+.. ..+...                    +...........++     +++.....
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~Gi-----Ti~~~~~~  105 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGV-----TVSICTSH  105 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCS-----SCCCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCc-----ceEeeeEE
Confidence            35689999999999999999998332 111110                    00111111111122     23333333


Q ss_pred             EEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhh-----HHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDG-----IDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       117 i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~-----l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                        ++....++.||||||+++|......+++.+|++|+|+|+++..++..     ...+...+.......|+|||+||+|+
T Consensus       106 --~~~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl  183 (483)
T 3p26_A          106 --FSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDN  183 (483)
T ss_dssp             --EECSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGG
T ss_pred             --EecCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCc
Confidence              33445678999999999999988999999999999999998754322     12222222222233579999999999


Q ss_pred             CCCcccCHHHHH----HHHHhc-----CCcEEEEcCCCCCCHHHH
Q psy3450         192 AFNRTVTTREAE----MYAIKN-----QMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       192 ~~~r~v~~ee~~----~~a~~~-----~~~~~evSAktg~nI~el  227 (432)
                      .+.++...+++.    .+.+..     +++++++||++|.|++++
T Consensus       184 ~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          184 VDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             GTTCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             ccchHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence            764444334333    333333     358999999999999863

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.74  E-value=2.3e-17  Score=155.87  Aligned_cols=165  Identities=12%  Similarity=0.043  Sum_probs=106.7

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ..+..+||+|+|++|||||||+|+|. +..+..         ...++.   ..+.+.....+.+++.  .+.||||||..
T Consensus        25 ~~~~~~~i~lvG~~g~GKStlin~l~-g~~~~~---------~~~~~~---~~t~~~~~~~~~~~~~--~i~liDTpG~~   89 (239)
T 3lxx_A           25 PRNSQLRIVLVGKTGAGKSATGNSIL-GRKVFH---------SGTAAK---SITKKCEKRSSSWKET--ELVVVDTPGIF   89 (239)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHH-TSCCSC---------C----------CCSCEEEEEEETTE--EEEEEECCSCC
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHc-CCCcCc---------cCCCCC---ceeeeEEEEEEEeCCc--eEEEEECCCcc
Confidence            34567999999999999999999983 322211         111110   1223555556667764  57999999943


Q ss_pred             -----------ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccC---
Q psy3450         136 -----------RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVT---  198 (432)
Q Consensus       136 -----------~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~---  198 (432)
                                 .+......+++++|++|+|+|+++....  ...|+..+....   ...|++||+||+|+...+.+.   
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~--~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i  167 (239)
T 3lxx_A           90 DTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEE--EHKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYL  167 (239)
T ss_dssp             -----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSH--HHHHHHHHHHHHHHHHGGGEEEEEECGGGC---------
T ss_pred             CCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHH--HHHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHH
Confidence                       3444445566789999999999865442  234444443321   235999999999986544433   


Q ss_pred             ---HHHHHHHHHhcCCcEEEEcCCCC-----CCHHHHHHHHHHHHhh
Q psy3450         199 ---TREAEMYAIKNQMAFFEVSPLCD-----FNIRESFTELSRRALQ  237 (432)
Q Consensus       199 ---~ee~~~~a~~~~~~~~evSAktg-----~nI~elf~~L~~~i~~  237 (432)
                         .+.++.++++.+..|+.+++..+     .++.++|+.+.+.+.+
T Consensus       168 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          168 REAPEDIQDLMDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             ---CHHHHHHHHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhchHHHHHHHHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence               24677888888888888887754     6899999998887754

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.73  E-value=2.9e-17  Score=165.71  Aligned_cols=159  Identities=18%  Similarity=0.168  Sum_probs=109.5

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc------
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG------  135 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e------  135 (432)
                      .|+++|.+|||||||+|+|. +..+..              .+...+|.+.....+.+++.  .+.+|||+|.-      
T Consensus       181 ~V~lvG~~naGKSTLln~L~-~~~~~~--------------~~~~~~T~d~~~~~i~~~g~--~v~l~DT~G~i~~lp~~  243 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLT-GLTQKV--------------DTKLFTTMSPKRYAIPINNR--KIMLVDTVGFIRGIPPQ  243 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHH-CC-------------------------CCSCEEEEEETTE--EEEEEECCCBCSSCCGG
T ss_pred             EEEEECCCCCCHHHHHHHHH-CCCccc--------------cCCcccccCCEEEEEEECCE--EEEEEeCCCchhcCCHH
Confidence            49999999999999999983 222110              01112334666777888884  56999999962      


Q ss_pred             ---ccchhhhhcccCceEEEEEEeCCCCC--ChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCccc-CHHHHHHHHHh
Q psy3450         136 ---RFCTIIRSYSRGAQGILLVYDITNKW--SFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTV-TTREAEMYAIK  208 (432)
Q Consensus       136 ---~~~~l~~~~~~~ad~iIlV~Dvt~~~--Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v-~~ee~~~~a~~  208 (432)
                         .|...+ ..+..+|++++|+|++++.  .++.+..|...+.... .+.|+++|+||+|+...... ..+.+..+++.
T Consensus       244 lve~f~~tl-~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~  322 (364)
T 2qtf_A          244 IVDAFFVTL-SEAKYSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKE  322 (364)
T ss_dssp             GHHHHHHHH-HGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHH
Confidence               233332 3578899999999999886  5666666766666554 57899999999998653310 01233344455


Q ss_pred             c---CCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         209 N---QMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       209 ~---~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +   +.+++++||++|.|++++++.|.+.+...
T Consensus       323 l~~~~~~~~~~SA~~g~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          323 LYSPIFDVIPISALKRTNLELLRDKIYQLATQL  355 (364)
T ss_dssp             HCSCEEEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             hcCCCCcEEEEECCCCcCHHHHHHHHHHHhccc
Confidence            4   24789999999999999999999877543

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.73  E-value=1.9e-17  Score=176.67  Aligned_cols=170  Identities=17%  Similarity=0.188  Sum_probs=114.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCc--cccCCCccccccceeEEEEEE---CCeEEEEEEEeCC
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESP--FCSGSGKYDDMLAYKTTTILL---DGKRVKLQLWDTS  132 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~--~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~Dt~  132 (432)
                      ...+|+++|..++|||||+++|+.. +.+............  .....|   .|+......+.+   ++..+.++|||||
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerG---iTi~~~~~~~~~~~~~g~~~~l~liDTP   79 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERG---ITIKAQSVTLDYKASDGETYQLNFIDTP   79 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC-----------------------------CEEEEEEECTTSCEEEEEEEECC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhccc---ceeeeeEEEEEEecCCCCeEEEEEEECC
Confidence            4679999999999999999998431 111110000000000  000111   112222333333   5667899999999


Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-  211 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-  211 (432)
                      |+++|...+..+++.+|++|+|+|+++..+++....|.....   .++|+++|+||+|+...+  ..+...++.+.+++ 
T Consensus        80 Gh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~---~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~  154 (599)
T 3cb4_D           80 GHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME---MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGID  154 (599)
T ss_dssp             CCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH---TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCC
T ss_pred             CchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH---CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCC
Confidence            999999988999999999999999999988888888876654   358999999999996533  23334556666665 


Q ss_pred             --cEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         212 --AFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       212 --~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                        +++++||++|.||+++|+++.+.+.
T Consensus       155 ~~~vi~vSAktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          155 ATDAVRCSAKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             CTTCEEECTTTCTTHHHHHHHHHHHSC
T ss_pred             cceEEEeecccCCCchhHHHHHhhcCC
Confidence              4999999999999999999998774

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.72  E-value=3.8e-17  Score=174.26  Aligned_cols=169  Identities=18%  Similarity=0.195  Sum_probs=116.5

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcccccCCC----CcCccccCCCccccccceeEEEEEE---CCeEEEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGS----SESPFCSGSGKYDDMLAYKTTTILL---DGKRVKLQLW  129 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~----~~~~~~~~ig~~~~tid~~~~~i~i---~~~~v~l~i~  129 (432)
                      +...+|+++|..++|||||+++|+.. +.+........    .......++     |+......+.+   ++..+.++||
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGI-----TI~~~~~~~~~~~~dg~~~~inli   78 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGI-----TVKMQAVRMFYKAKDGNTYKLHLI   78 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC----------------------------CCCCSEEEEEECTTSCEEEEEEE
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccc-----eeeeeEEEEEEEcCCCCeEEEEEE
Confidence            45679999999999999999998431 11111000000    000000111     12222222322   5667899999


Q ss_pred             eCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhc
Q psy3450         130 DTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN  209 (432)
Q Consensus       130 Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~  209 (432)
                      ||||+++|...+..+++.+|++|+|+|+++..+++....|.....   .++|+++|+||+|+...+  ..+...++.+.+
T Consensus        79 DTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~---~~ipiIvviNKiDl~~a~--~~~v~~el~~~l  153 (600)
T 2ywe_A           79 DTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE---QDLVIIPVINKIDLPSAD--VDRVKKQIEEVL  153 (600)
T ss_dssp             CCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH---TTCEEEEEEECTTSTTCC--HHHHHHHHHHTS
T ss_pred             ECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH---CCCCEEEEEeccCccccC--HHHHHHHHHHhh
Confidence            999999998888889999999999999999988888888876554   358999999999996533  223345566666


Q ss_pred             CC---cEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         210 QM---AFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       210 ~~---~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ++   +++++||++|.||+++|+++++.+.
T Consensus       154 g~~~~~vi~vSAktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          154 GLDPEEAILASAKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             CCCGGGCEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCCcccEEEEEeecCCCchHHHHHHHHhcc
Confidence            76   4999999999999999999998774

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.72  E-value=8.7e-17  Score=164.43  Aligned_cols=166  Identities=14%  Similarity=0.114  Sum_probs=104.5

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCcccc--CCCccccccceeEEEEEE-------------C--
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCS--GSGKYDDMLAYKTTTILL-------------D--  120 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~--~ig~~~~tid~~~~~i~i-------------~--  120 (432)
                      ...++|+++|..++|||||+++|. +....      ........  +++     +.+....+..             +  
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~-g~~~~------~~~~e~~~giTi~-----~~~~~~~~~~~~~~~~y~~~~~~~~~   73 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALT-GVWTD------RHSEELRRGISIR-----LGYADCEIRKCPQCGTYTTKPRCPNC   73 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHH-SCCCC------C-------CCCCC-----CEEEEEEEEECTTTCCEESSSBCTTS
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHh-CCccc------cCcccccCCcEEE-----eccccccccccccccccccccccccc
Confidence            456899999999999999999983 21110      01111111  221     1222222211             1  


Q ss_pred             C----eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         121 G----KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       121 ~----~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      +    ....+.||||||+++|.......+..+|++|+|+|+++........+.+..+... ...|+++|+||+|+.+.+.
T Consensus        74 g~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l-~~~~iivv~NK~Dl~~~~~  152 (408)
T 1s0u_A           74 LAETEFLRRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEIL-GIDKIIIVQNKIDLVDEKQ  152 (408)
T ss_dssp             CCBCEEEEEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-TCCCEEEEEECTTSSCTTT
T ss_pred             CcccccccEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHc-CCCeEEEEEEccCCCCHHH
Confidence            1    1378999999999998877777788899999999999754222223333333332 2358999999999976443


Q ss_pred             --cCHHHHHHHHHhc---CCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         197 --VTTREAEMYAIKN---QMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       197 --v~~ee~~~~a~~~---~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                        ...+++.++++..   +++++++||++|.||++++++|.+.+.
T Consensus       153 ~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          153 AEENYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             TTTHHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence              3346667777653   579999999999999999999987663

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.72  E-value=1.9e-17  Score=158.32  Aligned_cols=165  Identities=13%  Similarity=0.076  Sum_probs=104.4

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...++|+|+|++|||||||+++|.....+....         .++    ..+.+.....+..++  ..+.||||||+..+
T Consensus        20 ~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~---------~~~----~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~   84 (260)
T 2xtp_A           20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKL---------GSQ----TLTKTCSKSQGSWGN--REIVIIDTPDMFSW   84 (260)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCT---------TSC----CCCCSCEEEEEEETT--EEEEEEECCGGGGS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCcccCC---------CCC----ceeeeeEEEEEEeCC--CEEEEEECcCCCCC
Confidence            456899999999999999999984333232111         111    012344555556666  45799999998655


Q ss_pred             chh-----------hhhcccCceEEEEEEeCCCCCChh-hHHHHHHHHHhhCCCCcEEEEEE-CccCCCCcccCH-----
Q psy3450         138 CTI-----------IRSYSRGAQGILLVYDITNKWSFD-GIDRWLKEVEEHAPGVPKVLVGN-RLHLAFNRTVTT-----  199 (432)
Q Consensus       138 ~~l-----------~~~~~~~ad~iIlV~Dvt~~~Sf~-~l~~~l~~i~~~~~~iPiILVgN-K~DL~~~r~v~~-----  199 (432)
                      ...           ...+++.+|++|+|||+++....+ .+..|+.++.......|+++|+| |+|+... .+..     
T Consensus        85 ~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~-~~~~~i~~~  163 (260)
T 2xtp_A           85 KDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGG-SLMDYMHDS  163 (260)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTC-CHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCc-cHHHHHHhc
Confidence            321           223678999999999998622211 12233333321111346666666 9999743 2222     


Q ss_pred             --HHHHHHHHhcCCc---E--EEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         200 --REAEMYAIKNQMA---F--FEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       200 --ee~~~~a~~~~~~---~--~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                        +++..+++..+..   +  +++||++|.|++++|+.|.+.+...
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          164 DNKALSKLVAACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             CCHHHHHHHHHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence              3345566666543   2  7899999999999999999988553

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.71  E-value=3.2e-18  Score=176.56  Aligned_cols=153  Identities=14%  Similarity=0.107  Sum_probs=98.6

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc-----
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG-----  135 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e-----  135 (432)
                      .+|+++|++|||||||+|+| .+.++..          .....|   .|.+.....+.+++  ..+.+|||+|++     
T Consensus         4 ~~V~ivG~~nvGKStL~n~l-~~~~~~~----------v~~~~g---~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~   67 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRI-AGERISI----------VEDTPG---VTRDRIYSSAEWLN--YDFNLIDTGGIDIGDEP   67 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHH-EEEECC------------------------CEEEECTTCS--SCCEEEC---------C
T ss_pred             CEEEEECCCCCCHHHHHHHH-hCCCcee----------ecCCCC---CccceEEEEEEECC--ceEEEEECCCCCCcchh
Confidence            58999999999999999997 3333321          111222   12233333333344  468999999986     


Q ss_pred             ---ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC-
Q psy3450         136 ---RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM-  211 (432)
Q Consensus       136 ---~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~-  211 (432)
                         .+...+..+++++|++|+|+|+++..++.+  .|+..+... .++|++||+||+|+...+.    ++.++. ..++ 
T Consensus        68 ~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d--~~~~~~l~~-~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~  139 (436)
T 2hjg_A           68 FLAQIRQQAEIAMDEADVIIFMVNGREGVTAAD--EEVAKILYR-TKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFG  139 (436)
T ss_dssp             HHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHH--HHHHHHHTT-CCSCEEEEEECCCC---------CCCSSG-GGSSC
T ss_pred             HHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHH--HHHHHHHHH-cCCCEEEEEECccCccchh----hHHHHH-HcCCC
Confidence               556667778999999999999998877654  444443332 4689999999999864321    111222 3455 


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++||++|.|++++++++.+.+.+
T Consensus       140 ~~~~iSA~~g~gv~~L~~~i~~~l~~  165 (436)
T 2hjg_A          140 EPYPISGTHGLGLGDLLDAVAEHFKN  165 (436)
T ss_dssp             CCEECBTTTTBTHHHHHHHHHHTGGG
T ss_pred             CeEEEeCcCCCChHHHHHHHHHhcCc
Confidence            78999999999999999999988753

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.71  E-value=9.5e-18  Score=151.97  Aligned_cols=118  Identities=17%  Similarity=0.256  Sum_probs=86.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|++|||||||+++| .+..+...      .....++.+     .++         ..+.+.+|||+|++.+
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l-~~~~~~~~------~~~~~~~~~-----~~~---------~~~~~~l~Dt~G~~~~  104 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLL-TTDSVRPT------VVSQEPLSA-----ADY---------DGSGVTLVDFPGHVKL  104 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHH-HHSSCC-----------------------CC---------CCTTCSEEEETTCCBS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHH-hcCCCCcc------cccCCCcee-----eee---------cCCeEEEEECCCCchH
Confidence            56789999999999999999998 33332210      001111111     111         3456899999999999


Q ss_pred             chhhhhcccC----ceEEEEEEeCC-CCCChhhHHHHHHHHHhh-----CCCCcEEEEEECccCCCCcc
Q psy3450         138 CTIIRSYSRG----AQGILLVYDIT-NKWSFDGIDRWLKEVEEH-----APGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       138 ~~l~~~~~~~----ad~iIlV~Dvt-~~~Sf~~l~~~l~~i~~~-----~~~iPiILVgNK~DL~~~r~  196 (432)
                      ...+..++++    +|++|+|||++ +.++|..+..|+..+...     .+++|+++|+||+|+...+.
T Consensus       105 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          105 RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             SCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             HHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCC
Confidence            8888887766    89999999999 888999998888877643     25799999999999976544

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.70  E-value=1.4e-17  Score=170.21  Aligned_cols=168  Identities=13%  Similarity=0.131  Sum_probs=111.9

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-------CCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-------SRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-------~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      ...+||+++|.+++|||||+++|...       ..+...............++     +++..  .+.++.....+.|||
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~Gi-----Ti~~~--~~~~~~~~~~~~iiD   81 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGI-----TINTA--HVEYETAKRHYSHVD   81 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTC-----CCSCE--EEEEECSSCEEEEEE
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCC-----CEEee--eeEeccCCeEEEEEE
Confidence            35689999999999999999998331       11110000000000011122     22332  233444446789999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCcc---cCHHHHHHHH
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRT---VTTREAEMYA  206 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~---v~~ee~~~~a  206 (432)
                      |||+++|......+++.+|++|+|+|+++... ....+|+..+...  ++| +++|+||+|+..+.+   ...+++.+++
T Consensus        82 tpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~-~qt~~~l~~~~~~--~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l  158 (405)
T 2c78_A           82 CPGHADYIKNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV--GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLL  158 (405)
T ss_dssp             CCCSGGGHHHHHHHHTTCSSEEEEEETTTCCC-HHHHHHHHHHHHT--TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHCCEEEEEEECCCCCc-HHHHHHHHHHHHc--CCCEEEEEEECccccCcHHHHHHHHHHHHHHH
Confidence            99999998888888999999999999998764 3446666666553  578 899999999974222   1223566677


Q ss_pred             HhcC-----CcEEEEcCCCCCC------------------HHHHHHHHHHHH
Q psy3450         207 IKNQ-----MAFFEVSPLCDFN------------------IRESFTELSRRA  235 (432)
Q Consensus       207 ~~~~-----~~~~evSAktg~n------------------I~elf~~L~~~i  235 (432)
                      +.++     ++++++||++|.|                  ++++++.|.+.+
T Consensus       159 ~~~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~l  210 (405)
T 2c78_A          159 NQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYI  210 (405)
T ss_dssp             HHTTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHS
T ss_pred             HHhcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhc
Confidence            6665     6899999999987                  666766666544

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.70  E-value=5.1e-17  Score=167.83  Aligned_cols=164  Identities=14%  Similarity=0.157  Sum_probs=106.6

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCC-CCccc--------------------ccCCCCcCccccCCCccccccceeEE
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLES-RFPRF--------------------WLDGSSESPFCSGSGKYDDMLAYKTT  115 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~-~~~~~--------------------~~~~~~~~~~~~~ig~~~~tid~~~~  115 (432)
                      ....++|+++|.+++|||||+++|+... .+...                    +...........+     .|++....
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~G-----iTid~~~~   88 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKG-----KTVEVGRA   88 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcC-----ceEEEeEE
Confidence            3457899999999999999999983221 11100                    0011111111122     23455555


Q ss_pred             EEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCC---hh---hHHHHHHHHHhhCCCCc-EEEEEEC
Q psy3450         116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS---FD---GIDRWLKEVEEHAPGVP-KVLVGNR  188 (432)
Q Consensus       116 ~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~S---f~---~l~~~l~~i~~~~~~iP-iILVgNK  188 (432)
                      .+..++  .++.||||||+++|......+++.+|++|||+|+++...   |+   ...+.+..+..  .++| +|+|+||
T Consensus        89 ~~~~~~--~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~--~~v~~iIvviNK  164 (439)
T 3j2k_7           89 YFETEK--KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT--AGVKHLIVLINK  164 (439)
T ss_pred             EEecCC--eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH--cCCCeEEEEeec
Confidence            555554  578999999999998888889999999999999998642   22   22223333332  3466 9999999


Q ss_pred             ccCCCC------cccCHHHHHHHHHhcC------CcEEEEcCCCCCCHHHHHH
Q psy3450         189 LHLAFN------RTVTTREAEMYAIKNQ------MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       189 ~DL~~~------r~v~~ee~~~~a~~~~------~~~~evSAktg~nI~elf~  229 (432)
                      +|+...      .+...++...++++.+      ++++++||++|.|++++++
T Consensus       165 ~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          165 MDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             CCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            998531      1112234455555554      4799999999999999766

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.70  E-value=7.2e-19  Score=171.01  Aligned_cols=109  Identities=15%  Similarity=0.104  Sum_probs=76.1

Q ss_pred             EEEEEEeCCCCc-------------ccchhhhhcccCceEEE-EEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         124 VKLQLWDTSGQG-------------RFCTIIRSYSRGAQGIL-LVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       124 v~l~i~Dt~G~e-------------~~~~l~~~~~~~ad~iI-lV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                      ..+.||||||..             .+..+...|++.++.+| +|+|+++..+..+...|+..+..  .+.|+++|+||+
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~--~~~~~i~V~NK~  202 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP--QGQRTIGVITKL  202 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT--TCSSEEEEEECG
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCC--CCCeEEEEEEcc
Confidence            568999999964             34556667888888766 69999886555544455555543  358999999999


Q ss_pred             cCCCCcccCHHHHHHHHHh--cC-CcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         190 HLAFNRTVTTREAEMYAIK--NQ-MAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       190 DL~~~r~v~~ee~~~~a~~--~~-~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      |+.+++....+.++.....  .+ .+++++||++|.|++++|+.+.+.
T Consensus       203 Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          203 DLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             GGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             ccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            9976544333322211001  12 368899999999999999999873

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.70  E-value=1.3e-16  Score=163.07  Aligned_cols=167  Identities=13%  Similarity=0.127  Sum_probs=109.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCcccc--CCCccccccceeEEEEEE-------------C-
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCS--GSGKYDDMLAYKTTTILL-------------D-  120 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~--~ig~~~~tid~~~~~i~i-------------~-  120 (432)
                      ....++|+++|..++|||||+++|. +...      .........  +++     +.+....+..             + 
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~-g~~~------~~~~~e~~~giTi~-----~~~~~~~~~~~~~~~~y~~~~~~~~   74 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALT-GVWT------DTHSEELRRGITIK-----IGFADAEIRRCPNCGRYSTSPVCPY   74 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHH-TCCC------C--CGGGGSCSSSC-----CEEEEEEEEECTTTCCEESSSBCTT
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHh-CCcc------ccChhhhcCCcEEE-----Eeeeeeecccccccccccccccccc
Confidence            3567899999999999999999983 2111      011111111  221     1222222211             1 


Q ss_pred             -C----eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc
Q psy3450         121 -G----KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR  195 (432)
Q Consensus       121 -~----~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r  195 (432)
                       +    ....+.||||||+++|.......+..+|++|+|+|+++........+.+..+... ...|+++|+||+|+.+..
T Consensus        75 ~g~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~-~~~~iivviNK~Dl~~~~  153 (410)
T 1kk1_A           75 CGHETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII-GQKNIIIAQNKIELVDKE  153 (410)
T ss_dssp             TCCBCEEEEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH-TCCCEEEEEECGGGSCHH
T ss_pred             cCcccccccEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHc-CCCcEEEEEECccCCCHH
Confidence             1    1378999999999998777777778899999999999754222223333333333 225899999999997533


Q ss_pred             c--cCHHHHHHHHHh---cCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         196 T--VTTREAEMYAIK---NQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       196 ~--v~~ee~~~~a~~---~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      .  ...+++.++++.   .+++++++||++|.|+++++++|.+.+.
T Consensus       154 ~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          154 KALENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             HHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            2  233455566554   3579999999999999999999987663

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.70  E-value=1.2e-17  Score=164.07  Aligned_cols=134  Identities=17%  Similarity=0.078  Sum_probs=106.1

Q ss_pred             HHHHhhhcCCCCcccccCCCCc-CccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEE
Q psy3450          75 EILSGLYLESRFPRFWLDGSSE-SPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILL  153 (432)
Q Consensus        75 SLln~L~~~~~~~~~~~~~~~~-~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIl  153 (432)
                      +|+.++          ..+.+. ..+.+++|      ++....+..++   ++++|||  +++|..+++.|++++|++|+
T Consensus        32 sl~~~~----------~~~~f~~~~~~pTiG------d~~~~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vil   90 (301)
T 1u0l_A           32 ERILCK----------LRGKFRLQNLKIYVG------DRVEYTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVIL   90 (301)
T ss_dssp             CEEEEE----------ECGGGTTTTCCCCTT------CEEEEECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEE
T ss_pred             cEEEEE----------EcccccccCCCCCCc------cEEEEEEcCCC---eEEEEEE--ccccceeeccccccCCEEEE
Confidence            577775          333333 34567777      44443332233   6899999  89999999999999999999


Q ss_pred             EEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC--CcEEEEcCCCCCCHHHHHHH
Q psy3450         154 VYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ--MAFFEVSPLCDFNIRESFTE  230 (432)
Q Consensus       154 V~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~--~~~~evSAktg~nI~elf~~  230 (432)
                      |||+++++ +|+.+..|+.++..  .++|++||+||+||.+++++  ++++++++.++  ++++++||++|.||+++|..
T Consensus        91 V~D~~~~~~s~~~l~~~l~~~~~--~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~  166 (301)
T 1u0l_A           91 VVTVKMPETSTYIIDKFLVLAEK--NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEY  166 (301)
T ss_dssp             EECSSTTCCCHHHHHHHHHHHHH--TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHHHHH--CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHH
Confidence            99999997 78889999998866  46899999999999765543  55677777777  89999999999999999988


Q ss_pred             HHH
Q psy3450         231 LSR  233 (432)
Q Consensus       231 L~~  233 (432)
                      +..
T Consensus       167 l~g  169 (301)
T 1u0l_A          167 LKG  169 (301)
T ss_dssp             HSS
T ss_pred             hcC
Confidence            753

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.69  E-value=3.3e-17  Score=164.55  Aligned_cols=127  Identities=13%  Similarity=0.153  Sum_probs=106.4

Q ss_pred             ceeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCC----------CCChhhHHHHHHHHHhhC--C
Q psy3450         111 AYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITN----------KWSFDGIDRWLKEVEEHA--P  178 (432)
Q Consensus       111 d~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~----------~~Sf~~l~~~l~~i~~~~--~  178 (432)
                      ......+.++  .+.+++|||+||+.++.+|..|+++++++|||||+++          ..+|++...|+..+....  .
T Consensus       182 Gi~~~~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~  259 (353)
T 1cip_A          182 GIVETHFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFT  259 (353)
T ss_dssp             SEEEEEEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGT
T ss_pred             ceEEEEEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCcccc
Confidence            3444556665  4789999999999999999999999999999999999          456888888988887642  6


Q ss_pred             CCcEEEEEECccCCCCc---------------ccCHHHHHHHHH-----------hcCCcEEEEcCCCCCCHHHHHHHHH
Q psy3450         179 GVPKVLVGNRLHLAFNR---------------TVTTREAEMYAI-----------KNQMAFFEVSPLCDFNIRESFTELS  232 (432)
Q Consensus       179 ~iPiILVgNK~DL~~~r---------------~v~~ee~~~~a~-----------~~~~~~~evSAktg~nI~elf~~L~  232 (432)
                      ++|+|||+||+||..++               .++.+++..++.           ..++.+++|||+++.||+++|+++.
T Consensus       260 ~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~  339 (353)
T 1cip_A          260 DTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVT  339 (353)
T ss_dssp             TSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             CCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHH
Confidence            79999999999995332               367888888887           3567899999999999999999999


Q ss_pred             HHHhhhc
Q psy3450         233 RRALQRN  239 (432)
Q Consensus       233 ~~i~~~~  239 (432)
                      +.+++..
T Consensus       340 ~~i~~~~  346 (353)
T 1cip_A          340 DVIIKNN  346 (353)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            9987643

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.69  E-value=8.2e-17  Score=168.13  Aligned_cols=166  Identities=13%  Similarity=0.071  Sum_probs=110.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      -..++|+++|..++|||||+++|........  .+ ........+     .|++.....+.+++  ..+.||||||+++|
T Consensus        17 m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~--~d-~~~~e~~~G-----iTi~~~~~~~~~~~--~~i~iiDtPGh~~~   86 (482)
T 1wb1_A           17 FKNINLGIFGHIDHGKTTLSKVLTEIASTSA--HD-KLPESQKRG-----ITIDIGFSAFKLEN--YRITLVDAPGHADL   86 (482)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC----------------------------CCCEEEETT--EEEEECCCSSHHHH
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHCCCcccc--cc-cccccccCc-----cEEecceEEEEECC--EEEEEEECCChHHH
Confidence            3568999999999999999999832221000  00 000011111     12233333444555  56899999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc--ccCHHHHHHHHHhc----CC
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR--TVTTREAEMYAIKN----QM  211 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r--~v~~ee~~~~a~~~----~~  211 (432)
                      ......++..+|++|+|+|+++...-+ ..+++..+..  .++|+++|+||+|+.++.  +...+++.++++..    ++
T Consensus        87 ~~~~~~~~~~aD~~ilVvda~~g~~~q-t~e~l~~~~~--~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~  163 (482)
T 1wb1_A           87 IRAVVSAADIIDLALIVVDAKEGPKTQ-TGEHMLILDH--FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNS  163 (482)
T ss_dssp             HHHHHHHTTSCCEEEEEEETTTCSCHH-HHHHHHHHHH--TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGC
T ss_pred             HHHHHHHHhhCCEEEEEEecCCCccHH-HHHHHHHHHH--cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccc
Confidence            888888899999999999998843222 2333333433  358899999999997532  12234555666655    57


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +++++||++|.|+++++++|.+.+.
T Consensus       164 ~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          164 SIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHHhhc
Confidence            8999999999999999999998774

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.68  E-value=3.9e-17  Score=164.01  Aligned_cols=125  Identities=14%  Similarity=0.148  Sum_probs=99.6

Q ss_pred             EEEEEECC----eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCC----------CCCChhhHHHHHHHHHhhC--
Q psy3450         114 TTTILLDG----KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDIT----------NKWSFDGIDRWLKEVEEHA--  177 (432)
Q Consensus       114 ~~~i~i~~----~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt----------~~~Sf~~l~~~l~~i~~~~--  177 (432)
                      ...+.+++    +.+.+++|||+||++|+.+|..|+++++++|+|||++          +..+|+++..|++.+....  
T Consensus       169 e~~f~~~~~~~~~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~  248 (354)
T 2xtz_A          169 EIQFSPVGENKKSGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCF  248 (354)
T ss_dssp             EEEECCCCE------EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGG
T ss_pred             eEEEEeccCccccceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhcccc
Confidence            34444555    6799999999999999999999999999999999998          7889999999999887643  


Q ss_pred             CCCcEEEEEECccCCCCcc--c-------------------CHHHHHHHHHh----------------cCCcEEEEcCCC
Q psy3450         178 PGVPKVLVGNRLHLAFNRT--V-------------------TTREAEMYAIK----------------NQMAFFEVSPLC  220 (432)
Q Consensus       178 ~~iPiILVgNK~DL~~~r~--v-------------------~~ee~~~~a~~----------------~~~~~~evSAkt  220 (432)
                      +++|+||||||+||.+++.  +                   +.+++.+++.+                ..+.+++|||++
T Consensus       249 ~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d  328 (354)
T 2xtz_A          249 EKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALD  328 (354)
T ss_dssp             SSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTC
T ss_pred             CCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeec
Confidence            6899999999999854322  1                   24677777543                123568999999


Q ss_pred             CCCHHHHHHHHHHHHhhh
Q psy3450         221 DFNIRESFTELSRRALQR  238 (432)
Q Consensus       221 g~nI~elf~~L~~~i~~~  238 (432)
                      +.||+++|+++.+.+++.
T Consensus       329 ~~nV~~vF~~v~~~I~~~  346 (354)
T 2xtz_A          329 QKLVKKTFKLVDETLRRR  346 (354)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHH
Confidence            999999999999988654

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.68  E-value=5.4e-17  Score=165.42  Aligned_cols=166  Identities=12%  Similarity=0.117  Sum_probs=109.7

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCC------CCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLES------RFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~------~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .+||+++|..++|||||+++|....      .+.............  ..|   .|++..  .+.++.....+.||||||
T Consensus         3 ~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~--~~g---iTi~~~--~~~~~~~~~~~~iiDtpG   75 (397)
T 1d2e_A            3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEER--ARG---ITINAA--HVEYSTAARHYAHTDCPG   75 (397)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEE--ETT---EEEECE--EEEEECSSCEEEEEECSS
T ss_pred             eEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHH--hcC---cEEEee--eEEeccCCeEEEEEECCC
Confidence            5899999999999999999983310      010000000000000  111   122322  233444446789999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCcc---cCHHHHHHHHHhc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRT---VTTREAEMYAIKN  209 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~---v~~ee~~~~a~~~  209 (432)
                      +++|......+++.+|++|+|+|+++....+... ++..+...  ++| +++|+||+|+.++..   ...+++.+++++.
T Consensus        76 ~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e-~l~~~~~~--~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~  152 (397)
T 1d2e_A           76 HADYVKNMITGTAPLDGCILVVAANDGPMPQTRE-HLLLARQI--GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEF  152 (397)
T ss_dssp             HHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHH-HHHHHHHT--TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHH-HHHHHHHc--CCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHc
Confidence            9999888888899999999999999876544433 33444443  578 789999999964221   1234566777776


Q ss_pred             C-----CcEEEEcCCCCCC----------HHHHHHHHHHHH
Q psy3450         210 Q-----MAFFEVSPLCDFN----------IRESFTELSRRA  235 (432)
Q Consensus       210 ~-----~~~~evSAktg~n----------I~elf~~L~~~i  235 (432)
                      +     ++++++||++|.|          ++++++.|.+.+
T Consensus       153 ~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          153 GYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             TSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             CCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence            5     5899999999775          888888887765

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.68  E-value=1.4e-16  Score=161.12  Aligned_cols=146  Identities=6%  Similarity=-0.006  Sum_probs=108.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      +|+++|.+++|||||+++|          .      ....+       ++.....+..++  .++.||||||+++|....
T Consensus        23 ~i~iiG~~d~GKSTL~~~L----------~------~~giT-------i~~~~~~~~~~~--~~i~iiDtPGh~~f~~~~   77 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANL----------G------KKGTS-------SDITMYNNDKEG--RNMVFVDAHSYPKTLKSL   77 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTT----------S------EEEEE-------SSSEEEEECSSS--SEEEEEECTTTTTCHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH----------H------hCCEE-------EEeeEEEEecCC--eEEEEEECCChHHHHHHH
Confidence            8999999999999999998          2      11122       233333333333  468999999999997777


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcE-EEEEE-CccCCCCcccCH--HHHHHHHHhcC---CcEE
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK-VLVGN-RLHLAFNRTVTT--REAEMYAIKNQ---MAFF  214 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPi-ILVgN-K~DL~~~r~v~~--ee~~~~a~~~~---~~~~  214 (432)
                      ...++.+|++|+|+| + ...+....+|+..+...  ++|. ++|+| |+|+ +.+.+..  +++.++++..+   ++++
T Consensus        78 ~~~~~~aD~ailVvd-~-~g~~~qt~e~~~~~~~~--~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii  152 (370)
T 2elf_A           78 ITALNISDIAVLCIP-P-QGLDAHTGECIIALDLL--GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECI  152 (370)
T ss_dssp             HHHHHTCSEEEEEEC-T-TCCCHHHHHHHHHHHHT--TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEE
T ss_pred             HHHHHHCCEEEEEEc-C-CCCcHHHHHHHHHHHHc--CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEE
Confidence            778899999999999 4 44566667777766654  4677 88999 9999 5332222  45556665543   6899


Q ss_pred             E--EcCCC---CCCHHHHHHHHHHHHhh
Q psy3450         215 E--VSPLC---DFNIRESFTELSRRALQ  237 (432)
Q Consensus       215 e--vSAkt---g~nI~elf~~L~~~i~~  237 (432)
                      +  +||++   |.|++++++.|.+.+..
T Consensus       153 ~~~~SA~~~~~g~gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          153 SLNTNKSAKNPFEGVDELKARINEVAEK  180 (370)
T ss_dssp             ECCCCTTSSSTTTTHHHHHHHHHHHHHH
T ss_pred             ecccccccCcCCCCHHHHHHHHHhhccc
Confidence            9  99999   99999999999987643

>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=99.67  E-value=2.7e-17  Score=161.67  Aligned_cols=172  Identities=17%  Similarity=0.230  Sum_probs=91.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC--
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ--  134 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~--  134 (432)
                      .+..++|+|+|++|||||||+++++..+.++....... .....++.+     .+.....+..++....+.+|||+|+  
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~-g~~~~~t~~-----~~~~~~~~q~~~~~~~ltv~Dt~g~~~   88 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGA-AEKIERTVQ-----IEASTVEIEERGVKLRLTVVDTPGYGD   88 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------------CEEEEC---CCEEEEEEEEC----
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccC-CcccCCcce-----EeeEEEEecCCCcccCcchhhhhhhhh
Confidence            45668999999999999999999755434443211000 000011111     1222222333555678999999998  


Q ss_pred             -----cccchhhh-------hcccCc-------------eEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         135 -----GRFCTIIR-------SYSRGA-------------QGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       135 -----e~~~~l~~-------~~~~~a-------------d~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                           +.+..+..       .++++.             ++++++.+.+ ..+|+.+.  .+.++....+.|+++|+||.
T Consensus        89 ~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt-~~~Ld~~~--~~~l~~l~~~~~iilV~~K~  165 (301)
T 2qnr_A           89 AINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLD--VAFMKAIHNKVNIVPVIAKA  165 (301)
T ss_dssp             -------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSS-SSSCCHHH--HHHHHHHTTTSCEEEEECCG
T ss_pred             hcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCc-ccCCCHHH--HHHHHHHHhcCCEEEEEEeC
Confidence                 56655554       444332             3333333322 23566654  23444444568999999999


Q ss_pred             cCCCCccc--CHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         190 HLAFNRTV--TTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       190 DL~~~r~v--~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      |+..++++  ..+++.++++.++++|+++||++| |++++|.++.+.+...
T Consensus       166 Dl~~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          166 DTLTLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             GGSCHHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcC
Confidence            99754443  346788899999999999999999 9999999999988653

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.67  E-value=1.2e-17  Score=172.23  Aligned_cols=163  Identities=15%  Similarity=0.181  Sum_probs=104.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcC-CCCccccc---------CCC-----------CcCccccCCCccccccceeEEEE
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWL---------DGS-----------SESPFCSGSGKYDDMLAYKTTTI  117 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~---------~~~-----------~~~~~~~~ig~~~~tid~~~~~i  117 (432)
                      ..+||+++|..++|||||+++|+.. ..+.....         .+.           .......+     .|++.....+
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~g-----iTi~~~~~~~   79 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERG-----VTINLTFMRF   79 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC----------------CEE
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcC-----ceeEeeEEEE
Confidence            4689999999999999999998332 12211100         000           00000011     1223332233


Q ss_pred             EECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCC-cEEEEEECccC
Q psy3450         118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGV-PKVLVGNRLHL  191 (432)
Q Consensus       118 ~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~i-PiILVgNK~DL  191 (432)
                        +.....+.||||||+++|......+++.+|++|+|+|+++ .+|+.+..|..+.++..     .++ |+++|+||+|+
T Consensus        80 --~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl  156 (435)
T 1jny_A           80 --ETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDL  156 (435)
T ss_dssp             --ECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGG
T ss_pred             --ecCCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccC
Confidence              3334678999999999998888889999999999999998 67775544433332211     133 68999999999


Q ss_pred             CCCc------ccCHHHHHHHHHhcC-----CcEEEEcCCCCCCHHHHHH
Q psy3450         192 AFNR------TVTTREAEMYAIKNQ-----MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       192 ~~~r------~v~~ee~~~~a~~~~-----~~~~evSAktg~nI~elf~  229 (432)
                      .+..      +...+++.++++..+     ++++++||++|.|+.++++
T Consensus       157 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          157 TEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             SSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             CCccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            6521      122455677777765     6799999999999987654

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.67  E-value=7.5e-17  Score=166.24  Aligned_cols=168  Identities=17%  Similarity=0.144  Sum_probs=106.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCC-cccccCC-CCcCccccCCCc----------------cccccceeEEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRF-PRFWLDG-SSESPFCSGSGK----------------YDDMLAYKTTTILL  119 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~-~~~~~~~-~~~~~~~~~ig~----------------~~~tid~~~~~i~i  119 (432)
                      ...+||+++|..++|||||+++|...... ....... ........+.+.                ...|++.....+. 
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~-  100 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS-  100 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE-
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee-
Confidence            45689999999999999999998433211 0000000 000000000000                0112233222333 


Q ss_pred             CCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcc---
Q psy3450         120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRT---  196 (432)
Q Consensus       120 ~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~---  196 (432)
                       .....+.||||||+++|......+++.+|++|+|+|+++... ....+|+..+.... -.|+|+|+||+|+.+..+   
T Consensus       101 -~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~~-~~~iIvviNK~Dl~~~~~~~~  177 (434)
T 1zun_B          101 -TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLLG-IKHIVVAINKMDLNGFDERVF  177 (434)
T ss_dssp             -CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHTT-CCEEEEEEECTTTTTSCHHHH
T ss_pred             -cCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHcC-CCeEEEEEEcCcCCcccHHHH
Confidence             334678999999999998888888999999999999998763 33455665554432 236999999999965211   


Q ss_pred             -cCHHHHHHHHHhcC-----CcEEEEcCCCCCCHHHHHH
Q psy3450         197 -VTTREAEMYAIKNQ-----MAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       197 -v~~ee~~~~a~~~~-----~~~~evSAktg~nI~elf~  229 (432)
                       ...++..++++.++     ++++++||++|.|++++|+
T Consensus       178 ~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          178 ESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             HHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             HHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence             12345667777777     6899999999999998644

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.66  E-value=1.7e-16  Score=161.46  Aligned_cols=125  Identities=14%  Similarity=0.104  Sum_probs=102.4

Q ss_pred             eeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCC----------CCChhhHHHHHHHHHhhC--CC
Q psy3450         112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITN----------KWSFDGIDRWLKEVEEHA--PG  179 (432)
Q Consensus       112 ~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~----------~~Sf~~l~~~l~~i~~~~--~~  179 (432)
                      ...+.+.+++  +.++||||+||+.++.+|..|+++++++|||||+++          ..+|+++..|+..+....  ++
T Consensus       207 i~~~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~  284 (402)
T 1azs_C          207 IFETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRT  284 (402)
T ss_dssp             EEEEEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSS
T ss_pred             eEEEEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCC
Confidence            3345566665  889999999999999999999999999999999999          889999999999988753  68


Q ss_pred             CcEEEEEECccCCCCcc---c---------------------------CHHHHHHHH-----Hh--------cCCcEEEE
Q psy3450         180 VPKVLVGNRLHLAFNRT---V---------------------------TTREAEMYA-----IK--------NQMAFFEV  216 (432)
Q Consensus       180 iPiILVgNK~DL~~~r~---v---------------------------~~ee~~~~a-----~~--------~~~~~~ev  216 (432)
                      +|+||||||+||..++.   +                           ..+++..|+     +.        .++.++++
T Consensus       285 ~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~T  364 (402)
T 1azs_C          285 ISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFT  364 (402)
T ss_dssp             CCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEEC
T ss_pred             CeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEE
Confidence            99999999999854332   2                           135666664     22        24567899


Q ss_pred             cCCCCCCHHHHHHHHHHHHhhh
Q psy3450         217 SPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~~  238 (432)
                      ||+++.||+++|+.+.+.+++.
T Consensus       365 SA~d~~nV~~vF~~v~~~I~~~  386 (402)
T 1azs_C          365 CAVDTENIRRVFNDCRDIIQRM  386 (402)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EeecCcCHHHHHHHHHHHHHHH
Confidence            9999999999999999888654

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.66  E-value=5.5e-18  Score=178.52  Aligned_cols=158  Identities=18%  Similarity=0.162  Sum_probs=106.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      ..+|+++|++|+|||||+++| .+..+.....         ++++     .++....+..++ ...+.||||||++.|..
T Consensus         4 ~pkV~IvG~~~vGKTSLl~~L-~~~~~~~~~~---------~giT-----~~i~~~~v~~~~-g~~i~~iDTPGhe~f~~   67 (537)
T 3izy_P            4 SPVVTIMGHVDHGKTTLLDKL-RKTQVAAMEA---------GGIT-----QHIGAFLVSLPS-GEKITFLDTPGHAAFSA   67 (537)
T ss_dssp             CCBCEEEESTTTTHHHHHHHH-HHHHHHHSSS---------CCBC-----CCTTSCCBCSSC-SSCCBCEECSSSCCTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHH-hCCCcccccC---------Ccee-----EEEeEEEEEeCC-CCEEEEEECCChHHHHH
Confidence            468999999999999999997 3333322111         1110     111111222211 12579999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc-CHHHHHHH---HHhc--CCcE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV-TTREAEMY---AIKN--QMAF  213 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v-~~ee~~~~---a~~~--~~~~  213 (432)
                      ++..+++.+|++|||+|+++....+....| ..+..  .++|+++|+||+|+.+.+.. ..++...+   +..+  .+++
T Consensus        68 ~~~~~~~~aD~vILVVDa~dg~~~qt~e~l-~~~~~--~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~i  144 (537)
T 3izy_P           68 MRARGTQVTDIVILVVAADDGVMKQTVESI-QHAKD--AHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQA  144 (537)
T ss_dssp             SBBSSSBSBSSCEEECBSSSCCCHHHHHHH-HHHHT--TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEE
T ss_pred             HHHHHHccCCEEEEEEECCCCccHHHHHHH-HHHHH--cCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceE
Confidence            999999999999999999987765544333 33333  45899999999999643211 11222211   1122  2489


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         214 FEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~  236 (432)
                      +++||++|.|++++|+.+...+.
T Consensus       145 v~vSAktG~GI~eLle~I~~l~~  167 (537)
T 3izy_P          145 VHVSALTGENMMALAEATIALAE  167 (537)
T ss_dssp             CCCCSSSSCSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCchhHHHHHHHhhh
Confidence            99999999999999999998763

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.66  E-value=3.4e-16  Score=165.09  Aligned_cols=126  Identities=15%  Similarity=0.102  Sum_probs=85.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccc---c----CCCCcCc-----cccCCCccccccceeEEEEEECCeEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFW---L----DGSSESP-----FCSGSGKYDDMLAYKTTTILLDGKRVK  125 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~---~----~~~~~~~-----~~~~ig~~~~tid~~~~~i~i~~~~v~  125 (432)
                      +...+|+|+|.+|+|||||+++|..........   .    .......     ...++     ++......+..++  +.
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~Gi-----Ti~~~~~~~~~~~--~~   83 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGI-----SVTTSVMQFPYKD--YL   83 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCC-----SSSSSEEEEEETT--EE
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCe-----eEEEeEEEEEeCC--EE
Confidence            356799999999999999999983111100000   0    0000000     00111     2333344445554  67


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      ++||||||+++|......+++.+|++|+|+|+++..+.+....|. .+..  .++|+++|+||+|+..
T Consensus        84 i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~~--~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           84 INLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCRL--RHTPIMTFINKMDRDT  148 (528)
T ss_dssp             EEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHHT--TTCCEEEEEECTTSCC
T ss_pred             EEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHH--cCCCEEEEEeCCCCcc
Confidence            899999999999999999999999999999999988877766553 3333  3589999999999854

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.65  E-value=7.3e-16  Score=141.53  Aligned_cols=155  Identities=14%  Similarity=0.173  Sum_probs=99.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc-
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR-  136 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~-  136 (432)
                      ....+|+++|++|||||||++++ .+..+         .....++.|..     .....+.+++   .+.+|||+|... 
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l-~g~~~---------~~~~~~~~G~~-----~~~~~~~~~~---~~~l~Dt~G~~~~   85 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTL-TNQKS---------LARTSKTPGRT-----QLINLFEVAD---GKRLVDLPGYGYA   85 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTT-CCC---------------------------CCEEEEEEET---TEEEEECCCCC--
T ss_pred             CCCcEEEEECCCCCCHHHHHHHH-hCCCc---------cccccCCCccc-----eeeEEEEecC---CEEEEECcCCccc
Confidence            34579999999999999999997 22221         11122333311     1122233333   468999999742 


Q ss_pred             ---------cchhhhhcc---cCceEEEEEEeCCCCCChhh--HHHHHHHHHhhCCCCcEEEEEECccCCCC--cccCHH
Q psy3450         137 ---------FCTIIRSYS---RGAQGILLVYDITNKWSFDG--IDRWLKEVEEHAPGVPKVLVGNRLHLAFN--RTVTTR  200 (432)
Q Consensus       137 ---------~~~l~~~~~---~~ad~iIlV~Dvt~~~Sf~~--l~~~l~~i~~~~~~iPiILVgNK~DL~~~--r~v~~e  200 (432)
                               +......++   +.++++++++|+++..++.+  +..|+.   .  .++|+++|+||+|+...  ++...+
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~---~--~~~~~~~v~nK~D~~s~~~~~~~~~  160 (210)
T 1pui_A           86 EVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAV---D--SNIAVLVLLTKADKLASGARKAQLN  160 (210)
T ss_dssp             ----CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH---H--TTCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHH---H--cCCCeEEEEecccCCCchhHHHHHH
Confidence                     222233344   57899999999998876643  233332   2  35899999999998643  222234


Q ss_pred             HHHHHHHhcC--CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         201 EAEMYAIKNQ--MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       201 e~~~~a~~~~--~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+..++.+.+  +.++++||+++.|++++++.|.+.+
T Consensus       161 ~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~  197 (210)
T 1pui_A          161 MVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  197 (210)
T ss_dssp             HHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCceEEEeecCCCCHHHHHHHHHHHH
Confidence            5566665554  5789999999999999999998876

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.65  E-value=5.6e-17  Score=168.19  Aligned_cols=154  Identities=14%  Similarity=0.111  Sum_probs=98.7

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC------
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG------  133 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G------  133 (432)
                      ..+|+|+|++|||||||+|+| .+.++...          ....|   .+.+..  ...++.....+.+|||+|      
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l-~~~~~~~v----------~~~~g---~t~~~~--~~~~~~~~~~~~liDT~G~~~~~~   86 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRI-AGERISIV----------EDTPG---VTRDRI--YSSAEWLNYDFNLIDTGGIDIGDE   86 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHH-EEEEEC------------------------CE--EEECTTCSSCCEEECCCC------
T ss_pred             CCEEEEECCCCCcHHHHHHHH-hCCCCccc----------CCCCC---cceeEE--EEEEEECCceEEEEECCCCCCcch
Confidence            469999999999999999997 43333211          11112   111222  223333345789999999      


Q ss_pred             --CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         134 --QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       134 --~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                        ++++......+++++|++|+|+|..+.  +.....|+.++... .++|++||+||+|+.+.+    ++..++. ..+.
T Consensus        87 ~~~~~~~~~~~~~~~~ad~il~VvD~~~~--~~~~d~~l~~~l~~-~~~pvilV~NK~D~~~~~----~~~~e~~-~lg~  158 (456)
T 4dcu_A           87 PFLAQIRQQAEIAMDEADVIIFMVNGREG--VTAADEEVAKILYR-TKKPVVLAVNKLDNTEMR----ANIYDFY-SLGF  158 (456)
T ss_dssp             CCHHHHHHHHHHHHHHCSEEEEEEESSSC--SCHHHHHHHHHHTT-CCSCEEEEEECC-------------CCSG-GGSS
T ss_pred             HHHHHHHHHHHhhHhhCCEEEEEEeCCCC--CChHHHHHHHHHHH-cCCCEEEEEECccchhhh----hhHHHHH-HcCC
Confidence              666777788889999999999998764  33444555554433 468999999999985422    1111111 2233


Q ss_pred             -cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 -AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 -~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                       .++++||++|.|++++++.+.+.+..
T Consensus       159 ~~~~~iSA~~g~gv~~L~~~i~~~l~~  185 (456)
T 4dcu_A          159 GEPYPISGTHGLGLGDLLDAVAEHFKN  185 (456)
T ss_dssp             SSEEECCTTTCTTHHHHHHHHHTTGGG
T ss_pred             CceEEeecccccchHHHHHHHHhhccc
Confidence             56799999999999999999876643

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.64  E-value=2.1e-16  Score=159.21  Aligned_cols=126  Identities=13%  Similarity=0.162  Sum_probs=97.7

Q ss_pred             eeEEEEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCC----------CCChhhHHHHHHHHHhhC--CC
Q psy3450         112 YKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITN----------KWSFDGIDRWLKEVEEHA--PG  179 (432)
Q Consensus       112 ~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~----------~~Sf~~l~~~l~~i~~~~--~~  179 (432)
                      ...+.+.+++  +.+++|||+|++.++.+|..|+++++++|||||+++          ..+|++...|+..+....  .+
T Consensus       191 i~~~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~  268 (362)
T 1zcb_A          191 IHEYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSN  268 (362)
T ss_dssp             EEEEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTT
T ss_pred             eEEEEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCC
Confidence            3445556654  789999999999999999999999999999999999          678999999999887642  68


Q ss_pred             CcEEEEEECccCCCCc----------------ccCHHHHHHHHH-----------hcCCcEEEEcCCCCCCHHHHHHHHH
Q psy3450         180 VPKVLVGNRLHLAFNR----------------TVTTREAEMYAI-----------KNQMAFFEVSPLCDFNIRESFTELS  232 (432)
Q Consensus       180 iPiILVgNK~DL~~~r----------------~v~~ee~~~~a~-----------~~~~~~~evSAktg~nI~elf~~L~  232 (432)
                      +|+|||+||+||..++                .++.+++..++.           ..++.+++|||+++.||+++|+++.
T Consensus       269 ~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~  348 (362)
T 1zcb_A          269 VSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVK  348 (362)
T ss_dssp             SEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHH
T ss_pred             CCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHH
Confidence            9999999999985322                267788888762           3457899999999999999999999


Q ss_pred             HHHhhhc
Q psy3450         233 RRALQRN  239 (432)
Q Consensus       233 ~~i~~~~  239 (432)
                      +.+++.+
T Consensus       349 ~~i~~~~  355 (362)
T 1zcb_A          349 DTILHDN  355 (362)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887643

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.64  E-value=9.5e-17  Score=167.05  Aligned_cols=170  Identities=13%  Similarity=0.140  Sum_probs=93.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc-CCCCcccc---------cCCC------CcCccccCCCccccccceeEEEEEECC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL-ESRFPRFW---------LDGS------SESPFCSGSGKYDDMLAYKTTTILLDG  121 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~-~~~~~~~~---------~~~~------~~~~~~~~ig~~~~tid~~~~~i~i~~  121 (432)
                      ...++|+++|..++|||||+++|.. .+.+....         ..+.      ..............|++.....+..++
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~  120 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  120 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCC
Confidence            4568999999999999999999732 22221100         0000      000000000001122333333444454


Q ss_pred             eEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC---CChhhHHHHHHHHHhhC-CCCc-EEEEEECccCCCCc-
Q psy3450         122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK---WSFDGIDRWLKEVEEHA-PGVP-KVLVGNRLHLAFNR-  195 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~---~Sf~~l~~~l~~i~~~~-~~iP-iILVgNK~DL~~~r-  195 (432)
                        ..+.||||||+++|......+++.+|++|||+|+++.   .+|+....|.+.+.... .++| +|||+||+|+.... 
T Consensus       121 --~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~  198 (467)
T 1r5b_A          121 --RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQW  198 (467)
T ss_dssp             --EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS
T ss_pred             --eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccc
Confidence              5689999999999988888889999999999999986   35543323333322211 3577 99999999995311 


Q ss_pred             -----ccCHHHHHHHHHhc-------CCcEEEEcCCCCCCHHHHHH
Q psy3450         196 -----TVTTREAEMYAIKN-------QMAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       196 -----~v~~ee~~~~a~~~-------~~~~~evSAktg~nI~elf~  229 (432)
                           +...+++..+++..       +++++++||++|.|++++|+
T Consensus       199 ~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~~  244 (467)
T 1r5b_A          199 SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  244 (467)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             cHHHHHHHHHHHHHHHHHhcCCCccCCceEEecccccccccccccc
Confidence                 11233566666665       35699999999999988763

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.63  E-value=5.6e-16  Score=173.39  Aligned_cols=169  Identities=14%  Similarity=0.060  Sum_probs=110.8

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCC------CCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEe
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLES------RFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWD  130 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~------~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~D  130 (432)
                      ....+||+++|.+++|||||+++|....      .+..........  .....|   .|++..  .+.++.....+.|||
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~--~ErerG---ITIdva--~v~f~~~~~kI~IID  365 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAP--EEKARG---ITINTS--HVEYDTPTRHYAHVD  365 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC--------------------------CCS--CEEEECSSCEEEEEE
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhcccccccccccccccccc--ccccCc---eeEEEE--EEEEcCCCEEEEEEE
Confidence            3457899999999999999999983310      010000000000  001112   112222  223444456789999


Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCccc---CHHHHHHHH
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTV---TTREAEMYA  206 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v---~~ee~~~~a  206 (432)
                      |||+++|......+++.+|++|+|+|+++.... ...+|+..+...  ++| +|||+||+|+.++.+.   ..+++.+++
T Consensus       366 TPGHedF~~~mi~gas~AD~aILVVDAtdGv~~-QTrEhL~ll~~l--gIP~IIVVINKiDLv~d~e~le~i~eEi~elL  442 (1289)
T 3avx_A          366 CPGHADYVKNMITGAAQMDGAILVVAATDGPMP-QTREHILLGRQV--GVPYIIVFLNKCDMVDDEELLELVEMEVRELL  442 (1289)
T ss_dssp             CCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCT-THHHHHHHHHHH--TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHhhCCEEEEEEcCCccCcH-HHHHHHHHHHHc--CCCeEEEEEeecccccchhhHHHHHHHHHHHH
Confidence            999999988888889999999999999987544 345566665544  478 7899999999753221   234566777


Q ss_pred             HhcC-----CcEEEEcCCCC--------CCHHHHHHHHHHHH
Q psy3450         207 IKNQ-----MAFFEVSPLCD--------FNIRESFTELSRRA  235 (432)
Q Consensus       207 ~~~~-----~~~~evSAktg--------~nI~elf~~L~~~i  235 (432)
                      ++.+     ++++++||++|        .||+++++.|.+.+
T Consensus       443 k~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~I  484 (1289)
T 3avx_A          443 SQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYI  484 (1289)
T ss_dssp             HHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTS
T ss_pred             HhccccccceeEEEEEeccCCCCCccccccchhhHhHHhhhc
Confidence            7665     58999999999        45888888887655

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.62  E-value=2.2e-16  Score=169.32  Aligned_cols=163  Identities=13%  Similarity=0.101  Sum_probs=101.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccc------------cCCCC---------cCccccCCCccccccceeEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFW------------LDGSS---------ESPFCSGSGKYDDMLAYKTTT  116 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~------------~~~~~---------~~~~~~~ig~~~~tid~~~~~  116 (432)
                      ...+||+++|.+|+|||||+++|..........            -.+.+         ......++     |++.....
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~Gi-----Tid~~~~~  239 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGV-----TVSICTSH  239 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTT-----CCSCSCCE
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCe-----eEeeeeEE
Confidence            456899999999999999999983221110000            00000         00001111     23333333


Q ss_pred             EEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCC---CChh---hHHHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNK---WSFD---GIDRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       117 i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~---~Sf~---~l~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      +..+  ..++.||||||+++|......+++.+|++|+|+|+++.   .+|.   ...+.+..+.. ....|+|||+||+|
T Consensus       240 ~~~~--~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~-lgi~~iIVVvNKiD  316 (611)
T 3izq_1          240 FSTH--RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGIHNLIIAMNKMD  316 (611)
T ss_dssp             EECS--SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHT-TTCCEEEEEEECTT
T ss_pred             EecC--CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHH-cCCCeEEEEEeccc
Confidence            3333  45789999999999998888999999999999999873   1221   11222222222 22245999999999


Q ss_pred             CCCCcccCHH----HHHHHHHhcC-----CcEEEEcCCCCCCHHHHH
Q psy3450         191 LAFNRTVTTR----EAEMYAIKNQ-----MAFFEVSPLCDFNIRESF  228 (432)
Q Consensus       191 L~~~r~v~~e----e~~~~a~~~~-----~~~~evSAktg~nI~elf  228 (432)
                      +.+.++...+    ++..++...+     ++++++||++|.||+++.
T Consensus       317 l~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el~  363 (611)
T 3izq_1          317 NVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE  363 (611)
T ss_dssp             TTTTCHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSCT
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCccccC
Confidence            9753333222    3334444443     589999999999998773

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.61  E-value=1.7e-15  Score=161.73  Aligned_cols=166  Identities=17%  Similarity=0.144  Sum_probs=101.7

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCcccccccee---E----EEEEECCeEEEEEEEeCC
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK---T----TTILLDGKRVKLQLWDTS  132 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~---~----~~i~i~~~~v~l~i~Dt~  132 (432)
                      ..+|+++|.+++|||||+++|. +..+... ..    ...++.+|.+....+..   .    ....++.....+.|||||
T Consensus         5 ~~~V~IvGh~d~GKTTLl~~L~-~~~v~~~-e~----ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTP   78 (594)
T 1g7s_A            5 SPIVSVLGHVDHGKTTLLDHIR-GSAVASR-EA----GGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTP   78 (594)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHH-HHHHSCC---------CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCC
T ss_pred             CcEEEEECCCCCcHHHHHHHHh-cccCccc-cC----CceecccCeEEEeechhhhhccccccccccccccCCEEEEECC
Confidence            4689999999999999999983 2222110 00    01111222000000000   0    000000111258999999


Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCC---CCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC-----------
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITN---KWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT-----------  198 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~---~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~-----------  198 (432)
                      |++.|..++..+++.+|++|+|||+++   +.+++.+.    .+..  .++|+++|+||+|+.......           
T Consensus        79 Ghe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~----~l~~--~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~  152 (594)
T 1g7s_A           79 GHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM--YRTPFVVAANKIDRIHGWRVHEGRPFMETFSK  152 (594)
T ss_dssp             TTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHH----HHHH--TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTT
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHH----HHHH--cCCeEEEEecccccccccccccCCchHHHHHH
Confidence            999999999999999999999999998   44444332    2332  468999999999996422110           


Q ss_pred             --H---H-------HHHHHHHhcC---------------CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         199 --T---R-------EAEMYAIKNQ---------------MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       199 --~---e-------e~~~~a~~~~---------------~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                        .   +       +......+.+               ++++++||++|.||++++++|...+..
T Consensus       153 ~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~  218 (594)
T 1g7s_A          153 QDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (594)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccc
Confidence              0   0       1111111111               379999999999999999999987643

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.59  E-value=5.1e-16  Score=161.14  Aligned_cols=160  Identities=14%  Similarity=0.100  Sum_probs=102.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcC-CCCcccc-----------cCCCC------c---CccccCCCccccccceeEEEE
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW-----------LDGSS------E---SPFCSGSGKYDDMLAYKTTTI  117 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~-----------~~~~~------~---~~~~~~ig~~~~tid~~~~~i  117 (432)
                      ..++|+++|.+++|||||+++|... ..+....           -.+.+      +   .....+     .|++.....+
T Consensus         6 ~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~G-----iTi~~~~~~~   80 (458)
T 1f60_A            6 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERG-----ITIDIALWKF   80 (458)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTT-----CCCSCSCEEE
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcC-----cEEEEEEEEE
Confidence            4689999999999999999998432 1221100           00000      0   000011     1233333333


Q ss_pred             EECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCC---Chh---hHHHHHHHHHhhCCCCc-EEEEEECcc
Q psy3450         118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKW---SFD---GIDRWLKEVEEHAPGVP-KVLVGNRLH  190 (432)
Q Consensus       118 ~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~---Sf~---~l~~~l~~i~~~~~~iP-iILVgNK~D  190 (432)
                      ..  ...++.||||||+++|......+++.+|++|||+|+++..   +|+   ...+++..+..  .++| +|+|+||+|
T Consensus        81 ~~--~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~--~~v~~iivviNK~D  156 (458)
T 1f60_A           81 ET--PKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT--LGVRQLIVAVNKMD  156 (458)
T ss_dssp             EC--SSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH--TTCCEEEEEEECGG
T ss_pred             ec--CCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH--cCCCeEEEEEEccc
Confidence            33  3467899999999999888888999999999999998752   332   22333333333  2465 999999999


Q ss_pred             CCCCcc----cCHHHHHHHHHhcC-----CcEEEEcCCCCCCHHHH
Q psy3450         191 LAFNRT----VTTREAEMYAIKNQ-----MAFFEVSPLCDFNIRES  227 (432)
Q Consensus       191 L~~~r~----v~~ee~~~~a~~~~-----~~~~evSAktg~nI~el  227 (432)
                      +.+..+    ...+++..+++.++     ++++++||++|.|++++
T Consensus       157 l~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          157 SVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             GGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             cccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            963111    12344566666665     68999999999999754

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.59  E-value=1.2e-15  Score=149.61  Aligned_cols=111  Identities=21%  Similarity=0.152  Sum_probs=72.0

Q ss_pred             EEEEEEeCCCCcc-------------cchhhhhcccCceEEEEEEeCCCCCCh-hhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         124 VKLQLWDTSGQGR-------------FCTIIRSYSRGAQGILLVYDITNKWSF-DGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       124 v~l~i~Dt~G~e~-------------~~~l~~~~~~~ad~iIlV~Dvt~~~Sf-~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                      .++.||||||...             +......+++++|++|+|+|.++..-. .+...++..+..  .+.|+++|+||+
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~--~~~~~i~v~NK~  208 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDP--EGKRTIGVITKL  208 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCS--SCSSEEEEEECT
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCC--CCCcEEEEEcCc
Confidence            5689999999753             445566788999999999998543311 221233333332  368999999999


Q ss_pred             cCCCCcccCHHHHHHHHHhcCCcEEEEcCCC------CCCHHHHHHHHHHHHh
Q psy3450         190 HLAFNRTVTTREAEMYAIKNQMAFFEVSPLC------DFNIRESFTELSRRAL  236 (432)
Q Consensus       190 DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt------g~nI~elf~~L~~~i~  236 (432)
                      |+........+.+......++..|+++|+.+      +.|++++++.+.+.+.
T Consensus       209 Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~  261 (315)
T 1jwy_B          209 DLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFK  261 (315)
T ss_dssp             TSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             ccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHh
Confidence            9976544223322211111225677777664      6889999999888773

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.59  E-value=1.2e-16  Score=167.13  Aligned_cols=154  Identities=15%  Similarity=0.160  Sum_probs=100.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      ..+|+++|..++|||||+++|. ...+.....         .++.     .+.....+..++  ..+.||||||++.|..
T Consensus         4 ~~~V~IvGhvd~GKTTLl~~L~-~~~v~~~e~---------~GIT-----~~i~~~~v~~~~--~~i~~iDTPGhe~f~~   66 (501)
T 1zo1_I            4 APVVTIMGHVDHGKTSLLEYIR-STKVASGEA---------GGIT-----QHIGAYHVETEN--GMITFLDTPGHAAFTS   66 (501)
T ss_dssp             CCCEEEEESTTSSSHHHHHHHH-HHHHSBTTB---------CCCC-----CCSSCCCCCTTS--SCCCEECCCTTTCCTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHH-cCCCccccC---------CCee-----EeEEEEEEEECC--EEEEEEECCCcHHHHH
Confidence            4689999999999999999973 222221100         1110     111111122334  3579999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCC--cccCHH--HHHHHHHhcC--CcE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFN--RTVTTR--EAEMYAIKNQ--MAF  213 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~--r~v~~e--e~~~~a~~~~--~~~  213 (432)
                      ++..++..+|++|||+|+++....+... ++..+..  .++|+++|+||+|+...  +.+..+  +...+++.++  +++
T Consensus        67 ~~~~~~~~aD~aILVVda~~g~~~qT~e-~l~~~~~--~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~  143 (501)
T 1zo1_I           67 MRARGAQATDIVVLVVAADDGVMPQTIE-AIQHAKA--AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQF  143 (501)
T ss_dssp             SBCSSSBSCSSEEEEEETTTBSCTTTHH-HHHHHHH--TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEE
T ss_pred             HHHHHHhhCCEEEEEeecccCccHHHHH-HHHHHHh--cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccE
Confidence            9999999999999999998853322222 2233332  35899999999999642  111111  0001122233  689


Q ss_pred             EEEcCCCCCCHHHHHHHHHH
Q psy3450         214 FEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~  233 (432)
                      +++||++|.|++++|++|..
T Consensus       144 v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          144 VHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             EECCTTTCTTCTTHHHHTTT
T ss_pred             EEEeeeeccCcchhhhhhhh
Confidence            99999999999999999864

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.57  E-value=2.9e-15  Score=150.49  Aligned_cols=109  Identities=20%  Similarity=0.178  Sum_probs=81.8

Q ss_pred             EEEEEEeCCCCccc-------------chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECc
Q psy3450         124 VKLQLWDTSGQGRF-------------CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRL  189 (432)
Q Consensus       124 v~l~i~Dt~G~e~~-------------~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~  189 (432)
                      ..+.+|||||..++             ..+...|++++|++|+|+|.++.+...  ..|+..+.... .+.|+|+|+||+
T Consensus       136 ~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~~~l~~~~~~~~~~~i~V~nK~  213 (360)
T 3t34_A          136 VNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDAIKISREVDPSGDRTFGVLTKI  213 (360)
T ss_dssp             CSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHHHHHHHHSCTTCTTEEEEEECG
T ss_pred             CCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHHHHHHHHhcccCCCEEEEEeCC
Confidence            46899999998876             556678899999999999987654333  34555555544 367999999999


Q ss_pred             cCCCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         190 HLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       190 DL~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      |+.+++....+.++.++..++.+|+++|++++.++++.+..+...
T Consensus       214 Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~~  258 (360)
T 3t34_A          214 DLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAAR  258 (360)
T ss_dssp             GGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHHH
T ss_pred             ccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHHH
Confidence            997766655555555555567899999999999998877665443

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.57  E-value=1.2e-15  Score=163.03  Aligned_cols=160  Identities=18%  Similarity=0.227  Sum_probs=83.0

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCC-CCcc--------------------cccCCCCcCccccCCCccccccceeEE
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLES-RFPR--------------------FWLDGSSESPFCSGSGKYDDMLAYKTT  115 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~-~~~~--------------------~~~~~~~~~~~~~~ig~~~~tid~~~~  115 (432)
                      ....++|+++|.+++|||||+++|+... .+..                    .+..........++     .|++....
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~G-----iTid~~~~  248 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARG-----VTMDVAST  248 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCC-----eeEEeeEE
Confidence            3457899999999999999999983211 0000                    00000000001111     22344434


Q ss_pred             EEEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCC---Ch--h-hHHHHHHHHHhhCCCCc-EEEEEEC
Q psy3450         116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKW---SF--D-GIDRWLKEVEEHAPGVP-KVLVGNR  188 (432)
Q Consensus       116 ~i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~---Sf--~-~l~~~l~~i~~~~~~iP-iILVgNK  188 (432)
                      .+..+  ...+.||||||+++|......+++.+|++|||+|+++..   .+  . ...+.+..+...  ++| +|||+||
T Consensus       249 ~~~~~--~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l--gip~iIvviNK  324 (592)
T 3mca_A          249 TFESD--KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL--GISEIVVSVNK  324 (592)
T ss_dssp             ------------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS--SCCCEEEEEEC
T ss_pred             EEEeC--CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc--CCCeEEEEEec
Confidence            44343  367899999999999888888899999999999998753   22  1 112223333332  355 9999999


Q ss_pred             ccCCCCccc----CHHHHHHHH-HhcCC-----cEEEEcCCCCCCHH
Q psy3450         189 LHLAFNRTV----TTREAEMYA-IKNQM-----AFFEVSPLCDFNIR  225 (432)
Q Consensus       189 ~DL~~~r~v----~~ee~~~~a-~~~~~-----~~~evSAktg~nI~  225 (432)
                      +|+.+....    ..+++..+. +..++     +++++||++|.||+
T Consensus       325 iDl~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          325 LDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             GGGGTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            999642111    123344444 44454     79999999999998

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.56  E-value=5.9e-15  Score=160.48  Aligned_cols=111  Identities=12%  Similarity=0.133  Sum_probs=80.9

Q ss_pred             EEEEEeCCCCcc---cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHH-
Q psy3450         125 KLQLWDTSGQGR---FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTR-  200 (432)
Q Consensus       125 ~l~i~Dt~G~e~---~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~e-  200 (432)
                      .+.||||||...   .......+++++|++|+|+|+++..+..+...|...+...  +.|+++|+||+|+.....++.+ 
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~--~~~iiiVlNK~Dl~~~~~~~~ee  252 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGR--GLTVFFLVNAWDQVRESLIDPDD  252 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTS--CCCEEEEEECGGGGGGGCSSTTC
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhh--CCCEEEEEECcccccccccChhh
Confidence            489999999754   3445667889999999999999998888877776555432  5789999999998644322211 


Q ss_pred             ---------HHHH-----HHHh--------cCCcEEEEcCC--------------CCCCHHHHHHHHHHHHhh
Q psy3450         201 ---------EAEM-----YAIK--------NQMAFFEVSPL--------------CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       201 ---------e~~~-----~a~~--------~~~~~~evSAk--------------tg~nI~elf~~L~~~i~~  237 (432)
                               ....     +...        ...++++|||+              ++.|++++++.+.+.+..
T Consensus       253 ~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          253 VEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             HHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence                     1111     1111        12379999999              999999999999887754

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.56  E-value=4.9e-16  Score=158.43  Aligned_cols=91  Identities=21%  Similarity=0.210  Sum_probs=46.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEE---------------EEECC-eEE
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT---------------ILLDG-KRV  124 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~---------------i~i~~-~~v  124 (432)
                      +||+++|.+|||||||+|+|.... .... ..+..+  ..+..|     +.+....               ..+++ ..+
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~-~~~~-~~p~tT--~~~~~g-----~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~   71 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVD-VEIA-NYPFTT--IEANVG-----VTYAITDHPCKELGCSPNPQNYEYRNGLALI   71 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC------------------CCEE-----EEEEEEECSCSSSCCSCCCSSSCEETTEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC-Cccc-CCCCcc--cCCceE-----EEeeccCCchHHhhhhcccccccccCCcceE
Confidence            589999999999999999983322 1100 000000  001111     0000000               11233 257


Q ss_pred             EEEEEeCCCCcc----cchhhh---hcccCceEEEEEEeCCCC
Q psy3450         125 KLQLWDTSGQGR----FCTIIR---SYSRGAQGILLVYDITNK  160 (432)
Q Consensus       125 ~l~i~Dt~G~e~----~~~l~~---~~~~~ad~iIlV~Dvt~~  160 (432)
                      +++||||||+..    ...+.+   .+++++|++++|+|+++.
T Consensus        72 ~i~lvDtpG~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           72 PVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             EEEEEECC---------------CCCSSTTCSEEEEEEETTCC
T ss_pred             EEEEEECCCcccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            899999999854    333444   346899999999999876

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.56  E-value=3.1e-14  Score=145.77  Aligned_cols=159  Identities=15%  Similarity=0.115  Sum_probs=110.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc----c
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR----F  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~----~  137 (432)
                      .|+|+|++|+|||||++++ .+....   ..           +...+++......+.+++ ...+.+||++|..+    +
T Consensus       159 ~VgLVG~~gAGKSTLL~~L-sg~~~~---i~-----------~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~  222 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAM-TRAHPK---IA-----------PYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEG  222 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHH-CSSCCE---EC-----------CCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGS
T ss_pred             EEEEECCCCCcHHHHHHHH-HcCCcc---cc-----------CcccceecceeeEEEecC-cceEEEEeccccccchhhh
Confidence            4789999999999999997 222110   00           000112233333444444 24579999999743    2


Q ss_pred             chhhhhc---ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         138 CTIIRSY---SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       138 ~~l~~~~---~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                      ..+...+   ++.++.+|+++|++ ...+.++..|..++....   .+.|.+||+||+|+...  ...+++.+.++..++
T Consensus       223 ~~L~~~fl~~~era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~  299 (416)
T 1udx_A          223 KGLGLEFLRHIARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGL  299 (416)
T ss_dssp             CCSCHHHHHHHTSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTS
T ss_pred             hhhhHHHHHHHHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCC
Confidence            2222223   35799999999998 667888888888776654   25799999999998643  233445555666688


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +++++||+++.|+++++++|.+.+.+..
T Consensus       300 ~vi~iSA~~g~gi~eL~~~i~~~l~~~~  327 (416)
T 1udx_A          300 AVLPVSALTGAGLPALKEALHALVRSTP  327 (416)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHTSC
T ss_pred             eEEEEECCCccCHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999986543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.56  E-value=2.7e-14  Score=137.07  Aligned_cols=125  Identities=16%  Similarity=0.167  Sum_probs=85.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|.+|+|||||+|+|+. ..+..       ...+   .   .++.......+..++.  .+.||||||++++.
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~-~~~~~-------~~~~---~---~~t~~~~~~~~~~~~~--~l~liDTpG~~~~~   98 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIG-EQVVR-------VSPF---Q---AEGLRPVMVSRTMGGF--TINIIDTPGLVEAG   98 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHT-SCCSC-------CCSS---C---C-CCCCEEEEEEETTE--EEEEEECCCSEETT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC-CCCcc-------cCCC---C---CcceeeEEEEEEECCe--eEEEEECCCCCCcc
Confidence            468999999999999999999833 22210       0000   0   1123444555566664  68999999998876


Q ss_pred             hhhhhccc---------CceEEEEEEeCCCCCChhhH-HHHHHHHHhhC-C--CCcEEEEEECccCCCCcccCHH
Q psy3450         139 TIIRSYSR---------GAQGILLVYDITNKWSFDGI-DRWLKEVEEHA-P--GVPKVLVGNRLHLAFNRTVTTR  200 (432)
Q Consensus       139 ~l~~~~~~---------~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~-~--~iPiILVgNK~DL~~~r~v~~e  200 (432)
                      .....+++         ++|++|+|+|+++.. +... ..|+..+.... .  ..|+++|+||+|+...+....+
T Consensus        99 ~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~e  172 (262)
T 3def_A           99 YVNHQALELIKGFLVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSYE  172 (262)
T ss_dssp             EECHHHHHHHHHHTTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCHH
T ss_pred             cchHHHHHHHHHHHhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccHH
Confidence            65544443         789999999998765 5544 57888877654 2  2499999999999654444444

>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=99.56  E-value=3.4e-15  Score=152.93  Aligned_cols=170  Identities=14%  Similarity=0.188  Sum_probs=88.7

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      -.+..++|+|+|++|||||||++.| .+..++.....+.. .....+++     .+.....+..++....+.+|||+|..
T Consensus        27 l~~vsf~I~lvG~sGaGKSTLln~L-~g~~~~~~~~~~~~-~~~~~t~~-----~~~i~~v~q~~~~~~~Ltv~Dt~g~~   99 (418)
T 2qag_C           27 KRGFEFTLMVVGESGLGKSTLINSL-FLTDLYSPEYPGPS-HRIKKTVQ-----VEQSKVLIKEGGVQLLLTIVDTPGFG   99 (418)
T ss_dssp             C-CCCEEEEEECCTTSSHHHHHHHH-TTCCCCCCCCCSCC------CCE-----EEEEECC------CEEEEEEECC---
T ss_pred             ecCCCEEEEEECCCCCcHHHHHHHH-hCCCCCCCCCCCcc-cCCcccee-----eeeEEEEEecCCcccceeeeechhhh
Confidence            3456689999999999999999997 33333211010000 00001110     11111222234445689999999986


Q ss_pred             ccc-------h------------------hhhhcccCceEEEEEEeCCCC-CChhhHH-HHHHHHHhhCCCCcEEEEEEC
Q psy3450         136 RFC-------T------------------IIRSYSRGAQGILLVYDITNK-WSFDGID-RWLKEVEEHAPGVPKVLVGNR  188 (432)
Q Consensus       136 ~~~-------~------------------l~~~~~~~ad~iIlV~Dvt~~-~Sf~~l~-~~l~~i~~~~~~iPiILVgNK  188 (432)
                      .+.       .                  +...++.++++.+++|+.... .+++.+. .|+..+.   .++|+|+|+||
T Consensus       100 ~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~---~~v~iIlVinK  176 (418)
T 2qag_C          100 DAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH---EKVNIIPLIAK  176 (418)
T ss_dssp             --------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT---TTSEEEEEEES
T ss_pred             hhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh---ccCcEEEEEEc
Confidence            531       1                  123455677776666666543 4677764 6777664   36899999999


Q ss_pred             ccCCCCcccCH--HHHHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         189 LHLAFNRTVTT--REAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       189 ~DL~~~r~v~~--ee~~~~a~~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +|+...+++..  +++.+++..++++++++||+++.+++++|..+...+
T Consensus       177 ~Dll~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          177 ADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             TTSSCHHHHHHHHHHHHHHHHHHTCCCCCCC-----------------C
T ss_pred             ccCccHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            99976665554  677788888899999999999999999888877654

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.54  E-value=2.1e-14  Score=155.46  Aligned_cols=130  Identities=19%  Similarity=0.240  Sum_probs=82.6

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCc-c--cccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFP-R--FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~-~--~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      +...+|+|+|+.|+|||||+++|....... .  ...++.......+.  .....+.+......+....+.++||||+|+
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~--e~~~giti~~~~~~~~~~~~~~nliDTpG~   84 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPE--AKLHRTTVRTGVAPLLFRGHRVFLLDAPGY   84 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHH--HHHTTSCCSCEEEEEEETTEEEEEEECCCS
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHH--HHhcCCeEEecceEEeeCCEEEEEEeCCCc
Confidence            345789999999999999999984211110 0  00000000000000  000011222233333333578899999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      ++|......+++.+|++++|+|+++...... ..|+..+...  ++|+++|+||+|+.
T Consensus        85 ~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~~--~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           85 GDFVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAERL--GLPRMVVVTKLDKG  139 (665)
T ss_dssp             GGGHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHHT--TCCEEEEEECGGGC
T ss_pred             cchHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHHc--cCCEEEEecCCchh
Confidence            9998888899999999999999987755443 4555555543  58999999999986

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.54  E-value=3.4e-14  Score=136.85  Aligned_cols=127  Identities=16%  Similarity=0.138  Sum_probs=82.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+++|.+|+|||||+|+|+. ..+...          ....+   ++.+.....+..++  ..+.||||||++++
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~-~~~~~~----------~~~~~---~t~~~~~~~~~~~~--~~l~iiDTpG~~~~  100 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIG-ERVVSI----------SPFQS---EGPRPVMVSRSRAG--FTLNIIDTPGLIEG  100 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHT-SCCSCC----------CSSSC---CCSSCEEEEEEETT--EEEEEEECCCSEET
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhC-CCcccc----------cCCCC---cceeeEEEEEeeCC--eEEEEEECCCCCCC
Confidence            3468999999999999999999843 222110          01111   11122233333444  67899999999776


Q ss_pred             chhhh-------hc--ccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCC-C--CcEEEEEECccCCCCcccCHHH
Q psy3450         138 CTIIR-------SY--SRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAP-G--VPKVLVGNRLHLAFNRTVTTRE  201 (432)
Q Consensus       138 ~~l~~-------~~--~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~-~--iPiILVgNK~DL~~~r~v~~ee  201 (432)
                      ..+..       .+  .+.+|++|+|+|++.. ++... ..|+..+.+... +  .|+++|+||+|+...+....++
T Consensus       101 ~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~~~  176 (270)
T 1h65_A          101 GYINDMALNIIKSFLLDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDE  176 (270)
T ss_dssp             TEECHHHHHHHHHHTTTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCHHH
T ss_pred             ccchHHHHHHHHHHhhcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCCHHH
Confidence            53322       12  3479999999999764 46554 578888876532 2  6999999999997655444443

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.52  E-value=7.1e-14  Score=151.91  Aligned_cols=132  Identities=16%  Similarity=0.234  Sum_probs=85.3

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcC-CCCccc-ccCC-CCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRF-WLDG-SSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~-~~~~-~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .+...+|+|+|.+|+|||||+++|... ..+... ..+. ...............|+......+..++  +.++||||||
T Consensus         9 ~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~--~~i~liDTPG   86 (691)
T 1dar_A            9 LKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDTPG   86 (691)
T ss_dssp             GGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETT--EEEEEECCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECC--eEEEEEECcC
Confidence            456789999999999999999998421 111000 0000 0000000000001122333344444554  6789999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      +.+|...+..+++.+|++|+|+|+++..+++....|.. +..  .++|+++|+||+|+..
T Consensus        87 ~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~--~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           87 HVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK--YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             STTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH--TTCCEEEEEECTTSTT
T ss_pred             ccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH--cCCCEEEEEECCCccc
Confidence            99999989999999999999999999988887776654 333  3589999999999854

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.49  E-value=1.3e-13  Score=145.51  Aligned_cols=128  Identities=15%  Similarity=0.129  Sum_probs=79.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcccc--cCC----CCcCc---cccCCCccccccceeEEEEEECCeEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW--LDG----SSESP---FCSGSGKYDDMLAYKTTTILLDGKRVKLQ  127 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~--~~~----~~~~~---~~~~ig~~~~tid~~~~~i~i~~~~v~l~  127 (432)
                      ....+|+++|.+|+|||||+++|... ..+....  ...    .....   .....|   .++......+..++  +.+.
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rG---iTi~~~~~~~~~~~--~~i~   85 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRG---ISITTSVMQFPYHD--CLVN   85 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC----------------------------------CCTTEEEEEETT--EEEE
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCC---cceeeeEEEEEECC--eEEE
Confidence            35689999999999999999998432 1111000  000    00000   000111   12233333444444  6789


Q ss_pred             EEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         128 LWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       128 i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      ||||||+++|......+++.+|++|+|+|+++...... ..++..+..  .++|+++|+||+|+..
T Consensus        86 liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~~~--~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           86 LLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVTRL--RDTPILTFMNKLDRDI  148 (529)
T ss_dssp             EECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHHTT--TTCCEEEEEECTTSCC
T ss_pred             EEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHHHH--cCCCEEEEEcCcCCcc
Confidence            99999999998888889999999999999998653222 333333322  3689999999999854

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.49  E-value=4.1e-13  Score=145.99  Aligned_cols=132  Identities=17%  Similarity=0.232  Sum_probs=85.6

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcC-CCCcccc-c-CCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW-L-DGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~-~-~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      .+...+|+|+|.+|+|||||+++|... ..+.... . ++.....+.+.......|+......+.+++  +.++||||||
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~--~~i~liDTPG   84 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEG--HRVNIIDTPG   84 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETT--EEEEEECCCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECC--eeEEEEECcC
Confidence            345789999999999999999998421 1111000 0 000000000000001122333344455554  6789999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      +.+|......+++.+|++|+|+|+++..+++....|.. +...  ++|+++|+||+|+..
T Consensus        85 ~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~~--~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           85 HVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATTY--GVPRIVFVNKMDKLG  141 (693)
T ss_dssp             CSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHHT--TCCEEEEEECTTSTT
T ss_pred             CcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHHc--CCCEEEEEECCCccc
Confidence            99998888899999999999999999888877766654 4433  589999999999854

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.46  E-value=6.7e-16  Score=143.72  Aligned_cols=58  Identities=12%  Similarity=0.050  Sum_probs=48.2

Q ss_pred             CcEEEEEECccCCCCcccCHHHHHHHHHhc--CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKN--QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       180 iPiILVgNK~DL~~~r~v~~ee~~~~a~~~--~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .|.++|+||+|+.+++.+..+++.++++.+  +++++++||++|.|++++|++|.+.+..
T Consensus       165 ~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          165 TADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cCCEEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            688999999999654446677777777764  5799999999999999999999987743

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.45  E-value=5.3e-14  Score=130.38  Aligned_cols=104  Identities=13%  Similarity=0.054  Sum_probs=72.1

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +.+.+|||+|+-....   .+....+.+++|+|+++...  ....+...+     +.|+++|+||+|+...+....+++.
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~--~~~~~~~~~-----~~~~iiv~NK~Dl~~~~~~~~~~~~  178 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDD--VVEKHPEIF-----RVADLIVINKVALAEAVGADVEKMK  178 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTT--HHHHCHHHH-----HTCSEEEEECGGGHHHHTCCHHHHH
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcch--hhhhhhhhh-----hcCCEEEEecccCCcchhhHHHHHH
Confidence            5679999999511110   11235788999999987642  222222221     3689999999998643334566676


Q ss_pred             HHHHhc--CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         204 MYAIKN--QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       204 ~~a~~~--~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++..  +++++++||++|.|++++|++|.+.+..
T Consensus       179 ~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          179 ADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             HHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC-
T ss_pred             HHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            666654  4689999999999999999999988754

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.45  E-value=9.2e-13  Score=143.39  Aligned_cols=133  Identities=14%  Similarity=0.165  Sum_probs=85.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcccc-cC-CCCcCccccCCCccccccceeEEEEEEC-----CeEEEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW-LD-GSSESPFCSGSGKYDDMLAYKTTTILLD-----GKRVKLQLW  129 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~-~~-~~~~~~~~~~ig~~~~tid~~~~~i~i~-----~~~v~l~i~  129 (432)
                      +...+|+|+|..|+|||||+++|... +.+.... .+ +.......+.......|+......+.++     +..+.++||
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~li   87 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINII   87 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEE
Confidence            45689999999999999999998432 2221100 00 0000000000000011223333333333     345889999


Q ss_pred             eCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         130 DTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       130 Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      ||||+.+|...+..+++.+|++|+|+|+++....+....|.. +..  .++|+++|+||+|+..
T Consensus        88 DTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~~--~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           88 DTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-ANK--YKVPRIAFVNKMDRMG  148 (704)
T ss_pred             eCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HHH--cCCCEEEEEeCCCccc
Confidence            999999998888899999999999999998876665555533 332  3589999999999853

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.43  E-value=1.5e-14  Score=144.95  Aligned_cols=108  Identities=16%  Similarity=0.139  Sum_probs=66.1

Q ss_pred             EEEEEEeCCCCc-------------ccchhhhhcccCceEEEE-EEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECc
Q psy3450         124 VKLQLWDTSGQG-------------RFCTIIRSYSRGAQGILL-VYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRL  189 (432)
Q Consensus       124 v~l~i~Dt~G~e-------------~~~~l~~~~~~~ad~iIl-V~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~  189 (432)
                      ..+.||||||..             .+..+...|+++++.+|+ |.|.+....-.+...++..+..  .+.|+++|+||+
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~--~~~~~i~V~NK~  207 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDP--QGQRTIGVITKL  207 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCT--TCTTEEEEEECG
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCc--CCCceEEEeccc
Confidence            568999999963             344566677766655554 5565542221222233333322  468999999999


Q ss_pred             cCCCCcccCHHHHHH--HHHhcC-CcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         190 HLAFNRTVTTREAEM--YAIKNQ-MAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       190 DL~~~r~v~~ee~~~--~a~~~~-~~~~evSAktg~nI~elf~~L~~  233 (432)
                      |+.++.....+..+.  +....+ .+++++||+++.|++++++.+.+
T Consensus       208 Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          208 DLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             GGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             cccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            997544322221111  000123 25788999999999999999976

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.40  E-value=7.2e-14  Score=148.05  Aligned_cols=67  Identities=18%  Similarity=0.227  Sum_probs=54.1

Q ss_pred             EEEEEeCCCCcc-----------cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         125 KLQLWDTSGQGR-----------FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       125 ~l~i~Dt~G~e~-----------~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      ++.||||||...           |......+++++|++|+|+|+++....+....|+..+...  +.|+++|+||+|+..
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~--~~pvilVlNK~Dl~~  232 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGH--EDKIRVVLNKADMVE  232 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTC--GGGEEEEEECGGGSC
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhc--CCCEEEEEECCCccC
Confidence            589999999865           4456667889999999999999876667777787776543  479999999999864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.37  E-value=1.1e-12  Score=128.83  Aligned_cols=97  Identities=18%  Similarity=0.059  Sum_probs=82.7

Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC-HHHHHHHHHhcCC
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT-TREAEMYAIKNQM  211 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~-~ee~~~~a~~~~~  211 (432)
                      ++++..+.+.+++++|++|+|||++++. +++.+.+|+..+..  .++|++||+||+||.+++++. .++..++++..++
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~--~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g~  143 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY--FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAGY  143 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH--TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTTC
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh--CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCCC
Confidence            6788888889999999999999999986 89989999987765  468999999999997644333 4556677777889


Q ss_pred             cEEEEcCCCCCCHHHHHHHHH
Q psy3450         212 AFFEVSPLCDFNIRESFTELS  232 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~  232 (432)
                      +++++||++|.|++++|+.+.
T Consensus       144 ~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          144 DVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             EEEECCTTTCTTHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHhhcc
Confidence            999999999999999998765

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.36  E-value=3.4e-12  Score=128.25  Aligned_cols=145  Identities=17%  Similarity=0.112  Sum_probs=90.7

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe---------------EEE
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK---------------RVK  125 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~---------------~v~  125 (432)
                      +||+++|.+|||||||+|++.... +.......       .+       ++.....+.+++.               ...
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~-~~v~~~p~-------tT-------i~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~   67 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAG-IEAANYPF-------CT-------IEPNTGVVPMPDPRLDALAEIVKPERILPTT   67 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC-------CC-------CC-------CCCCSSEEECCCHHHHHHHHHHCCSEEECCE
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC-CcccCCCC-------ce-------ECceEEEEecCCcccceeeeeecccceeeeE
Confidence            689999999999999999984332 21100000       01       1111112333332               156


Q ss_pred             EEEEeCCCCcccc----hhhhh---cccCceEEEEEEeCCCC----------CChhhHHHHHHHH---------------
Q psy3450         126 LQLWDTSGQGRFC----TIIRS---YSRGAQGILLVYDITNK----------WSFDGIDRWLKEV---------------  173 (432)
Q Consensus       126 l~i~Dt~G~e~~~----~l~~~---~~~~ad~iIlV~Dvt~~----------~Sf~~l~~~l~~i---------------  173 (432)
                      +++|||||+.++.    .+.+.   +++++|++++|+|+++.          +.++++..|..++               
T Consensus        68 i~lvDtpGl~~~a~~~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~  147 (363)
T 1jal_A           68 MEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRL  147 (363)
T ss_dssp             EEEEECCSCCTTHHHHGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCcccccccchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHH
Confidence            8999999998763    33333   47899999999999862          3444443322222               


Q ss_pred             -------------------------Hh-------------------h--CCCCcEEEEEECccCCCCcccCHHHHHHHHH
Q psy3450         174 -------------------------EE-------------------H--APGVPKVLVGNRLHLAFNRTVTTREAEMYAI  207 (432)
Q Consensus       174 -------------------------~~-------------------~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~  207 (432)
                                               .+                   .  ....|+++|+||.|.........+.+.+++.
T Consensus       148 ~k~~k~g~~~~~~~~~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~  227 (363)
T 1jal_A          148 QKRAKGGDKEAKFELSVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAA  227 (363)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHH
T ss_pred             HHHhhccchhHHHHHHHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHH
Confidence                                     10                   0  0238999999999964322334566778888


Q ss_pred             hcCCcEEEEcCCC
Q psy3450         208 KNQMAFFEVSPLC  220 (432)
Q Consensus       208 ~~~~~~~evSAkt  220 (432)
                      ..+.+++++||+.
T Consensus       228 ~~~~~~i~~sA~~  240 (363)
T 1jal_A          228 KEGAVVVPVCAAI  240 (363)
T ss_dssp             HTTCEEEEECHHH
T ss_pred             HcCCCEEEechHH
Confidence            8899999999874

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.35  E-value=1.9e-13  Score=137.06  Aligned_cols=104  Identities=13%  Similarity=0.130  Sum_probs=70.6

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC--HHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT--TRE  201 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~--~ee  201 (432)
                      +.+.||||+|...   .....+..+|++|+|+|.+..+.++.+..++       .+.|+++|+||+|+.......  .++
T Consensus       172 ~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~~~-------~~~p~ivVlNK~Dl~~~~~~~~~~~~  241 (355)
T 3p32_A          172 FDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKKGV-------LELADIVVVNKADGEHHKEARLAARE  241 (355)
T ss_dssp             CCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCTTS-------GGGCSEEEEECCCGGGHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHHhH-------hhcCCEEEEECCCCcChhHHHHHHHH
Confidence            5689999999543   2223458899999999987765554433211       235899999999985322211  111


Q ss_pred             HHHHHH-------hcCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         202 AEMYAI-------KNQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       202 ~~~~a~-------~~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ......       .++.+++++||++|.||++++++|.+.+..
T Consensus       242 l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          242 LSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            111111       125789999999999999999999988754

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.33  E-value=5.2e-12  Score=140.03  Aligned_cols=132  Identities=15%  Similarity=0.167  Sum_probs=86.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcC-ccccCCCccccccceeEEEEEE--------------CCe
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSES-PFCSGSGKYDDMLAYKTTTILL--------------DGK  122 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~-~~~~~ig~~~~tid~~~~~i~i--------------~~~  122 (432)
                      +...||+|+|..|+|||||+++|+...........+.... ...+.......|+......+.+              ++.
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   96 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCC
Confidence            4568999999999999999999843211110000000000 0000000000112222222222              445


Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      .+.++||||||+.+|...+..+++.+|++|+|||+++..+++....|.....   .++|+++|+||+|+.
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~---~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG---ERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH---TTCEEEEEEECHHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH---cCCCeEEEEECCCcc
Confidence            7889999999999999999999999999999999999999988776765433   358999999999985

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.32  E-value=5.9e-13  Score=144.90  Aligned_cols=144  Identities=13%  Similarity=0.057  Sum_probs=94.8

Q ss_pred             EEEEEeCCCCcc-------------cchhhhhcc-cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         125 KLQLWDTSGQGR-------------FCTIIRSYS-RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       125 ~l~i~Dt~G~e~-------------~~~l~~~~~-~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      ++.|+||||...             ...+...|+ ..+|++++|+|+++...-.+...++..+..  .+.|+|+|.||+|
T Consensus       151 qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~--~g~pvIlVlNKiD  228 (772)
T 3zvr_A          151 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP--QGQRTIGVITKLD  228 (772)
T ss_dssp             SEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCT--TCSSEEEEEECTT
T ss_pred             ceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHh--cCCCEEEEEeCcc
Confidence            578999999643             122334454 578999999999876554443345555443  3589999999999


Q ss_pred             CCCCcccCHHHHHHHHHh----cC-CcEEEEcCCCCCCHHHHHHHHHHH--HhhhcCCcccccccCCCCCCCcCCCCchh
Q psy3450         191 LAFNRTVTTREAEMYAIK----NQ-MAFFEVSPLCDFNIRESFTELSRR--ALQRNGMERLWRSNKVGRKPLINFESFTE  263 (432)
Q Consensus       191 L~~~r~v~~ee~~~~a~~----~~-~~~~evSAktg~nI~elf~~L~~~--i~~~~~~~~~~~~~~~~~~~~~~~~s~~~  263 (432)
                      +.++.....+ ... .+.    .+ .+++.+||++|.|++++++.+.+.  .+...              |.+  +.+++
T Consensus       229 lv~~~~~~~~-il~-~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e~~ffpe~--------------P~y--d~ltD  290 (772)
T 3zvr_A          229 LMDEGTDARD-VLE-NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAERKFFLSH--------------PSY--RHLAD  290 (772)
T ss_dssp             SSCTTCCSHH-HHT-TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHHHHHHHHC--------------TTT--GGGGG
T ss_pred             cCCcchhhHH-HHH-HHhhhhhccCCceEEecccccccchhHHHHHHHHHHhccCC--------------cch--hhhhh
Confidence            9764433222 111 111    12 256789999999999999998874  22111              111  23344


Q ss_pred             HHHHHHHhcccccccccCCCceeEEEEEEeeccccCCcccccccccccc
Q psy3450         264 LSRRALQRNGMERLWRSNKGKHLLTYFQYCFAGLVRPSVDVNKNKYNLL  312 (432)
Q Consensus       264 ~~~r~l~~~~l~r~~~~~~Gk~~~~y~~~~~~~~~~~~~~~~~~~~~~~  312 (432)
                      +..++.                        .++++|++++..+.+|+||
T Consensus       291 r~g~~~------------------------LaEiLrEkL~~hi~~ELP~  315 (772)
T 3zvr_A          291 RMGTPY------------------------LQKVLNQQLTNHIRDTLPG  315 (772)
T ss_dssp             GCSHHH------------------------HHHHHHHHHHHHHHHHHHH
T ss_pred             cccHHH------------------------HHHHHHHHHHHHHHhhCcc
Confidence            444444                        6789999999999999999

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.32  E-value=7.4e-12  Score=118.96  Aligned_cols=111  Identities=10%  Similarity=-0.099  Sum_probs=71.5

Q ss_pred             EEEEEEeCCCCcccchhhh------hcccCceEEEEEEeCCCCCChhhHHHHHHHH-H-hhCCCCcEEEEEECccCCCCc
Q psy3450         124 VKLQLWDTSGQGRFCTIIR------SYSRGAQGILLVYDITNKWSFDGIDRWLKEV-E-EHAPGVPKVLVGNRLHLAFNR  195 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~------~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i-~-~~~~~iPiILVgNK~DL~~~r  195 (432)
                      +.+.||||+|+.++.....      ..+.+ +++|+++|.....+..+........ . ....+.|+++|+||+|+...+
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~~  187 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  187 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEecccccccc
Confidence            5789999999976543322      24466 8999999987654443332211111 1 111358999999999986533


Q ss_pred             ccCHHHHHH----------------------------HHHhcC--CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         196 TVTTREAEM----------------------------YAIKNQ--MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       196 ~v~~ee~~~----------------------------~a~~~~--~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++  +++.+                            ++++++  .+++++||++|.|+++++++|.+.+..
T Consensus       188 ~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          188 EK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             HH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence            21  11111                            123333  489999999999999999999887743

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.26  E-value=8.8e-12  Score=125.65  Aligned_cols=158  Identities=15%  Similarity=0.126  Sum_probs=96.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECC-------------------
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG-------------------  121 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~-------------------  121 (432)
                      ++|+++|.+|||||||+|++.........+    .           .+|++.....+.+.+                   
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~----p-----------~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~   66 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANY----P-----------FATIDKNVGVVPLEDERLYALQRTFAKGERVPPV   66 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSC----C-----------GGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCE
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCC----C-----------CceeccceeeEecChHHHHHHHHHhccccccccc
Confidence            579999999999999999983321100000    0           001111111122221                   


Q ss_pred             eEEEEEEEeCCCCcccc----hhhh---hcccCceEEEEEEeCCCC----------CChhhHHHHHHHH-----------
Q psy3450         122 KRVKLQLWDTSGQGRFC----TIIR---SYSRGAQGILLVYDITNK----------WSFDGIDRWLKEV-----------  173 (432)
Q Consensus       122 ~~v~l~i~Dt~G~e~~~----~l~~---~~~~~ad~iIlV~Dvt~~----------~Sf~~l~~~l~~i-----------  173 (432)
                      ....+++|||||+.++.    .+.+   .+++.+|++++|+|+++.          +.+.++..+..++           
T Consensus        67 ~~~~i~lvDtpGl~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~  146 (368)
T 2dby_A           67 VPTHVEFVDIAGLVKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERR  146 (368)
T ss_dssp             ECCEEEEEECCSCCCCCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccccccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHH
Confidence            23568999999987653    2322   357899999999999862          2333332211111           


Q ss_pred             ----------------------------Hh-------------------h--CCCCcEEEEEECccCC--CC-cccCHHH
Q psy3450         174 ----------------------------EE-------------------H--APGVPKVLVGNRLHLA--FN-RTVTTRE  201 (432)
Q Consensus       174 ----------------------------~~-------------------~--~~~iPiILVgNK~DL~--~~-r~v~~ee  201 (432)
                                                  ..                   .  ....|+++|+||.|..  +. +....+.
T Consensus       147 ~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~  226 (368)
T 2dby_A          147 LERLRKEARADRERLPLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEA  226 (368)
T ss_dssp             HHHHHHHHHHCGGGHHHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHH
T ss_pred             HHHHHhhhccchhHHHHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHH
Confidence                                        00                   0  0137999999999842  21 1344667


Q ss_pred             HHHHHHhcCCcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         202 AEMYAIKNQMAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       202 ~~~~a~~~~~~~~evSAktg~nI~elf~~L~~  233 (432)
                      +.++++..+++++++||+.+.++.++++.-..
T Consensus       227 v~~~a~~~g~~vv~iSAk~E~el~eL~~~~~~  258 (368)
T 2dby_A          227 VRRKALEEGAEVVVVSARLEAELAELSGEEAR  258 (368)
T ss_dssp             HHHHHHHHTCEEEEECHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHcCCeEEEeechhHHHHHHhchHHHH
Confidence            78888888999999999988777777665433

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.21  E-value=9.8e-12  Score=124.47  Aligned_cols=101  Identities=13%  Similarity=0.106  Sum_probs=61.7

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +.+.|+||+|....   .......+|++++|+|+++....+.+..   .+    -+.|.++|+||+|+.+.... .....
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i----l~~~~ivVlNK~Dl~~~~~~-~~~~~  235 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI----IEMADLVAVTKSDGDLIVPA-RRIQA  235 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC-------------------CCSCSEEEECCCSGGGHHHH-HHHHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH----HhcCCEEEEeeecCCCchhH-HHHHH
Confidence            46799999996321   2334678999999999987643322221   11    23588999999998531110 01111


Q ss_pred             HHHH----------hcCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         204 MYAI----------KNQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       204 ~~a~----------~~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+..          .++.+++.+||++|.|+++++++|.+.+
T Consensus       236 ~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~  277 (349)
T 2www_A          236 EYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQ  277 (349)
T ss_dssp             HHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHH
Confidence            2211          1245789999999999999999998876

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.15  E-value=5.8e-12  Score=125.68  Aligned_cols=103  Identities=17%  Similarity=0.067  Sum_probs=65.8

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH--HH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT--RE  201 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~--ee  201 (432)
                      +.+.||||+|......   ...+.+|++|+|+|.++.+.++.+...   ..    +.|.++|+||+|+........  ++
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~~---~~----~~p~ivv~NK~Dl~~~~~~~~~~~~  218 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKKG---LM----EVADLIVINKDDGDNHTNVAIARHM  218 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCHH---HH----HHCSEEEECCCCTTCHHHHHHHHHH
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHHh---hh----cccCEEEEECCCCCChHHHHHHHHH
Confidence            5689999999754432   245899999999998765443322211   11    258899999999864322111  12


Q ss_pred             HHHHHHhc-------CCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         202 AEMYAIKN-------QMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       202 ~~~~a~~~-------~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ........       ..+++++||++|.|++++++.|.+.+.
T Consensus       219 l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          219 YESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            22222222       357899999999999999999998764

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.07  E-value=1.1e-09  Score=115.90  Aligned_cols=123  Identities=14%  Similarity=0.058  Sum_probs=82.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcC-CCCcc-------------cccCCCCcCccccCCCccccccceeEEEEEECCeE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLE-SRFPR-------------FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKR  123 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~-------------~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~  123 (432)
                      ...=+|+|+|..++|||||..+|+.. +.+..             .......+.....       ||......+.+++  
T Consensus        29 ~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGI-------TI~s~~~~~~~~~--   99 (548)
T 3vqt_A           29 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGI-------SVTTSVMQFPYRD--   99 (548)
T ss_dssp             HTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC---------------------------CTTTEEEEEETT--
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCC-------cEeeceEEEEECC--
Confidence            34568999999999999999998321 11100             0000011111112       2344455566666  


Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      +.++|+||||+.+|..-....++-+|++|+|+|+...-.-+...-|.. ..++  ++|++++.||+|..
T Consensus       100 ~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~-a~~~--~lp~i~fINK~Dr~  165 (548)
T 3vqt_A          100 RVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDV-CRMR--ATPVMTFVNKMDRE  165 (548)
T ss_dssp             EEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHH-HHHT--TCCEEEEEECTTSC
T ss_pred             EEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHH-HHHh--CCceEEEEecccch
Confidence            668999999999999888899999999999999998765555555643 3433  58999999999974

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.02  E-value=3.5e-09  Score=106.81  Aligned_cols=153  Identities=16%  Similarity=0.105  Sum_probs=96.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      .-..+|.+||.||||||||+|+|.........               ...+|++.....+.+++.  +++|+||||..+-
T Consensus        70 ~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~---------------~pftT~~~~~g~~~~~~~--~i~l~D~pGl~~~  132 (376)
T 4a9a_A           70 TGVASVGFVGFPSVGKSTLLSKLTGTESEAAE---------------YEFTTLVTVPGVIRYKGA--KIQMLDLPGIIDG  132 (376)
T ss_dssp             CSSEEEEEECCCCHHHHHHHHHHHSBCCCGGG---------------TCSSCCCEEEEEEEETTE--EEEEEECGGGCCC
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhCCCCcccC---------------CCCceeeeeeEEEEeCCc--EEEEEeCCCccCC
Confidence            34568999999999999999998322211111               112345666667778774  5689999996432


Q ss_pred             ----chhhh---hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCC--------CcccCH
Q psy3450         138 ----CTIIR---SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAF--------NRTVTT  199 (432)
Q Consensus       138 ----~~l~~---~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~--------~r~v~~  199 (432)
                          ..+.+   ..++.+|++++|+|++++  ..+...+..++....   .+.|.+++.||.|...        ......
T Consensus       133 a~~~~~~g~~~l~~i~~ad~il~vvD~~~p--~~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~  210 (376)
T 4a9a_A          133 AKDGRGRGKQVIAVARTCNLLFIILDVNKP--LHHKQIIEKELEGVGIRLNKTPPDILIKKKEKGGISITNTVPLTHLGN  210 (376)
T ss_dssp             -----CHHHHHHHHHHHCSEEEEEEETTSH--HHHHHHHHHHHHHTTEEETCCCCCEEEEECSSSCEEEEESSCCSSCCH
T ss_pred             chhhhHHHHHHHHHHHhcCccccccccCcc--HHHHHHHHHHHHHhhHhhccCChhhhhhHhhhhhhhhhcchhhhhccH
Confidence                11222   345889999999999886  334444444454433   4578899999999632        233556


Q ss_pred             HHHHHHHHhcCCcEEEEcCCCCCCHHHHHH
Q psy3450         200 REAEMYAIKNQMAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       200 ee~~~~a~~~~~~~~evSAktg~nI~elf~  229 (432)
                      ++...+...+.+.--++--..+...+++.+
T Consensus       211 eeik~il~~~~lt~kpv~~~~nv~eddl~d  240 (376)
T 4a9a_A          211 DEIRAVMSEYRINSAEIAFRCDATVDDLID  240 (376)
T ss_dssp             HHHHHHHHHTTCCSEEEEECSCCCHHHHHH
T ss_pred             HHHHHHHHHhcccCCCeeecccCCHHHHHH
Confidence            666666666655333333334556666554

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.02  E-value=3.9e-10  Score=112.31  Aligned_cols=102  Identities=13%  Similarity=0.102  Sum_probs=63.4

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +.+.|+||+|...-.   ......+|.+++|+|....+..+.+..++   .+    .|.++|.||+|+...........+
T Consensus       148 ~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~i---~~----~~~ivvlNK~Dl~~~~~~s~~~~~  217 (337)
T 2qm8_A          148 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGI---FE----LADMIAVNKADDGDGERRASAAAS  217 (337)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTH---HH----HCSEEEEECCSTTCCHHHHHHHHH
T ss_pred             CCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHHH---hc----cccEEEEEchhccCchhHHHHHHH
Confidence            567999999975321   12347899999999986543222121111   11    356777899997432222222223


Q ss_pred             HHHHh----------cCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         204 MYAIK----------NQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       204 ~~a~~----------~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++...          +..+++.+||+++.|++++++.|.+..
T Consensus       218 ~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~  259 (337)
T 2qm8_A          218 EYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  259 (337)
T ss_dssp             HHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHH
Confidence            33221          135789999999999999999998865

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=98.95  E-value=6e-10  Score=103.12  Aligned_cols=104  Identities=5%  Similarity=-0.018  Sum_probs=70.6

Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHH----Hhh--CCCCcEEEEEECc-cCCCCcccCHHHHH
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV----EEH--APGVPKVLVGNRL-HLAFNRTVTTREAE  203 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i----~~~--~~~iPiILVgNK~-DL~~~r~v~~ee~~  203 (432)
                      .+||+.++.+|+.||+++|++|+|+|.+|.+-++ .+.-+.++    .+.  ..++|++|.+||. |+.  ...+..++.
T Consensus       109 ~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp--~Ams~~EI~  185 (227)
T 3l82_B          109 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYLA  185 (227)
T ss_dssp             --------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTS--CBCCHHHHH
T ss_pred             cCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCcc--CCCCHHHHH
Confidence            4589999999999999999999999999987654 33333222    222  1578999999995 674  445555544


Q ss_pred             HHHH----hcCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         204 MYAI----KNQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       204 ~~a~----~~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +...    ...+.+..|||++|.|+.|-++||.+.+..
T Consensus       186 e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          186 HELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             HHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTT
T ss_pred             HHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHh
Confidence            3321    134578999999999999999999987744

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.90  E-value=9.9e-10  Score=118.31  Aligned_cols=122  Identities=14%  Similarity=0.220  Sum_probs=78.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhc-CCCCcccc--cCCCCcCc-----cccCCCccccccceeEEEEEECCeEEEEEEEeCC
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYL-ESRFPRFW--LDGSSESP-----FCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTS  132 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~-~~~~~~~~--~~~~~~~~-----~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~  132 (432)
                      -+|.|+|..++|||||..+|+. .+.+....  ..+.....     ...++     |+......+.++  .+.++|+|||
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGI-----TI~s~~~~~~~~--~~~iNlIDTP   75 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGI-----TIQTGITSFQWE--NTKVNIIDTP   75 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSS-----CSSCCCCCCBCS--SCBCCCEECC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCC-----cEEeeeEEEEEC--CEEEEEEECC
Confidence            3689999999999999999832 22221100  00000000     00111     122222223333  3668999999


Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      |+.+|.......++-+|++|+|+|+...-.-+...-|.. +.+.  ++|.|++.||+|..
T Consensus        76 GH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~-a~~~--~lp~i~~INKmDr~  132 (638)
T 3j25_A           76 GHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHA-LRKM--GIPTIFFINKIDQN  132 (638)
T ss_dssp             CSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHH-HHHH--TCSCEECCEECCSS
T ss_pred             CcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHH-HHHc--CCCeEEEEeccccc
Confidence            999999888889999999999999987654444444443 3433  48999999999974

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.79  E-value=3.6e-08  Score=107.36  Aligned_cols=132  Identities=15%  Similarity=0.212  Sum_probs=81.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCC-CCcc--cccCCCCcCccccCCCccccccceeEEEEEECC-----eEEEEEEE
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLES-RFPR--FWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG-----KRVKLQLW  129 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~-~~~~--~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~-----~~v~l~i~  129 (432)
                      +..-+|+|+|..+.|||||..+|+... ....  .-.++.......+..-...-|+......+.+.+     +.+.++++
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlI   90 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVI   90 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEE
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEE
Confidence            455689999999999999999983211 1000  000000000000000000112233344444432     36889999


Q ss_pred             eCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         130 DTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       130 Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      ||||+-+|..-....++-+|++|+|+|+...-.-+...-|....+.   ++|.+++.||+|..
T Consensus        91 DTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~---~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           91 DTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY---GVPRIVYVNKMDRQ  150 (709)
T ss_dssp             CCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH---TCCEEEEEECSSST
T ss_pred             eCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc---CCCeEEEEcccccc
Confidence            9999999998888899999999999999887655554555544443   48999999999974

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.79  E-value=6.9e-09  Score=104.49  Aligned_cols=97  Identities=18%  Similarity=0.213  Sum_probs=77.3

Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH----HHHh
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM----YAIK  208 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~----~a~~  208 (432)
                      ..++|..++..+++.++++|+|+|++++.     ..|..++.+...+.|+++|+||+||.+. ....++..+    ++++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~~~~p~ilV~NK~DL~~~-~~~~~~~~~~l~~~~~~  128 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFVGNNKVLLVGNKADLIPK-SVKHDKVKHWMRYSAKQ  128 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHSSSSCEEEEEECGGGSCT-TSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHhCCCcEEEEEEChhcCCc-ccCHHHHHHHHHHHHHH
Confidence            46789999999999999999999998742     5677777776668999999999999653 333444443    3566


Q ss_pred             cCC---cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         209 NQM---AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       209 ~~~---~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .++   +++++||++|.|++++++.+.+..
T Consensus       129 ~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          129 LGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             TTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            777   799999999999999999997654

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=98.77  E-value=6.3e-09  Score=100.71  Aligned_cols=106  Identities=6%  Similarity=0.002  Sum_probs=75.1

Q ss_pred             CCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHH---HHHHHhh--CCCCcEEEEEEC-ccCCCCcccCHHHHHH
Q psy3450         131 TSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW---LKEVEEH--APGVPKVLVGNR-LHLAFNRTVTTREAEM  204 (432)
Q Consensus       131 t~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~---l~~i~~~--~~~iPiILVgNK-~DL~~~r~v~~ee~~~  204 (432)
                      .+||+.++.+|+.|++++|++|+|+|.+|.+.++.-.+.   ...+.+.  ..++|++|.+|| .|+.  ...+..++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp--~Ams~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTS--CBCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCccccc--CCCCHHHHHH
Confidence            468999999999999999999999999998866522221   1222221  257999999997 5874  3455555443


Q ss_pred             HHH----hcCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         205 YAI----KNQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       205 ~a~----~~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ...    .....+..|||++|+|+.|-++||.+.+..+
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence            321    1335689999999999999999999988443

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=98.70  E-value=8.9e-08  Score=97.06  Aligned_cols=87  Identities=18%  Similarity=0.176  Sum_probs=54.4

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeE---------------
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKR---------------  123 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~---------------  123 (432)
                      ...+|.++|.+|||||||+|.+.. ......        ..     ...++++.....+.+++..               
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg-~~~a~~--------~~-----~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~   84 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITK-SVLGNP--------AN-----YPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVP   84 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHH-STTTST--------TC-----CSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEEC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHC-CCcccc--------cC-----CCceeecceeeeeeeCCcchhhhhhhcccccccC
Confidence            346899999999999999999833 221000        00     0011223444445555421               


Q ss_pred             EEEEEEeCCCCcc-------cchhhhhcccCceEEEEEEeCCC
Q psy3450         124 VKLQLWDTSGQGR-------FCTIIRSYSRGAQGILLVYDITN  159 (432)
Q Consensus       124 v~l~i~Dt~G~e~-------~~~l~~~~~~~ad~iIlV~Dvt~  159 (432)
                      ..+.+||++|...       +.......++.+|++++|+|+.+
T Consensus        85 ~~i~lvD~pGl~~~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           85 AFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             EEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cceEEEeccccccCCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3579999999543       22233445689999999999864

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.70  E-value=7.3e-09  Score=105.00  Aligned_cols=92  Identities=16%  Similarity=0.068  Sum_probs=49.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCe---------------E
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK---------------R  123 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~---------------~  123 (432)
                      ..++|+++|.+|||||||+|++. +..+...         .     ...+|++.....+.+++.               .
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Lt-g~~~~~~---------~-----~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~   85 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLT-NSQASAE---------N-----FPFCTIDPNESRVPVPDERFDFLCQYHKPASKIP   85 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHH-C---------------------------CCSEEEEECCCHHHHHHHHHHCCSEEEC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHH-CCCcccc---------C-----CCccccCceeEEEEECCccceeeccccCcccccc
Confidence            34789999999999999999982 2222100         0     001122333344444432               2


Q ss_pred             EEEEEEeCCCCcccch-------hhhhcccCceEEEEEEeCCCCCChhh
Q psy3450         124 VKLQLWDTSGQGRFCT-------IIRSYSRGAQGILLVYDITNKWSFDG  165 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~-------l~~~~~~~ad~iIlV~Dvt~~~Sf~~  165 (432)
                      ..+++|||||+.++..       .+..+++++|++++|+|+++.+++.+
T Consensus        86 ~~i~lvDtpGl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~i~~  134 (396)
T 2ohf_A           86 AFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDDITH  134 (396)
T ss_dssp             CEEEEEECCC-----------CCHHHHHHHTSSSEEEEEEC--------
T ss_pred             cccEEEECCCcccccchhhHHHHHHHHHHHhcCeEEEEEecCCCcchhh
Confidence            3589999999876543       34467899999999999987666544

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.66  E-value=1.6e-08  Score=101.83  Aligned_cols=97  Identities=15%  Similarity=0.190  Sum_probs=75.0

Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH----HHHh
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM----YAIK  208 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~----~a~~  208 (432)
                      .++.|..++..++++++++|+|+|++++.+     .|..++.+...+.|+++|+||+||.+. ....+...+    ++++
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l~~~piilV~NK~DLl~~-~~~~~~~~~~l~~~~~~  130 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFAADNPILLVGNKADLLPR-SVKYPKLLRWMRRMAEE  130 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHCTTSCEEEEEECGGGSCT-TCCHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHhCCCCEEEEEEChhcCCC-ccCHHHHHHHHHHHHHH
Confidence            588999999999999999999999998763     455555555567899999999999653 233344433    3556


Q ss_pred             cCC---cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         209 NQM---AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       209 ~~~---~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+.   .++.+||++|.|++++++.+.+..
T Consensus       131 ~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          131 LGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             TTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             cCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            676   789999999999999999987765

>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=98.37  E-value=6.6e-07  Score=86.73  Aligned_cols=99  Identities=9%  Similarity=0.011  Sum_probs=70.3

Q ss_pred             eCCCCc-ccchhhhhcccCceEEEEEEeCCCCCChhh--HHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         130 DTSGQG-RFCTIIRSYSRGAQGILLVYDITNKWSFDG--IDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       130 Dt~G~e-~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~--l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                      +.||+. +........++.+|++++|+|+.++.+..+  +.+|+       .+.|+++|.||+||.+...  .+...++.
T Consensus         5 w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l-------~~kp~ilVlNK~DL~~~~~--~~~~~~~~   75 (282)
T 1puj_A            5 WFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL-------KNKPRIMLLNKADKADAAV--TQQWKEHF   75 (282)
T ss_dssp             ----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC-------SSSCEEEEEECGGGSCHHH--HHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH-------CCCCEEEEEECcccCCHHH--HHHHHHHH
Confidence            456764 344445567899999999999999987753  44443       4689999999999965211  12233444


Q ss_pred             HhcCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         207 IKNQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       207 ~~~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++.+++++.+||+++.|++++++.+.+.+..
T Consensus        76 ~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           76 ENQGIRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             HTTTCCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             HhcCCcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            5567899999999999999999988877653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.27  E-value=1e-06  Score=92.00  Aligned_cols=101  Identities=14%  Similarity=0.118  Sum_probs=61.7

Q ss_pred             EEEEEEeCCCCcccc-hhhhh---c--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcE-EEEEECccCCCCcc
Q psy3450         124 VKLQLWDTSGQGRFC-TIIRS---Y--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK-VLVGNRLHLAFNRT  196 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~-~l~~~---~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPi-ILVgNK~DL~~~r~  196 (432)
                      +.+.|+||+|..... .+...   .  ...+|.+++|+|.+....  . ......+.+.   +|+ ++|.||+|......
T Consensus       184 ~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~--~-~~~a~~~~~~---~~i~gvVlNK~D~~~~~g  257 (504)
T 2j37_W          184 FEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQA--C-EAQAKAFKDK---VDVASVIVTKLDGHAKGG  257 (504)
T ss_dssp             CCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTT--H-HHHHHHHHHH---HCCCCEEEECTTSCCCCT
T ss_pred             CcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEecccccc--H-HHHHHHHHhh---cCceEEEEeCCccccchH
Confidence            568999999975322 11111   1  126899999999987543  2 2223333332   575 89999999853221


Q ss_pred             cCHHHHHHHHHhcCCcE------------------EEEcCCCCCC-HHHHHHHHHHH
Q psy3450         197 VTTREAEMYAIKNQMAF------------------FEVSPLCDFN-IRESFTELSRR  234 (432)
Q Consensus       197 v~~ee~~~~a~~~~~~~------------------~evSAktg~n-I~elf~~L~~~  234 (432)
                          .+.......+.|+                  +.+|+..|.| ++++++++.+.
T Consensus       258 ----~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          258 ----GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             ----HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             ----HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence                1222333334332                  3479999999 99998888765

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.02  E-value=8.3e-06  Score=83.32  Aligned_cols=149  Identities=13%  Similarity=0.174  Sum_probs=69.6

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .....++++|+|++|+|||||+|.++.. .+.     +.......+  +   .+...........+-...+.++|++|..
T Consensus        38 ~~Gei~~vaLvG~nGaGKSTLln~L~G~-~l~-----g~~~~~~~~--~---~~~~~i~~v~Q~~~l~~~ltv~D~~~~g  106 (427)
T 2qag_B           38 SQGFCFNILCVGETGLGKSTLMDTLFNT-KFE-----GEPATHTQP--G---VQLQSNTYDLQESNVRLKLTIVSTVGFG  106 (427)
T ss_dssp             C-CCEEEEEEECSTTSSSHHHHHHHHTS-CC------------CCS--S---CEEEEEEEEEEC--CEEEEEEEEEECCC
T ss_pred             cCCCeeEEEEECCCCCCHHHHHHHHhCc-ccc-----CCcCCCCCc--c---ceEeeEEEEeecCccccccchhhhhhhh
Confidence            3445678999999999999999997332 211     100000001  1   0011111111112223468999998854


Q ss_pred             ccc--------------hhh----hhc---------ccCce---EEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEE
Q psy3450         136 RFC--------------TII----RSY---------SRGAQ---GILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLV  185 (432)
Q Consensus       136 ~~~--------------~l~----~~~---------~~~ad---~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILV  185 (432)
                      ...              ..+    ..+         ..+++   +++|+.|....-+-.+ ..+   ++....++|+|+|
T Consensus       107 ~~~~~~~~~~~i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~D-iei---lk~L~~~~~vI~V  182 (427)
T 2qag_B          107 DQINKEDSYKPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLD-LVT---MKKLDSKVNIIPI  182 (427)
T ss_dssp             C-CCHHHHSHHHHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHH-HHH---HHHTCSCSEEEEE
T ss_pred             hccccchhhhHHHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHH-HHH---HHHHhhCCCEEEE
Confidence            210              011    111         12222   4666667654433322 122   2333357899999


Q ss_pred             EECccCCCCcccC--HHHHHHHHHhcCCcEEEEcCC
Q psy3450         186 GNRLHLAFNRTVT--TREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       186 gNK~DL~~~r~v~--~ee~~~~a~~~~~~~~evSAk  219 (432)
                      .||+|.....++.  .+.+.+.....|++++.+|..
T Consensus       183 i~KtD~Lt~~E~~~l~~~I~~~L~~~gi~I~~is~~  218 (427)
T 2qag_B          183 IAKADAISKSELTKFKIKITSELVSNGVQIYQFPTD  218 (427)
T ss_dssp             ESCGGGSCHHHHHHHHHHHHHHHBTTBCCCCCCC--
T ss_pred             EcchhccchHHHHHHHHHHHHHHHHcCCcEEecCCC
Confidence            9999975432211  111222223457788888853

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.99  E-value=1.4e-06  Score=87.50  Aligned_cols=145  Identities=16%  Similarity=0.133  Sum_probs=77.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      .+|+++|.+|||||||+|+++......    ....  ......|   +|.+  ...+.++..   +.++||||......+
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~----~~~~--~~~~~~g---tT~~--~~~~~~~~~---~~liDtPG~~~~~~~  228 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGK----GNVI--TTSYFPG---TTLD--MIEIPLESG---ATLYDTPGIINHHQM  228 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHT----TCCC--EEEECTT---SSCE--EEEEECSTT---CEEEECCSCCCCSSG
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCC----ccce--eecCCCC---eEEe--eEEEEeCCC---eEEEeCCCcCcHHHH
Confidence            479999999999999999984431100    0000  0111112   1112  222333332   689999996432211


Q ss_pred             --------hhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         141 --------IRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       141 --------~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                              ...++  +..+.++++.|.....-+..+.. ++.+.  ..+.|++++.||.|...... .....+.+.+..+
T Consensus       229 ~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~-l~~l~--~~~~~~~~v~~k~d~~~~~~-~~~~~~~~~~~~g  304 (369)
T 3ec1_A          229 AHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGLAR-LDYIK--GGRRSFVCYMANELTVHRTK-LEKADSLYANQLG  304 (369)
T ss_dssp             GGGSCTTTHHHHSCSSCCCCEEEEECTTEEEEETTTEE-EEEEE--SSSEEEEEEECTTSCEEEEE-GGGHHHHHHHHBT
T ss_pred             HHHHhHHHHHHHhcccccCceEEEEcCCceEEECCEEE-EEEcc--CCCceEEEEecCCccccccc-HHHHHHHHHHhcC
Confidence                    11122  67899999998732211111110 11111  13579999999999864332 2333445566677


Q ss_pred             CcEEEEcCCCCCC
Q psy3450         211 MAFFEVSPLCDFN  223 (432)
Q Consensus       211 ~~~~evSAktg~n  223 (432)
                      ......++....+
T Consensus       305 ~~l~p~~~~~~~~  317 (369)
T 3ec1_A          305 ELLSPPSKRYAAE  317 (369)
T ss_dssp             TTBCSSCGGGTTT
T ss_pred             CccCCCCchhhhh
Confidence            6665555554333

>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=97.95  E-value=5.3e-05  Score=77.20  Aligned_cols=158  Identities=13%  Similarity=0.163  Sum_probs=81.1

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      ...++|+|++|+|||||+|.+..-....    .+..      ..+....+..   ..+.-+...-.+.+||++|......
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~~p~----~GsI------~~~g~~~t~~---~~v~q~~~~~~ltv~D~~g~~~~~~  135 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIGNEE----EGAA------KTGVVEVTME---RHPYKHPNIPNVVFWDLPGIGSTNF  135 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTS----TTSC------CCCC----CC---CEEEECSSCTTEEEEECCCGGGSSC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCcc----CceE------EECCeeccee---EEeccccccCCeeehHhhcccchHH
Confidence            3478999999999999999973311110    0100      0000000000   0111111112478999998532111


Q ss_pred             hhhhc-----ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC--C-----CcccCHH----HHH
Q psy3450         140 IIRSY-----SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA--F-----NRTVTTR----EAE  203 (432)
Q Consensus       140 l~~~~-----~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~--~-----~r~v~~e----e~~  203 (432)
                      ....+     +.+.+.+++ +|..... -+. ..+...+..  .+.|+++|.||.|+.  +     -.....+    .+.
T Consensus       136 ~~~~~L~~~~L~~~~~~~~-lS~G~~~-kqr-v~la~aL~~--~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~  210 (413)
T 1tq4_A          136 PPDTYLEKMKFYEYDFFII-ISATRFK-KND-IDIAKAISM--MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIR  210 (413)
T ss_dssp             CHHHHHHHTTGGGCSEEEE-EESSCCC-HHH-HHHHHHHHH--TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCccCCeEE-eCCCCcc-HHH-HHHHHHHHh--cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHH
Confidence            11111     234455554 7764311 111 122233333  247999999999973  1     0111222    233


Q ss_pred             HHH----HhcC---CcEEEEcC--CCCCCHHHHHHHHHHHH
Q psy3450         204 MYA----IKNQ---MAFFEVSP--LCDFNIRESFTELSRRA  235 (432)
Q Consensus       204 ~~a----~~~~---~~~~evSA--ktg~nI~elf~~L~~~i  235 (432)
                      ++.    .+.+   ..++.+|+  ..+.|++++.+.+.+.+
T Consensus       211 ~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~L  251 (413)
T 1tq4_A          211 LNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDL  251 (413)
T ss_dssp             HHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHS
T ss_pred             HHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhC
Confidence            333    1222   36788999  67778999999998877

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.93  E-value=3.6e-05  Score=73.90  Aligned_cols=24  Identities=25%  Similarity=0.636  Sum_probs=21.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYL   82 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~   82 (432)
                      +.++++++|++|+|||||+|.++.
T Consensus         1 f~f~v~lvG~nGaGKSTLln~L~g   24 (270)
T 3sop_A            1 FDFNIMVVGQSGLGKSTLVNTLFK   24 (270)
T ss_dssp             CEEEEEEEESSSSSHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhC
Confidence            357999999999999999999843

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.84  E-value=1.1e-06  Score=88.39  Aligned_cols=141  Identities=16%  Similarity=0.161  Sum_probs=72.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      .+|+++|.+|||||||+|+++.......     ..........|   +|.+.  ..+.+++.   +.++||||......+
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~-----~~~~~~~~~~g---tT~~~--~~~~~~~~---~~liDtPG~~~~~~~  227 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDET-----ENVITTSHFPG---TTLDL--IDIPLDEE---SSLYDTPGIINHHQM  227 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSC-----SSCCEEECCC-------CE--EEEESSSS---CEEEECCCBCCTTSG
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhcccc-----ccceecCCCCC---eecce--EEEEecCC---eEEEeCCCcCcHHHH
Confidence            4799999999999999999844321100     00001112222   11121  22333332   689999997433211


Q ss_pred             h--------hhc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         141 I--------RSY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       141 ~--------~~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      .        ..+  .+..+.+++++|.....-+..+.. ++.+.  ..+.|+++|.||.|..... -.....+.+.+..+
T Consensus       228 ~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~-~d~l~--~~~~~~~~v~nk~d~~~~~-~~~~~~~~~~~~~g  303 (368)
T 3h2y_A          228 AHYVGKQSLKLITPTKEIKPMVFQLNEEQTLFFSGLAR-FDYVS--GGRRAFTCHFSNRLTIHRT-KLEKADELYKNHAG  303 (368)
T ss_dssp             GGGSCHHHHHHHSCSSCCCCEEEEECTTEEEEETTTEE-EEEEE--SSSEEEEEEECTTSCEEEE-EHHHHHHHHHHHBT
T ss_pred             HHHhhHHHHHHhccccccCceEEEEcCCCEEEEcceEE-EEEec--CCCceEEEEecCccccccc-cHHHHHHHHHHHhC
Confidence            1        111  256788888888632211111100 11111  1357999999999986432 22333344556667


Q ss_pred             CcEEEEcC
Q psy3450         211 MAFFEVSP  218 (432)
Q Consensus       211 ~~~~evSA  218 (432)
                      ..+...++
T Consensus       304 ~~l~p~~~  311 (368)
T 3h2y_A          304 DLLSPPTP  311 (368)
T ss_dssp             TTBCSSCH
T ss_pred             CccCCCch
Confidence            65444443

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.73  E-value=2.2e-05  Score=75.14  Aligned_cols=91  Identities=13%  Similarity=0.057  Sum_probs=62.2

Q ss_pred             CCCcc-cchhhhhcccCceEEEEEEeCCCCCChhh--HHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         132 SGQGR-FCTIIRSYSRGAQGILLVYDITNKWSFDG--IDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       132 ~G~e~-~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~--l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                      ||+.. ........+.++|++|+|+|+.++.+..+  +. |+        ++|.++|.||+||.+...  .+...++.++
T Consensus         5 PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~l~-ll--------~k~~iivlNK~DL~~~~~--~~~~~~~~~~   73 (262)
T 3cnl_A            5 PGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYGVD-FS--------RKETIILLNKVDIADEKT--TKKWVEFFKK   73 (262)
T ss_dssp             ----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTTSC-CT--------TSEEEEEEECGGGSCHHH--HHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChHHH-hc--------CCCcEEEEECccCCCHHH--HHHHHHHHHH
Confidence            45432 22344567789999999999999877653  23 32        589999999999965311  1223344455


Q ss_pred             cCCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         209 NQMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       209 ~~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      .+.++ .+||+++.|++++++.+...
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~~   98 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFDR   98 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCCT
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHHh
Confidence            67888 99999999999998876543

>2jz3_A Suppressor of cytokine signaling 3; SOCS proteins, elongins, cytokine signaling, growth regulati phosphoprotein, SH2 domain; NMR {Mus musculus}

Probab=97.70  E-value=1.3e-05  Score=54.08  Aligned_cols=37  Identities=30%  Similarity=0.533  Sum_probs=32.2

Q ss_pred             hhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhh
Q psy3450         316 VISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  353 (432)
                      |-|||.+|+.+|..++... .++||||..||..|+.|-
T Consensus         1 v~sLQHLCR~~I~~~~~~~-~~~LpLP~~Lk~yL~ey~   37 (40)
T 2jz3_A            1 VATLQHLCRKTVNGHLDSY-EKVTQLPGPIREFLDQYD   37 (40)
T ss_pred             CccHHHHHHHHHHHHcCCC-cccCCCCHHHHHHHHHCC
Confidence            4689999999999998555 379999999999999874

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=97.67  E-value=1.1e-05  Score=82.69  Aligned_cols=91  Identities=14%  Similarity=0.082  Sum_probs=54.1

Q ss_pred             EEEEEEEeCCCCcccch-hhh---h--cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCC-c-EEEEEECccCCCC
Q psy3450         123 RVKLQLWDTSGQGRFCT-IIR---S--YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV-P-KVLVGNRLHLAFN  194 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~-l~~---~--~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~i-P-iILVgNK~DL~~~  194 (432)
                      .+.+.|+||+|...... +..   .  ....+|.+++|.|.+...   +.......+.   +.+ | ..+|.||+|....
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~---~~~~~i~gvVlnK~D~~~~  253 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQ---QAGIQAKAFK---EAVGEIGSIIVTKLDGSAK  253 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGG---GHHHHHHHHH---TTSCSCEEEEEECSSSCST
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccH---HHHHHHHHHh---hcccCCeEEEEeCCCCccc
Confidence            35679999999754311 111   1  123689999999986542   2222233332   335 6 7899999997421


Q ss_pred             cccCHHHHHHHHHhcCCcEEEEcCCCCCCHH
Q psy3450         195 RTVTTREAEMYAIKNQMAFFEVSPLCDFNIR  225 (432)
Q Consensus       195 r~v~~ee~~~~a~~~~~~~~evSAktg~nI~  225 (432)
                          ...+..+....+.++..++  .|.+++
T Consensus       254 ----~g~~l~~~~~~~~pi~~ig--~Ge~~~  278 (432)
T 2v3c_C          254 ----GGGALSAVAETKAPIKFIG--IGEGID  278 (432)
T ss_dssp             ----THHHHHHHHHSSCCEEEEC--CSSSSS
T ss_pred             ----hHHHHHHHHHHCCCEEEee--cCcccc
Confidence                1234456677788877765  444443

>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=97.56  E-value=3.6e-05  Score=75.38  Aligned_cols=91  Identities=13%  Similarity=0.105  Sum_probs=62.6

Q ss_pred             chhhhhcccCceEEEEEEeCCCCCC-hhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHHHHHHHHHhcCCcEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWS-FDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTREAEMYAIKNQMAFF  214 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~S-f~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~ee~~~~a~~~~~~~~  214 (432)
                      ..+.+..+.++|.+++|+|+.++.. ...+.+++.....  .++|.+||.||+||.++...  ..++..++.+..+.+.+
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~--~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~  154 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA--NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVY  154 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT--TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH--CCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEE
Confidence            3344556789999999999997754 3444555544333  46899999999999754220  12233344445678999


Q ss_pred             EEcCCCCCCHHHHHHH
Q psy3450         215 EVSPLCDFNIRESFTE  230 (432)
Q Consensus       215 evSAktg~nI~elf~~  230 (432)
                      .+||+++.|++++++.
T Consensus       155 ~~sa~~~~g~~~L~~~  170 (307)
T 1t9h_A          155 LTSSKDQDSLADIIPH  170 (307)
T ss_dssp             ECCHHHHTTCTTTGGG
T ss_pred             EEecCCCCCHHHHHhh
Confidence            9999999998887654

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.38  E-value=0.00093  Score=68.50  Aligned_cols=92  Identities=15%  Similarity=0.051  Sum_probs=55.3

Q ss_pred             EEEEEEeCCCCcccch-hhh-----hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         124 VKLQLWDTSGQGRFCT-IIR-----SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~-l~~-----~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      +.+.|+||+|...... +..     .....+|.++||.|++...   +.......+.+..  .+..+|.||+|....   
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq---~a~~~a~~f~~~~--~i~gVIlTKlD~~~~---  254 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQ---QAYNQALAFKEAT--PIGSIIVTKLDGSAK---  254 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHHSC--TTEEEEEECCSSCSS---
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCch---hHHHHHHHHHhhC--CCeEEEEECCCCccc---
Confidence            5679999999543211 111     1123578999999987642   2333334444332  255689999997532   


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                       ...+.......+.|+..++.  |+++++
T Consensus       255 -gG~~ls~~~~~g~PI~fig~--Ge~vdd  280 (443)
T 3dm5_A          255 -GGGALSAVAATGAPIKFIGT--GEKIDD  280 (443)
T ss_dssp             -HHHHHHHHHTTCCCEEEEEC--SSSTTC
T ss_pred             -ccHHHHHHHHHCCCEEEEEc--CCChHH
Confidence             23345556677888887875  665543

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=97.36  E-value=0.00016  Score=69.88  Aligned_cols=24  Identities=25%  Similarity=0.492  Sum_probs=21.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~   81 (432)
                      ...++|+++|.+|||||||+|++.
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~  141 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLA  141 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCceEEEEecCCCchHHHHHHHh
Confidence            345899999999999999999983

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.31  E-value=6.7e-05  Score=71.72  Aligned_cols=21  Identities=33%  Similarity=0.580  Sum_probs=19.6

Q ss_pred             EEEEEeCcccchhHHHHHhhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~   81 (432)
                      ++++++|.+|||||||+|++.
T Consensus       100 ~~v~~vG~~~vGKSslin~l~  120 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLK  120 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             hheEEeCCCCCCHHHHHHHHh
Confidence            699999999999999999983

>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=97.23  E-value=0.00092  Score=66.72  Aligned_cols=85  Identities=20%  Similarity=0.137  Sum_probs=56.6

Q ss_pred             cccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc-CHHHHHHHHHhcCCcEEEEcCCCC
Q psy3450         144 YSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV-TTREAEMYAIKNQMAFFEVSPLCD  221 (432)
Q Consensus       144 ~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v-~~ee~~~~a~~~~~~~~evSAktg  221 (432)
                      ...++|.+++|.+. ++. +...+.+++......  ++|.+||.||+||.++... ..++.....+..|++++.+||+++
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~~--~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~~  203 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL--QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHTQ  203 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH--TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc--CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCCC
Confidence            46889999988765 454 334446665544433  4788999999999653210 011122233456889999999999


Q ss_pred             CCHHHHHHHH
Q psy3450         222 FNIRESFTEL  231 (432)
Q Consensus       222 ~nI~elf~~L  231 (432)
                      .|++++...+
T Consensus       204 ~gl~~L~~~~  213 (358)
T 2rcn_A          204 DGLKPLEEAL  213 (358)
T ss_dssp             BTHHHHHHHH
T ss_pred             cCHHHHHHhc
Confidence            9999887653

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=97.06  E-value=0.0012  Score=64.18  Aligned_cols=93  Identities=10%  Similarity=0.044  Sum_probs=58.2

Q ss_pred             EEEEEEEeCCCCcc--cch-hhh-----hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCC
Q psy3450         123 RVKLQLWDTSGQGR--FCT-IIR-----SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAF  193 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~--~~~-l~~-----~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~  193 (432)
                      .+.+.|+||||...  ... +..     .....+|.+++|.|.+..   .+.......+..   ..| ..+|.||.|...
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g---~~~~~~~~~~~~---~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIG---QKAYDLASKFNQ---ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGG---GGHHHHHHHHHH---TCTTEEEEEECGGGCT
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCch---HHHHHHHHHHHh---hCCCCEEEEeCCCCCc
Confidence            35679999999766  311 211     123468999999998642   333233333333   356 678999999742


Q ss_pred             CcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         194 NRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       194 ~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                          ....+..++...+.++..++  +|++++++
T Consensus       254 ----~~g~~~~~~~~~~~pi~~i~--~Ge~v~dl  281 (297)
T 1j8m_F          254 ----KGGGALSAVAATGATIKFIG--TGEKIDEL  281 (297)
T ss_dssp             ----THHHHHHHHHTTTCCEEEEE--CSSSTTCE
T ss_pred             ----chHHHHHHHHHHCcCEEEEe--CCCChhhc
Confidence                23345567778888888776  56666543

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.95  E-value=0.0018  Score=66.29  Aligned_cols=91  Identities=9%  Similarity=0.045  Sum_probs=55.2

Q ss_pred             EEEEEEEeCCCCcc--cc-hhhh---hc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCC
Q psy3450         123 RVKLQLWDTSGQGR--FC-TIIR---SY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFN  194 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~--~~-~l~~---~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~  194 (432)
                      .+.+.|+||+|...  .. .+..   ..  .-..+.++||.|.....   +.......+.+..  .+..||.||.|... 
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq---~a~~~a~~f~~~~--~~~gVIlTKlD~~a-  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQ---KAYDLASRFHQAS--PIGSVIITKMDGTA-  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GGHHHHHHHHHHC--SSEEEEEECGGGCS-
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccch---HHHHHHHHHhccc--CCcEEEEecccccc-
Confidence            35578999999543  11 1111   11  12458999999987642   2333444444332  35789999999742 


Q ss_pred             cccCHHHHHHHHHhcCCcEEEEcCCCCCCH
Q psy3450         195 RTVTTREAEMYAIKNQMAFFEVSPLCDFNI  224 (432)
Q Consensus       195 r~v~~ee~~~~a~~~~~~~~evSAktg~nI  224 (432)
                         ....+.......+.|+..++.  |+++
T Consensus       253 ---~~G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 ---KGGGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             ---CHHHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             ---cchHHHHHHHHHCCCEEEEEC--CCCh
Confidence               233455566677889888875  6655

>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=96.67  E-value=0.00072  Score=62.51  Aligned_cols=49  Identities=16%  Similarity=0.284  Sum_probs=30.8

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      |-.-|||+++|++|||||+|+.|+..      ..|...+.++.+.++..|.+.++
T Consensus        10 P~k~~KivlvGd~~VGKTsLi~r~~~------~~f~~~~~~Tig~d~~~k~~~~~   58 (216)
T 4dkx_A           10 PLRKFKLVFLGEQSVGKTSLITRFMY------DSFDNTYQATIGIDFLSKTMYLE   58 (216)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHH------SCCC----------CEEEEEECS
T ss_pred             CCCcEEEEEECcCCcCHHHHHHHHHh------CCCCCCcCCccceEEEEEEEEec
Confidence            33448999999999999999999987      67777777777777777766665

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=96.65  E-value=0.0033  Score=56.33  Aligned_cols=85  Identities=9%  Similarity=-0.051  Sum_probs=57.7

Q ss_pred             EEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC---CCCcEEEEEECccCCCCcccCH
Q psy3450         123 RVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---PGVPKVLVGNRLHLAFNRTVTT  199 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~---~~iPiILVgNK~DL~~~r~v~~  199 (432)
                      .+.+.|+|+++..  .......+..+|.+|++.+.+.. + ..+..+++.+.+..   ++.++.+|.|+.|...   ...
T Consensus        75 ~yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~---~~~  147 (206)
T 4dzz_A           75 DYDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPL-D-FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMA---TML  147 (206)
T ss_dssp             TSSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTT-T-HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTE---EEE
T ss_pred             CCCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHH-H-HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCc---hHH
Confidence            3667999999865  23444566779999999986544 4 67777777776543   4678899999998521   223


Q ss_pred             HHHHHHHHhcCCcEE
Q psy3450         200 REAEMYAIKNQMAFF  214 (432)
Q Consensus       200 ee~~~~a~~~~~~~~  214 (432)
                      ++..++.++++.+++
T Consensus       148 ~~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          148 NVLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHHTCCBC
T ss_pred             HHHHHHHHHcCCcee
Confidence            455666666666554

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=96.60  E-value=0.0016  Score=69.04  Aligned_cols=25  Identities=20%  Similarity=0.219  Sum_probs=21.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL   82 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~   82 (432)
                      ...++|+|+|.+|||||||+|+|+.
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g   60 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAG   60 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTT
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcC
Confidence            4568899999999999999999843

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=96.57  E-value=0.00046  Score=71.26  Aligned_cols=99  Identities=14%  Similarity=0.078  Sum_probs=58.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCcccccccee--EEEEEECCeEEEEEEEeCCCCcc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK--TTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~--~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ..++|+++|.+|+||||+.++|... ..             ...+.    +..+.  .......+......+||..|++.
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~-l~-------------~~~~~----t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~   99 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRY-LN-------------FIGVP----TREFNVGQYRRDMVKTYKSFEFFLPDNEEG   99 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH-HH-------------HTTCC----EEEEEHHHHHHHHHCSCCCGGGGCTTCHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH-Hh-------------ccCCC----ceEEecchhhhhhccCCCcccccCCCCHHH
Confidence            3578999999999999999997110 00             00000    00000  00000011123347899998732


Q ss_pred             --cchhh--------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh
Q psy3450         137 --FCTII--------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH  176 (432)
Q Consensus       137 --~~~l~--------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~  176 (432)
                        +...+        ..++...++.++|+|.++. +++....|+..+++.
T Consensus       100 ~r~re~~~~~~l~~~~~~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~  148 (469)
T 1bif_A          100 LKIRKQCALAALNDVRKFLSEEGGHVAVFDATNT-TRERRAMIFNFGEQN  148 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc
Confidence              23332        4566678899999999988 577778888877765

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.42  E-value=0.005  Score=60.65  Aligned_cols=92  Identities=12%  Similarity=0.084  Sum_probs=53.9

Q ss_pred             EEEEEeCCCCcccch-hhhhc-----ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC
Q psy3450         125 KLQLWDTSGQGRFCT-IIRSY-----SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT  198 (432)
Q Consensus       125 ~l~i~Dt~G~e~~~~-l~~~~-----~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~  198 (432)
                      .+.++||+|...... +....     .-..|-.+++.|.+..   .++...+..+.+..  -.-+|+.||.|...    .
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~---~~~~~~~~~~~~~~--~it~iilTKlD~~a----~  283 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAG---NAIVEQARQFNEAV--KIDGIILTKLDADA----R  283 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGT---THHHHHHHHHHHHS--CCCEEEEECGGGCS----C
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHH---HHHHHHHHHHHHhc--CCCEEEEeCcCCcc----c
Confidence            356799999743221 11110     1236788999997654   34444444444332  13467889999632    1


Q ss_pred             HHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         199 TREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       199 ~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                      .-.+...+...+.|+..++  +|.+++++
T Consensus       284 ~G~~l~~~~~~~~pi~~i~--~Ge~v~dl  310 (328)
T 3e70_C          284 GGAALSISYVIDAPILFVG--VGQGYDDL  310 (328)
T ss_dssp             CHHHHHHHHHHTCCEEEEE--CSSSTTCE
T ss_pred             hhHHHHHHHHHCCCEEEEe--CCCCcccc
Confidence            2345566777788888887  67666543

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=96.29  E-value=0.0043  Score=66.16  Aligned_cols=19  Identities=32%  Similarity=0.655  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|+|++|+|||||++.+
T Consensus        47 ~iaIvG~nGsGKSTLL~~I   65 (608)
T 3szr_A           47 AIAVIGDQSSGKSSVLEAL   65 (608)
T ss_dssp             CEECCCCTTSCHHHHHHHH
T ss_pred             eEEEECCCCChHHHHHHHH
Confidence            4999999999999999997

>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=95.90  E-value=0.0047  Score=55.80  Aligned_cols=34  Identities=26%  Similarity=0.602  Sum_probs=25.5

Q ss_pred             ccccccccccceeeEEEEecCCCcccceechhhh
Q psy3450           5 PVVATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         5 ~~~~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +....|.++++.+||+++|+.++|||+++.++..
T Consensus        15 ~~~~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~   48 (201)
T 2ew1_A           15 VPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQ   48 (201)
T ss_dssp             -------CCSEEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCCCccccccceEEEEECcCCCCHHHHHHHHHh
Confidence            3445566888999999999999999999999876

>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=95.80  E-value=0.0054  Score=54.30  Aligned_cols=31  Identities=39%  Similarity=0.698  Sum_probs=27.1

Q ss_pred             cccccccceeeEEEEecCCCcccceechhhh
Q psy3450           8 ATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         8 ~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..++++|+.+||+++|+.++|||+++.++..
T Consensus        15 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~   45 (191)
T 3dz8_A           15 YFQGNFDYMFKLLIIGNSSVGKTSFLFRYAD   45 (191)
T ss_dssp             EETTEEEECEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccccccCeeeEEEEECCCCcCHHHHHHHHhc
Confidence            3445788899999999999999999999876

>2c9w_A Suppressor of cytokine signaling 2; growth regulation, SH2 domain, signal transduction inhibitor nuclear protein; 1.9A {Homo sapiens} SCOP: a.271.1.1 d.93.1.1

Probab=95.72  E-value=0.0034  Score=55.81  Aligned_cols=46  Identities=39%  Similarity=0.382  Sum_probs=37.8

Q ss_pred             cccccccccchhhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhh
Q psy3450         304 VNKNKYNLLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       304 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  353 (432)
                      +.+.+|++  -.+-+||.+|+.+|..++  ..|++||||..|+..|+.|-
T Consensus       121 ~~L~~P~~--~~~~sLqhlcR~~i~~~~--~~~~~lplp~~l~~yl~~y~  166 (169)
T 2c9w_A          121 LYLTKPLY--TSAPSLQHLCRLTINKCT--GAIWGLPLPTRLKDYLEEYK  166 (169)
T ss_dssp             CCCCCBCC--SSCCCHHHHHHHHHHHHC--SCGGGSSSCHHHHHHHHTCC
T ss_pred             ceecCccc--cccccHHHHHHHHHHHhh--cchhhCCCCHHHHHHHHhCC
Confidence            33444443  366899999999999998  68999999999999999884

>2izv_A Suppressor of cytokine signaling 4; signal transduction inhibitor, growth regulation, signal transduction, SH2 domain, nuclear protein; 2.55A {Homo sapiens} SCOP: a.271.1.1 d.93.1.1

Probab=95.68  E-value=0.0025  Score=57.77  Aligned_cols=40  Identities=40%  Similarity=0.585  Sum_probs=36.0

Q ss_pred             hhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhhccc
Q psy3450         317 ISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYAMTS  356 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  356 (432)
                      .|||.||+.+|..++..-.|++||||..||..|+.|--.+
T Consensus       137 ~sLqhLcR~~i~~~~~~~~i~~LPLP~~Lk~yl~~y~y~~  176 (187)
T 2izv_A          137 FSLQHICRTVICNCTTYDGIDALPIPSSMKLYLKEYHYKS  176 (187)
T ss_dssp             CCHHHHHHHHHHHHSCHHHHHTSSSCHHHHHHHTSSEEEE
T ss_pred             ccHHHHHHHHHHhhcCcCcccccCCCHHHHHHHHhCCCcc
Confidence            3999999999999998888999999999999999986543

>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=95.46  E-value=0.0088  Score=52.81  Aligned_cols=31  Identities=32%  Similarity=0.735  Sum_probs=25.3

Q ss_pred             cccccccceeeEEEEecCCCcccceechhhh
Q psy3450           8 ATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         8 ~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+++++.+||+++|+.++|||+++.++..
T Consensus        17 ~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~   47 (193)
T 2oil_A           17 RGSEDYNFVFKVVLIGESGVGKTNLLSRFTR   47 (193)
T ss_dssp             ---CCCSEEEEEEEESSTTSSHHHHHHHHHH
T ss_pred             ccccccCcceEEEEECcCCCCHHHHHHHHhc
Confidence            3344677889999999999999999999876

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=95.37  E-value=0.0071  Score=53.96  Aligned_cols=35  Identities=43%  Similarity=0.802  Sum_probs=27.2

Q ss_pred             cccccccccccceeeEEEEecCCCcccceechhhh
Q psy3450           4 KPVVATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         4 ~~~~~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .||+++...+++.+||+++|+.++|||+++.++..
T Consensus        21 ~pm~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~   55 (199)
T 3l0i_B           21 RPMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFAD   55 (199)
T ss_dssp             ----CC-CCCSEEEEEEEECCTTSCCTTTTTSSBC
T ss_pred             CcccccCcccCcceEEEEECCCCCCHHHHHHHHhc
Confidence            46767667788899999999999999999999875

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=95.05  E-value=0.017  Score=59.19  Aligned_cols=25  Identities=12%  Similarity=0.135  Sum_probs=21.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYL   82 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~   82 (432)
                      .+..-|.|+|++++|||+|+|.|+.
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg   89 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLR   89 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhh
Confidence            3456788999999999999999854

>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=95.00  E-value=0.017  Score=49.76  Aligned_cols=27  Identities=33%  Similarity=0.827  Sum_probs=24.5

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +++..+||+++|+.++|||+++.++..
T Consensus        11 ~~~~~~~i~v~G~~~~GKSsli~~l~~   37 (179)
T 1z0f_A           11 NYSYIFKYIIIGDMGVGKSCLLHQFTE   37 (179)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHc
Confidence            567789999999999999999999876

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=94.98  E-value=0.015  Score=51.11  Aligned_cols=33  Identities=42%  Similarity=0.746  Sum_probs=25.5

Q ss_pred             cccccccccceeeEEEEecCCCcccceechhhh
Q psy3450           6 VVATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         6 ~~~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      |..+..++++.+||+++|+.++|||+++.++..
T Consensus         6 ~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~   38 (196)
T 3tkl_A            6 MSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFAD   38 (196)
T ss_dssp             -----CCCSEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             hhhcCcccccceEEEEECcCCCCHHHHHHHHHc
Confidence            444555677889999999999999999999876

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=94.93  E-value=0.012  Score=50.81  Aligned_cols=30  Identities=40%  Similarity=0.731  Sum_probs=24.3

Q ss_pred             ccccccceeeEEEEecCCCcccceechhhh
Q psy3450           9 TQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         9 ~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      |+++++..+||+++|+.++|||+++.++..
T Consensus         2 m~~~~~~~~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B            2 MARDYDHLFKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             ----CCEEEEEEEECCTTSCHHHHHHHHCS
T ss_pred             CccccCcceEEEEECCCCCCHHHHHHHHhc
Confidence            445778899999999999999999999875

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.93  E-value=0.29  Score=49.78  Aligned_cols=84  Identities=15%  Similarity=0.031  Sum_probs=46.7

Q ss_pred             EEEEEEEeCCCCcccc-hhhh-----hcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcE-EEEEECccCCCCc
Q psy3450         123 RVKLQLWDTSGQGRFC-TIIR-----SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPK-VLVGNRLHLAFNR  195 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~~~-~l~~-----~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPi-ILVgNK~DL~~~r  195 (432)
                      .+.+.|+||||..... .+..     ......+.+++|+|.....   +.......+..   .+++ -+|.||.|.....
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~---~~~~~~~~f~~---~l~i~gvVlnK~D~~~~~  256 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQ---DAANTAKAFNE---ALPLTGVVLTKVDGDARG  256 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCT---THHHHHHHHHH---HSCCCCEEEECTTSSSCC
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhH---HHHHHHHHHhc---cCCCeEEEEecCCCCccH
Confidence            3567999999965432 1211     1234678999999987542   22223333332   2443 4789999974221


Q ss_pred             ccCHHHHHHHHHhcCCcEEEE
Q psy3450         196 TVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~ev  216 (432)
                          ..+..+....+.++..+
T Consensus       257 ----g~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          257 ----GAALSIRHITGKPIKFL  273 (433)
T ss_dssp             ----THHHHHHHHHCCCEEEE
T ss_pred             ----HHHHHHHHHHCCCeEEE
Confidence                23344555556554433

>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=94.92  E-value=0.018  Score=50.61  Aligned_cols=29  Identities=41%  Similarity=0.721  Sum_probs=25.5

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ....|+.+||+++|+.++|||+++.++..
T Consensus        16 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~   44 (189)
T 2gf9_A           16 PRGSDYMFKLLLIGNSSVGKTSFLFRYAD   44 (189)
T ss_dssp             CTTCSEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcccCceeEEEEECCCCCCHHHHHHHHHc
Confidence            34667889999999999999999999876

>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=94.82  E-value=0.015  Score=50.73  Aligned_cols=28  Identities=54%  Similarity=0.896  Sum_probs=15.0

Q ss_pred             ccccceeeEEEEecCCCcccceechhhh
Q psy3450          11 KQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        11 ~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +++++.+||+++|+.++|||+++.++..
T Consensus         3 ~~~~~~~ki~v~G~~~~GKssl~~~l~~   30 (183)
T 2fu5_C            3 KTYDYLFKLLLIGDSGVGKTCVLFRFSE   30 (183)
T ss_dssp             CCCSEEEEEEEECCCCC-----------
T ss_pred             cccCCceEEEEECCCCCCHHHHHHHHHh
Confidence            3567889999999999999999999875

>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=94.78  E-value=0.011  Score=53.26  Aligned_cols=35  Identities=43%  Similarity=0.630  Sum_probs=25.0

Q ss_pred             cccccccccccceeeEEEEecCCCcccceechhhh
Q psy3450           4 KPVVATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         4 ~~~~~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++.+....++++.+||+++|+.++|||+++.++..
T Consensus        13 ~~~~~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~   47 (217)
T 2f7s_A           13 GLVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTD   47 (217)
T ss_dssp             --------CCSEEEEEEEESCTTSSHHHHHHHHHC
T ss_pred             CcCcCcCCCcceeEEEEEECcCCCCHHHHHHHHhc
Confidence            34444445778899999999999999999998875

>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=94.68  E-value=0.021  Score=50.74  Aligned_cols=33  Identities=42%  Similarity=0.800  Sum_probs=25.5

Q ss_pred             cccccccccceeeEEEEecCCCcccceechhhh
Q psy3450           6 VVATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         6 ~~~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+....++++.+|++++|+.|+|||+++.++..
T Consensus        19 ~~~~~~~~~~~~kv~lvG~~g~GKSTLl~~l~~   51 (191)
T 1oix_A           19 MGTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTR   51 (191)
T ss_dssp             -----CCCSEEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCcccccCcceEEEEECcCCCCHHHHHHHHhc
Confidence            334445678889999999999999999999876

>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=94.68  E-value=0.018  Score=51.62  Aligned_cols=32  Identities=41%  Similarity=0.766  Sum_probs=24.1

Q ss_pred             ccccccccceeeEEEEecCCCcccceechhhh
Q psy3450           7 VATQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         7 ~~~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+..+++++.+||+++|+.++|||+++.++..
T Consensus        20 ~~~~~~~~~~~ki~vvG~~~vGKSsli~~l~~   51 (201)
T 2hup_A           20 GDPDEQYDFLFKLVLVGDASVGKTCVVQRFKT   51 (201)
T ss_dssp             ------CCEEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCcccccccceEEEEECcCCCCHHHHHHHHhh
Confidence            33445677889999999999999999999875

>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=94.63  E-value=0.024  Score=50.03  Aligned_cols=29  Identities=31%  Similarity=0.631  Sum_probs=25.3

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..++++.+||+++|+.++|||+++.++..
T Consensus        15 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~   43 (191)
T 2a5j_A           15 VPRGSYLFKYIIIGDTGVGKSCLLLQFTD   43 (191)
T ss_dssp             CCTTCEEEEEEEESSTTSSHHHHHHHHHH
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHhc
Confidence            34667789999999999999999999876

>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=94.47  E-value=0.025  Score=49.21  Aligned_cols=28  Identities=36%  Similarity=0.794  Sum_probs=25.0

Q ss_pred             ccccceeeEEEEecCCCcccceechhhh
Q psy3450          11 KQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        11 ~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++.++.+||+++|+.++|||+++.++..
T Consensus         5 ~~~~~~~ki~v~G~~~~GKSsli~~l~~   32 (186)
T 2bme_A            5 ETYDFLFKFLVIGNAGTGKSCLLHQFIE   32 (186)
T ss_dssp             CCCSEEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHc
Confidence            4567889999999999999999999876

>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=94.43  E-value=0.028  Score=50.13  Aligned_cols=27  Identities=48%  Similarity=0.872  Sum_probs=24.5

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++++.+||+++|+.++|||+++.++..
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~   30 (206)
T 2bcg_Y            4 EYDYLFKLLLIGNSGVGKSCLLLRFSD   30 (206)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhc
Confidence            567889999999999999999999876

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=94.32  E-value=0.025  Score=51.36  Aligned_cols=27  Identities=48%  Similarity=0.882  Sum_probs=24.1

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++++.+||+++|+.++|||+++.++..
T Consensus         9 ~~~~~~ki~v~G~~~vGKSsli~~l~~   35 (223)
T 3cpj_B            9 DYDLLFKIVLIGDSGVGKSNLLSRFTK   35 (223)
T ss_dssp             -CCEEEEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCeeeEEEEECcCCCCHHHHHHHHhc
Confidence            467889999999999999999999876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=94.06  E-value=0.021  Score=50.45  Aligned_cols=19  Identities=32%  Similarity=0.635  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|+|++|+|||||++.+
T Consensus         7 ~i~i~GpsGsGKSTL~~~L   25 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTL   25 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999997

>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=93.99  E-value=0.026  Score=50.36  Aligned_cols=27  Identities=37%  Similarity=0.556  Sum_probs=22.1

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+..+||+++|+.|+|||+++.++..
T Consensus        19 ~~~~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           19 QKDGIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHHh
Confidence            567789999999999999999999853

>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=93.96  E-value=0.03  Score=49.99  Aligned_cols=29  Identities=31%  Similarity=0.569  Sum_probs=24.1

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+++..+||+++|+.++|||+++.++..
T Consensus        19 ~~~~~~~~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           19 SIWSDFLFKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             ---CCEEEEEEEEESTTSSHHHHHHHHHC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHh
Confidence            34567889999999999999999999875

>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=93.93  E-value=0.024  Score=50.45  Aligned_cols=19  Identities=26%  Similarity=0.686  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +++++|++|+|||||++.+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l   20 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKI   20 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999987

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=93.93  E-value=0.09  Score=46.12  Aligned_cols=29  Identities=24%  Similarity=0.299  Sum_probs=22.5

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+...+||+++|+.++|||+++.++..
T Consensus        11 ~~~~~~~~ki~v~G~~~~GKSsl~~~l~~   39 (199)
T 4bas_A           11 MGQSKTKLQVVMCGLDNSGKTTIINQVKP   39 (199)
T ss_dssp             -----CEEEEEEECCTTSCHHHHHHHHSC
T ss_pred             ccCCCCCcEEEEECCCCCCHHHHHHHHhc
Confidence            33566679999999999999999999876

>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=93.87  E-value=0.036  Score=48.15  Aligned_cols=27  Identities=26%  Similarity=0.349  Sum_probs=23.8

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .....+||+++|+.++|||+++.++..
T Consensus        14 ~~~~~~ki~v~G~~~~GKSsl~~~l~~   40 (183)
T 3kkq_A           14 ENLPTYKLVVVGDGGVGKSALTIQFFQ   40 (183)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHh
Confidence            455679999999999999999999875

>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=93.74  E-value=0.039  Score=47.39  Aligned_cols=24  Identities=21%  Similarity=0.585  Sum_probs=21.5

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .-+||+++|+.++|||+++.++..
T Consensus        13 ~~~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           13 RKFKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHc
Confidence            348999999999999999999875

>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=93.65  E-value=0.045  Score=47.98  Aligned_cols=30  Identities=23%  Similarity=0.444  Sum_probs=22.2

Q ss_pred             ccccccceeeEEEEecCCCcccceechhhh
Q psy3450           9 TQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         9 ~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ....+...+||+++|+.++|||+++.++..
T Consensus        13 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~   42 (189)
T 1z06_A           13 PRGSRSRIFKIIVIGDSNVGKTCLTYRFCA   42 (189)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCCCceEEEEEECCCCCCHHHHHHHHHc
Confidence            333445678999999999999999999876

>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=93.63  E-value=0.04  Score=47.37  Aligned_cols=28  Identities=32%  Similarity=0.580  Sum_probs=24.4

Q ss_pred             ccccceeeEEEEecCCCcccceechhhh
Q psy3450          11 KQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        11 ~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +.++..+||+++|+.++|||+++.++..
T Consensus         2 ~~~~~~~~i~v~G~~~~GKSsli~~l~~   29 (177)
T 1wms_A            2 AGKSSLFKVILLGDGGVGKSSLMNRYVT   29 (177)
T ss_dssp             CCCEEEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCccceeEEEEECCCCCCHHHHHHHHHc
Confidence            3456778999999999999999999875

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.62  E-value=0.031  Score=49.42  Aligned_cols=30  Identities=20%  Similarity=0.556  Sum_probs=24.4

Q ss_pred             ccccccceeeEEEEecCCCcccceechhhh
Q psy3450           9 TQKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         9 ~~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .-...+..+||+++|+.++|||+++.++..
T Consensus        19 ~p~~~~~~~ki~vvG~~~~GKSsLi~~l~~   48 (192)
T 2il1_A           19 SPRPADFKLQVIIIGSRGVGKTSLMERFTD   48 (192)
T ss_dssp             ---CCSEEEEEEEECSTTSSHHHHHHHHCC
T ss_pred             CCcccCCceEEEEECCCCCCHHHHHHHHhc
Confidence            334567789999999999999999999876

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=93.59  E-value=0.029  Score=50.55  Aligned_cols=19  Identities=37%  Similarity=0.567  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus         6 ~i~lvGpsGaGKSTLl~~L   24 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKL   24 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>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=93.56  E-value=0.044  Score=48.58  Aligned_cols=27  Identities=41%  Similarity=0.802  Sum_probs=24.3

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++++.+||+++|+.++|||+++.++..
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~   30 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRYAD   30 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhc
Confidence            457889999999999999999999876

>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=93.56  E-value=0.042  Score=48.75  Aligned_cols=27  Identities=37%  Similarity=0.656  Sum_probs=22.4

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +.+..+||+++|+.++|||+++.++..
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~   30 (207)
T 1vg8_A            4 RKKVLLKVIILGDSGVGKTSLMNQYVN   30 (207)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHHc
Confidence            456789999999999999999999876

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=93.49  E-value=0.037  Score=49.13  Aligned_cols=18  Identities=28%  Similarity=0.447  Sum_probs=17.1

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      +++.|++|+|||+|++.+
T Consensus        41 ~ll~G~~G~GKT~l~~~l   58 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIAL   58 (226)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999987

>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=93.35  E-value=0.039  Score=49.74  Aligned_cols=31  Identities=26%  Similarity=0.411  Sum_probs=22.7

Q ss_pred             cccc-cccceeeEEEEecCCCcccceechhhh
Q psy3450           8 ATQK-QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus         8 ~~~~-~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..|+ .++..+||+++|+.++|||+++.++..
T Consensus        19 ~~m~~~~~~~~ki~vvG~~~vGKSsLi~~l~~   50 (205)
T 1gwn_A           19 SHMDPNQNVKCKIVVVGDSQCGKTALLHVFAK   50 (205)
T ss_dssp             --------CEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCCcccceeeEEEEECCCCCCHHHHHHHHhc
Confidence            3344 556789999999999999999999886

>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=93.25  E-value=0.057  Score=48.73  Aligned_cols=27  Identities=26%  Similarity=0.384  Sum_probs=23.9

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+...+||+++|+.++|||+++.++..
T Consensus        11 ~~~~~~ki~v~G~~~~GKSsli~~~~~   37 (221)
T 3gj0_A           11 EPQVQFKLVLVGDGGTGKTTFVKRHLT   37 (221)
T ss_dssp             CCCCEEEEEEEECTTSSHHHHHTTBHH
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHc
Confidence            556679999999999999999999765

>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=93.22  E-value=0.06  Score=46.78  Aligned_cols=27  Identities=56%  Similarity=0.961  Sum_probs=24.4

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +++..+||+++|+.++|||+++.++..
T Consensus         7 ~~~~~~ki~v~G~~~~GKSsli~~l~~   33 (195)
T 3bc1_A            7 DYDYLIKFLALGDSGVGKTSVLYQYTD   33 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceeEEEEEECCCCCCHHHHHHHHhc
Confidence            567789999999999999999999876

>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=93.11  E-value=0.054  Score=46.01  Aligned_cols=25  Identities=44%  Similarity=0.708  Sum_probs=22.0

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      |+.+||+++|+.++|||+++.++..
T Consensus         1 ~~~~~i~v~G~~~~GKssli~~l~~   25 (170)
T 1g16_A            1 DSIMKILLIGDSGVGKSCLLVRFVE   25 (170)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECcCCCCHHHHHHHHHh
Confidence            3568999999999999999999875

>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=92.99  E-value=0.065  Score=45.61  Aligned_cols=26  Identities=31%  Similarity=0.515  Sum_probs=22.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +++.+||+++|+.++|||+++.++..
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCE   28 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHc
Confidence            46778999999999999999988875

>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=92.98  E-value=0.041  Score=50.05  Aligned_cols=20  Identities=35%  Similarity=0.670  Sum_probs=18.1

Q ss_pred             EEEEeCcccchhHHHHHhhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~   81 (432)
                      -|+|+|++|+|||||++.|.
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~   40 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALL   40 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHH
Confidence            57899999999999999973

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=92.94  E-value=0.042  Score=48.97  Aligned_cols=19  Identities=26%  Similarity=0.538  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus         9 ii~l~Gp~GsGKSTl~~~L   27 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRAL   27 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHH
Confidence            4789999999999999987

>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=92.92  E-value=0.043  Score=49.42  Aligned_cols=19  Identities=32%  Similarity=0.660  Sum_probs=17.6

Q ss_pred             EEEeCcccchhHHHHHhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~   81 (432)
                      |+|+|++||||+||+++|.
T Consensus         4 IVi~GPSG~GK~Tl~~~L~   22 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLF   22 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999999984

>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=92.79  E-value=0.05  Score=48.28  Aligned_cols=27  Identities=30%  Similarity=0.364  Sum_probs=21.6

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+..+||+++|+.++|||+++.++..
T Consensus        24 ~~~~~~ki~v~G~~~~GKSsli~~l~~   50 (199)
T 2p5s_A           24 SSQKAYKIVLAGDAAVGKSSFLMRLCK   50 (199)
T ss_dssp             ----CEEEEEESSTTSSHHHHHHHHHH
T ss_pred             CcCCCeEEEEECcCCCCHHHHHHHHHh
Confidence            345678999999999999999999876

>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=92.73  E-value=0.042  Score=48.41  Aligned_cols=19  Identities=37%  Similarity=0.541  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|++|+|||||++.+
T Consensus        11 ~i~l~G~~GsGKSTl~~~L   29 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEAL   29 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5889999999999999997

>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=92.67  E-value=0.08  Score=44.82  Aligned_cols=25  Identities=28%  Similarity=0.599  Sum_probs=22.2

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +..+||+++|+.|+|||+++.++..
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~   27 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCK   27 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHc
Confidence            4678999999999999999999876

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=92.61  E-value=0.047  Score=47.89  Aligned_cols=19  Identities=26%  Similarity=0.389  Sum_probs=17.2

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        11 i~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999975

>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=92.59  E-value=0.074  Score=46.83  Aligned_cols=27  Identities=33%  Similarity=0.426  Sum_probs=23.1

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .++..+||+++|+.++|||+++.++..
T Consensus        19 ~~~~~~ki~vvG~~~~GKSsli~~l~~   45 (192)
T 2fg5_A           19 SAIRELKVCLLGDTGVGKSSIVCRFVQ   45 (192)
T ss_dssp             --CEEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             ccCCceEEEEECcCCCCHHHHHHHHhc
Confidence            456779999999999999999999876

>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=92.57  E-value=0.05  Score=49.09  Aligned_cols=19  Identities=37%  Similarity=0.545  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|+|++|+|||||++.+
T Consensus        22 i~~l~GpnGsGKSTLl~~l   40 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCL   40 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>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=92.54  E-value=0.068  Score=48.73  Aligned_cols=27  Identities=19%  Similarity=0.364  Sum_probs=22.8

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .++..+||+++|++++|||+|+.++..
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHh
Confidence            456779999999999999999999863

>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=92.52  E-value=0.051  Score=49.19  Aligned_cols=19  Identities=32%  Similarity=0.482  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|+|+|++|+|||||++.|
T Consensus        10 ~i~l~GpsGsGKsTl~~~L   28 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAV   28 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHH
Confidence            4789999999999999997

>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=92.48  E-value=0.052  Score=50.03  Aligned_cols=20  Identities=20%  Similarity=0.489  Sum_probs=18.0

Q ss_pred             EEEEeCcccchhHHHHHhhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~   81 (432)
                      -++|+|++|+|||||++.+.
T Consensus        18 ii~l~GpsGsGKSTLlk~L~   37 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALL   37 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            57899999999999999973

>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=92.46  E-value=0.071  Score=46.91  Aligned_cols=26  Identities=12%  Similarity=0.231  Sum_probs=22.2

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ....+||+++|+.++|||+++.++..
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~   43 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLT   43 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHh
Confidence            34568999999999999999999886

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.45  E-value=0.053  Score=49.61  Aligned_cols=19  Identities=32%  Similarity=0.613  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus        25 ~~~lvGpsGsGKSTLl~~L   43 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKL   43 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>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=92.37  E-value=0.076  Score=45.64  Aligned_cols=27  Identities=33%  Similarity=0.624  Sum_probs=22.3

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+..+||+++|..|+|||+++.++..
T Consensus         4 ~~~~~~~i~v~G~~~~GKSsli~~l~~   30 (182)
T 1ky3_A            4 RKKNILKVIILGDSGVGKTSLMHRYVN   30 (182)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ccCceEEEEEECCCCCCHHHHHHHHHh
Confidence            345678999999999999999999876

>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=92.35  E-value=0.058  Score=46.38  Aligned_cols=19  Identities=21%  Similarity=0.195  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|.|.+|+||||+.+.|
T Consensus         3 ~i~l~G~~GsGKsT~~~~L   21 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKL   21 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5889999999999999987

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=92.30  E-value=0.057  Score=48.57  Aligned_cols=19  Identities=26%  Similarity=0.557  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|+|+|++|+|||||++.|
T Consensus        14 ~i~l~G~sGsGKsTl~~~L   32 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKV   32 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999997

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=92.28  E-value=0.15  Score=47.49  Aligned_cols=21  Identities=24%  Similarity=0.395  Sum_probs=17.0

Q ss_pred             EEEEe--CcccchhHHHHHhhhc
Q psy3450          62 KFLLV--GDSDVGKQEILSGLYL   82 (432)
Q Consensus        62 KVvvv--G~~gvGKSSLln~L~~   82 (432)
                      ||+|+  |.+++||+.|++++|.
T Consensus        29 kilvl~~~~~~~~~~~~~~~lf~   51 (233)
T 3uc9_A           29 KILVLSDHPHNFLKTQFLQDLFH   51 (233)
T ss_dssp             EEEEEEEGGGHHHHHHHHHHHHC
T ss_pred             ceEEEecCcccccHHHHHHHHhc
Confidence            45555  9999999999999843

>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=92.23  E-value=0.06  Score=46.05  Aligned_cols=19  Identities=32%  Similarity=0.392  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|+|+|.+|+||||+.+.|
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5889999999999999986

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=92.09  E-value=0.064  Score=48.44  Aligned_cols=22  Identities=23%  Similarity=0.179  Sum_probs=19.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ....|.|+|++|+|||||++.+
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l   42 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPL   42 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4468999999999999999987

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.06  E-value=0.094  Score=45.73  Aligned_cols=49  Identities=18%  Similarity=0.142  Sum_probs=34.7

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      ++..+||+++|..++|||+++.++..      ..+.+...++...++..+.+-++
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~------~~~~~~~~~t~~~~~~~~~~~~~   52 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTK------DTFHENTNTTIGASFCTYVVNLN   52 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHH------SCCCSSCCCCCSCEEEEEEEETT
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHh------CcCCCCcCccccceeEEEEEEec
Confidence            35678999999999999999999886      44444444555555555545444

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=91.99  E-value=0.067  Score=46.29  Aligned_cols=19  Identities=37%  Similarity=0.496  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|+|.+|+|||||++.+
T Consensus         6 ~i~l~G~~GsGKSTl~~~L   24 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQL   24 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>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=91.96  E-value=0.094  Score=46.09  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=22.5

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+||+++|+.|+|||+++.++..
T Consensus        18 ~~~~ki~ivG~~~vGKSsL~~~~~~   42 (184)
T 3ihw_A           18 GPELKVGIVGNLSSGKSALVHRYLT   42 (184)
T ss_dssp             CCEEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhc
Confidence            3458999999999999999999886

>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=91.91  E-value=0.11  Score=44.59  Aligned_cols=26  Identities=23%  Similarity=0.314  Sum_probs=22.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +...+||+++|+.|+|||+++.++..
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~   31 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQ   31 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHh
Confidence            34568999999999999999999876

>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=91.90  E-value=0.1  Score=46.21  Aligned_cols=25  Identities=52%  Similarity=0.927  Sum_probs=23.1

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++.+|++++|+.|+|||+++.++..
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~   27 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTR   27 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHH
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhc
Confidence            5789999999999999999999876

>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=91.86  E-value=0.096  Score=45.69  Aligned_cols=27  Identities=33%  Similarity=0.505  Sum_probs=23.2

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +....+||+++|+.++|||+++.++..
T Consensus        11 ~~~~~~~i~v~G~~~~GKssli~~l~~   37 (195)
T 1x3s_A           11 DVLTTLKILIIGESGVGKSSLLLRFTD   37 (195)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHc
Confidence            334468999999999999999999876

>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=91.81  E-value=0.072  Score=47.01  Aligned_cols=19  Identities=26%  Similarity=0.527  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L   22 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRL   22 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999997

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=91.78  E-value=0.073  Score=46.10  Aligned_cols=19  Identities=21%  Similarity=0.274  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|++.|.+|+||||+.+.|
T Consensus         4 ~I~i~G~~GsGKST~a~~L   22 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREF   22 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHH
Confidence            5889999999999999997

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=91.73  E-value=0.076  Score=47.88  Aligned_cols=20  Identities=20%  Similarity=0.381  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ++|+|.|.+|+||||+.+.|
T Consensus         1 m~I~l~G~~GsGKsT~a~~L   20 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQI   20 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            37899999999999999987

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=91.72  E-value=0.073  Score=47.34  Aligned_cols=19  Identities=32%  Similarity=0.471  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|+|++|+|||||++.+
T Consensus         8 ~i~l~G~~GsGKSTl~~~L   26 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRI   26 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>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=91.66  E-value=0.11  Score=44.04  Aligned_cols=26  Identities=35%  Similarity=0.391  Sum_probs=22.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++..+||+++|+.++|||+++.++..
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~   28 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVE   28 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHc
Confidence            34568999999999999999999876

>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=91.64  E-value=0.094  Score=46.09  Aligned_cols=28  Identities=32%  Similarity=0.479  Sum_probs=22.8

Q ss_pred             ccccceeeEEEEecCCCcccceechhhh
Q psy3450          11 KQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        11 ~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ......+||+++|+.++|||+++.++..
T Consensus        18 ~~~~~~~ki~~vG~~~~GKSsl~~~l~~   45 (194)
T 3reg_A           18 ENGKKALKIVVVGDGAVGKTCLLLAFSK   45 (194)
T ss_dssp             ---CEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cccceeeEEEEECcCCCCHHHHHHHHhc
Confidence            3445668999999999999999999876

>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=91.62  E-value=0.056  Score=52.62  Aligned_cols=19  Identities=32%  Similarity=0.635  Sum_probs=18.1

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|++|||||||+|.+
T Consensus       175 ~~~lvG~sG~GKSTLln~L  193 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAI  193 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHh
Confidence            6899999999999999997

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=91.58  E-value=0.08  Score=47.77  Aligned_cols=20  Identities=20%  Similarity=0.345  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ++|+|+|.+|+||||+.+.|
T Consensus         1 m~I~l~G~~GsGKsT~a~~L   20 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERI   20 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            37999999999999999987

>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=91.57  E-value=0.11  Score=44.04  Aligned_cols=25  Identities=28%  Similarity=0.488  Sum_probs=22.3

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+||+++|+.++|||+++.++..
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHc
Confidence            3568999999999999999999876

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=91.50  E-value=0.093  Score=46.81  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=20.6

Q ss_pred             ccceEEEEEeCcccchhHHHHHhh
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ......|+|+|.+|+||||+.+.|
T Consensus        17 ~~~~~~I~l~G~~GsGKST~a~~L   40 (201)
T 2cdn_A           17 RGSHMRVLLLGPPGAGKGTQAVKL   40 (201)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHH
Confidence            344568999999999999999987

>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=91.49  E-value=0.085  Score=48.87  Aligned_cols=20  Identities=20%  Similarity=0.476  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.|+|+|++|+|||||++.+
T Consensus        28 ~~i~l~G~~GsGKSTl~k~L   47 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRI   47 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999987

>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=91.47  E-value=0.11  Score=45.16  Aligned_cols=20  Identities=30%  Similarity=0.478  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.|+++|.+|+||||+++.+
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l   28 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEV   28 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHH
Confidence            36899999999999999987

>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=91.41  E-value=0.14  Score=44.11  Aligned_cols=27  Identities=22%  Similarity=0.378  Sum_probs=22.7

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+...+||+++|+.++|||+++.++..
T Consensus         8 ~~~~~~ki~v~G~~~~GKSsli~~l~~   34 (181)
T 2efe_B            8 NKSINAKLVLLGDVGAGKSSLVLRFVK   34 (181)
T ss_dssp             --CEEEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCccceEEEEECcCCCCHHHHHHHHHc
Confidence            345678999999999999999998876

>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=91.33  E-value=0.13  Score=45.13  Aligned_cols=25  Identities=40%  Similarity=0.636  Sum_probs=22.9

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+||+++|+.++|||+++.++..
T Consensus        16 ~~~~ki~v~G~~~~GKssli~~l~~   40 (194)
T 2atx_A           16 ALMLKCVVVGDGAVGKTCLLMSYAN   40 (194)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhc
Confidence            4678999999999999999999886

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=91.25  E-value=0.083  Score=52.51  Aligned_cols=19  Identities=37%  Similarity=0.625  Sum_probs=18.0

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|++|||||||+|.+
T Consensus       217 ~~~lvG~sG~GKSTLln~L  235 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNAL  235 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHH
Confidence            5899999999999999998

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=91.24  E-value=0.088  Score=47.13  Aligned_cols=20  Identities=30%  Similarity=0.491  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.|+|+|++|+|||||++.+
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L   49 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGV   49 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35889999999999999987

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=91.20  E-value=0.091  Score=45.64  Aligned_cols=19  Identities=37%  Similarity=0.536  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|++.|.+|+||||+.+.|
T Consensus         5 ~i~l~G~~GsGKST~a~~L   23 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCL   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999987

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=91.18  E-value=0.12  Score=44.30  Aligned_cols=24  Identities=25%  Similarity=0.483  Sum_probs=21.9

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+||+++|+.++|||+++.++..
T Consensus         5 ~~~ki~v~G~~~~GKssl~~~l~~   28 (178)
T 2hxs_A            5 RQLKIVVLGDGASGKTSLTTCFAQ   28 (178)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHG
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHh
Confidence            458999999999999999999876

>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=91.12  E-value=0.18  Score=44.66  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=21.8

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .-+||+++|+.++|||+++.++..
T Consensus        24 ~~~ki~vvG~~~~GKSsli~~l~~   47 (201)
T 2gco_A           24 IRKKLVIVGDGACGKTCLLIVFSK   47 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHh
Confidence            458999999999999999998876

>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=91.06  E-value=0.097  Score=45.65  Aligned_cols=19  Identities=32%  Similarity=0.532  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|+.|+|||||++.+
T Consensus        35 ~v~L~G~nGaGKTTLlr~l   53 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGM   53 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>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=91.05  E-value=0.13  Score=45.09  Aligned_cols=29  Identities=14%  Similarity=0.268  Sum_probs=22.9

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      |+.....+||+++|+.++|||+++.++..
T Consensus         2 m~~~~~~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            2 MPEQSNDYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             ---CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CccCCCeeEEEEECCCCCcHHHHHHHHHc
Confidence            34445568999999999999999999876

>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=91.03  E-value=0.11  Score=45.18  Aligned_cols=26  Identities=31%  Similarity=0.477  Sum_probs=22.3

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+..+||+++|+.++|||+++.++..
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~   29 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAK   29 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999999999876

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=91.03  E-value=0.099  Score=46.25  Aligned_cols=19  Identities=26%  Similarity=0.468  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|+|.+|+||||+++.|
T Consensus         2 ~I~i~G~~GsGKsT~~~~L   20 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEI   20 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHH
Confidence            5899999999999999987

>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=91.00  E-value=0.094  Score=45.91  Aligned_cols=19  Identities=26%  Similarity=0.457  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|++|+|||+|++.+
T Consensus        40 ~~~l~G~~G~GKTtL~~~i   58 (180)
T 3ec2_A           40 GLTFVGSPGVGKTHLAVAT   58 (180)
T ss_dssp             EEEECCSSSSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999986

>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=91.00  E-value=0.094  Score=48.72  Aligned_cols=19  Identities=26%  Similarity=0.385  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        33 ~~~iiG~nGsGKSTLl~~l   51 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNII   51 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999986

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=90.98  E-value=0.1  Score=46.58  Aligned_cols=20  Identities=20%  Similarity=0.414  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.|+++|.+|+||||+.+.+
T Consensus        26 ~~i~l~G~~GsGKsTl~~~L   45 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAF   45 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHH
Confidence            36899999999999999987

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=90.95  E-value=0.24  Score=45.62  Aligned_cols=20  Identities=25%  Similarity=0.363  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      --+++.|++|+|||+|++.+
T Consensus        40 ~~vll~G~~GtGKT~la~~l   59 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAV   59 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHH
Confidence            45899999999999999987

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=90.94  E-value=0.1  Score=45.55  Aligned_cols=19  Identities=26%  Similarity=0.401  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|.|.+|+||||+.+.|
T Consensus         3 ~I~i~G~~GsGKsT~~~~L   21 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKV   21 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=90.93  E-value=0.098  Score=46.70  Aligned_cols=20  Identities=20%  Similarity=0.323  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|+|.+|+||||+.+.|
T Consensus        19 ~~I~l~G~~GsGKSTla~~L   38 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAI   38 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            36899999999999999987

>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=90.91  E-value=0.12  Score=46.27  Aligned_cols=29  Identities=24%  Similarity=0.355  Sum_probs=22.5

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      |...+..+||+++|+.++|||+++.++..
T Consensus         5 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~   33 (218)
T 4djt_A            5 MERRELTYKICLIGDGGVGKTTYINRVLD   33 (218)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHCBCTT
T ss_pred             cccccCccEEEEECCCCCCHHHHHHHHhc
Confidence            45566779999999999999999999875

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=90.88  E-value=0.095  Score=50.57  Aligned_cols=19  Identities=53%  Similarity=0.684  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|||||||+|.+
T Consensus       167 i~~l~G~sG~GKSTLln~l  185 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRL  185 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999998

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=90.71  E-value=0.1  Score=50.29  Aligned_cols=19  Identities=32%  Similarity=0.461  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|++|+|||||+|.+
T Consensus       171 iv~l~G~sG~GKSTll~~l  189 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAI  189 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHh
Confidence            5789999999999999997

>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=90.67  E-value=0.14  Score=43.17  Aligned_cols=23  Identities=30%  Similarity=0.598  Sum_probs=20.9

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+||+++|+.++|||+++.++..
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~   25 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            36999999999999999999876

>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=90.61  E-value=0.19  Score=43.14  Aligned_cols=29  Identities=45%  Similarity=0.633  Sum_probs=24.6

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+.++..+||+++|+.++|||+++.++..
T Consensus         4 ~~~~~~~~~i~v~G~~~~GKssli~~l~~   32 (180)
T 2g6b_A            4 VDFYDVAFKVMLVGDSGVGKTCLLVRFKD   32 (180)
T ss_dssp             -CCCSEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cccCCcceEEEEECcCCCCHHHHHHHHHh
Confidence            34567789999999999999999999875

>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=90.60  E-value=0.17  Score=44.91  Aligned_cols=27  Identities=44%  Similarity=0.754  Sum_probs=21.5

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+..+||+++|+.++|||+++.++..
T Consensus        16 ~~~~~~~i~v~G~~~~GKSsli~~l~~   42 (213)
T 3cph_A           16 SYDSIMKILLIGDSGVGKSCLLVRFVE   42 (213)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHh
Confidence            455679999999999999999998875

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=90.55  E-value=0.12  Score=45.10  Aligned_cols=20  Identities=15%  Similarity=0.082  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L   23 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLA   23 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            36899999999999999987

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=90.53  E-value=0.1  Score=46.91  Aligned_cols=19  Identities=26%  Similarity=0.515  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +++++|++|+|||||++.+
T Consensus         3 ~i~i~G~nG~GKTTll~~l   21 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKA   21 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            4789999999999999987

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=90.43  E-value=0.13  Score=45.03  Aligned_cols=20  Identities=30%  Similarity=0.383  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+.+.|
T Consensus         6 ~~i~l~G~~GsGKst~a~~L   25 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQL   25 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            36899999999999999987

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=90.43  E-value=0.12  Score=44.57  Aligned_cols=19  Identities=42%  Similarity=0.798  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|++|+|||+|++.+
T Consensus        45 ~~ll~G~~G~GKT~l~~~~   63 (195)
T 1jbk_A           45 NPVLIGEPGVGKTAIVEGL   63 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=90.42  E-value=0.13  Score=46.20  Aligned_cols=20  Identities=20%  Similarity=0.380  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|.|+|+.|+|||||++.+
T Consensus         7 ~~i~i~G~~GsGKSTl~~~l   26 (211)
T 3asz_A            7 FVIGIAGGTASGKTTLAQAL   26 (211)
T ss_dssp             EEEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>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=90.40  E-value=0.12  Score=46.28  Aligned_cols=20  Identities=25%  Similarity=0.316  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      --|+|+|++|+|||||++.+
T Consensus        26 ~~i~l~G~sGsGKSTl~~~L   45 (200)
T 3uie_A           26 CVIWVTGLSGSGKSTLACAL   45 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            46889999999999999987

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=90.40  E-value=0.44  Score=46.06  Aligned_cols=18  Identities=33%  Similarity=0.486  Sum_probs=17.1

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      +++.|++|+||||+++.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~l   56 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMAL   56 (354)
T ss_dssp             EEEECSTTSSHHHHHHTH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999986

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=90.39  E-value=0.1  Score=48.01  Aligned_cols=19  Identities=32%  Similarity=0.396  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        32 ~~~iiG~nGsGKSTLl~~l   50 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYIL   50 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999986

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=90.35  E-value=0.1  Score=46.23  Aligned_cols=19  Identities=32%  Similarity=0.616  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+.|+|++|+|||||++.+
T Consensus         4 ~v~IvG~SGsGKSTL~~~L   22 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRM   22 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5889999999999999987

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=90.35  E-value=0.11  Score=46.26  Aligned_cols=20  Identities=20%  Similarity=0.315  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      .+|+|+|.+|+||||+.+.|
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L   21 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMF   21 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHH
Confidence            36899999999999999987

>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=90.33  E-value=0.13  Score=46.56  Aligned_cols=20  Identities=20%  Similarity=0.290  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|+|++|+||||+++.+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L   25 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAM   25 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999987

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=90.31  E-value=0.2  Score=44.61  Aligned_cols=24  Identities=38%  Similarity=0.544  Sum_probs=21.9

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+||+++|+.++|||+++.++..
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~   31 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTS   31 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            568999999999999999999876

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=90.29  E-value=0.25  Score=41.76  Aligned_cols=19  Identities=11%  Similarity=0.202  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|++.|++|+|||++++.+
T Consensus        29 ~vll~G~~GtGKt~lA~~i   47 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYF   47 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGG
T ss_pred             cEEEECCCCccHHHHHHHH
Confidence            4899999999999999986

>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=90.28  E-value=0.13  Score=43.70  Aligned_cols=23  Identities=35%  Similarity=0.619  Sum_probs=20.8

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++||+++|+.++|||+++.++..
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHh
Confidence            57999999999999999999864

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=90.25  E-value=0.084  Score=48.35  Aligned_cols=19  Identities=26%  Similarity=0.389  Sum_probs=13.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|+|++|+|||||++.+
T Consensus        29 ii~l~Gp~GsGKSTl~~~L   47 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKL   47 (231)
T ss_dssp             EEEEECSCC----CHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>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=90.25  E-value=0.12  Score=45.77  Aligned_cols=19  Identities=26%  Similarity=0.316  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|.+|+|||||++++
T Consensus         8 ~i~i~G~sGsGKTTl~~~l   26 (174)
T 1np6_A            8 LLAFAAWSGTGKTTLLKKL   26 (174)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHH
Confidence            5789999999999999997

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=90.24  E-value=0.15  Score=44.64  Aligned_cols=20  Identities=25%  Similarity=0.368  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+.+.|
T Consensus         5 ~~I~l~G~~GsGKST~~~~L   24 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRL   24 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            46999999999999999987

>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=90.20  E-value=0.11  Score=46.81  Aligned_cols=19  Identities=21%  Similarity=0.286  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|+|++|+|||||++.+
T Consensus        27 ~~~l~G~nGsGKSTll~~l   45 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTL   45 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>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=90.15  E-value=0.13  Score=46.43  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=21.6

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+||+++|+.++|||+++.++..
T Consensus        25 ~~~~ki~vvG~~~vGKSsL~~~l~~   49 (214)
T 3q3j_B           25 VARCKLVLVGDVQCGKTAMLQVLAK   49 (214)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhc
Confidence            3458999999999999999999876

>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=90.09  E-value=0.13  Score=44.15  Aligned_cols=24  Identities=21%  Similarity=0.409  Sum_probs=21.8

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+||+++|+.++|||+++.++..
T Consensus         6 ~~~ki~~vG~~~vGKTsli~~l~~   29 (178)
T 2iwr_A            6 PELRLGVLGDARSGKSSLIHRFLT   29 (178)
T ss_dssp             CEEEEEEECCGGGCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            347999999999999999999886

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=90.02  E-value=0.16  Score=44.53  Aligned_cols=20  Identities=20%  Similarity=0.410  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+.+.|
T Consensus         6 ~~I~l~G~~GsGKST~~~~L   25 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQAL   25 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=90.01  E-value=0.12  Score=46.59  Aligned_cols=19  Identities=21%  Similarity=0.345  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +|+|.|.+|+||||+.+.|
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFI   20 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999987

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=90.01  E-value=0.13  Score=48.03  Aligned_cols=19  Identities=26%  Similarity=0.422  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        26 ~~~liG~nGsGKSTLl~~l   44 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELI   44 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>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=90.00  E-value=0.14  Score=47.59  Aligned_cols=19  Identities=37%  Similarity=0.567  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        33 ~~~i~G~nGsGKSTLl~~l   51 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSAL   51 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=89.96  E-value=0.13  Score=48.62  Aligned_cols=19  Identities=26%  Similarity=0.475  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|+|+.|+|||||++.+
T Consensus        34 ~~~liG~nGsGKSTLlk~l   52 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCI   52 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999986

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=89.93  E-value=0.31  Score=41.16  Aligned_cols=19  Identities=21%  Similarity=0.195  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|++.|++|+|||++++.+
T Consensus        26 ~vll~G~~GtGKt~lA~~i   44 (145)
T 3n70_A           26 AVWLYGAPGTGRMTGARYL   44 (145)
T ss_dssp             CEEEESSTTSSHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHH
Confidence            4899999999999999987

>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=89.90  E-value=0.097  Score=46.87  Aligned_cols=19  Identities=21%  Similarity=0.386  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|+|.|.+|+||||+++.|
T Consensus         2 ~I~i~G~~GsGKsTl~~~L   20 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKL   20 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            4789999999999999987

>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=89.82  E-value=0.15  Score=47.56  Aligned_cols=19  Identities=37%  Similarity=0.394  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        30 ~~~i~G~nGsGKSTLl~~l   48 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLL   48 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=89.76  E-value=0.15  Score=47.74  Aligned_cols=19  Identities=26%  Similarity=0.328  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        37 ~~~i~G~nGsGKSTLl~~l   55 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLI   55 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=89.75  E-value=0.15  Score=46.50  Aligned_cols=20  Identities=20%  Similarity=0.393  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +.|+++|+||+||+|...++
T Consensus         1 M~Iil~GpPGsGKgTqa~~L   20 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRL   20 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            36899999999999999987

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=89.75  E-value=0.15  Score=44.00  Aligned_cols=19  Identities=47%  Similarity=0.828  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|++|+|||+|++.+
T Consensus        45 ~vll~G~~G~GKT~la~~~   63 (187)
T 2p65_A           45 NPILLGDPGVGKTAIVEGL   63 (187)
T ss_dssp             EEEEESCGGGCHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHH
Confidence            5789999999999999986

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=89.72  E-value=0.14  Score=46.93  Aligned_cols=19  Identities=21%  Similarity=0.417  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        37 ~~~iiG~NGsGKSTLlk~l   55 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTI   55 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>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=89.72  E-value=0.15  Score=50.42  Aligned_cols=21  Identities=19%  Similarity=0.370  Sum_probs=19.3

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .-+++|+|++|+|||||++.+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L  190 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKL  190 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHH
T ss_pred             hCeEEEECCCCCCHHHHHHHH
Confidence            468999999999999999987

>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=89.71  E-value=0.1  Score=46.24  Aligned_cols=25  Identities=20%  Similarity=0.375  Sum_probs=22.4

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +..+||+++|++++|||+++.++..
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhc
Confidence            4568999999999999999999874

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=89.71  E-value=0.14  Score=48.18  Aligned_cols=19  Identities=21%  Similarity=0.489  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        35 ~~~liG~nGsGKSTLlk~l   53 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVI   53 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999986

>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=89.70  E-value=0.26  Score=48.92  Aligned_cols=19  Identities=32%  Similarity=0.609  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        32 ~~~llGpsGsGKSTLLr~i   50 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCL   50 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCchHHHHHHHH
Confidence            4789999999999999986

>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=89.69  E-value=0.15  Score=49.47  Aligned_cols=19  Identities=21%  Similarity=0.461  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus       128 ~vaIvGpsGsGKSTLl~lL  146 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSL  146 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            6899999999999999987

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=89.67  E-value=0.17  Score=44.95  Aligned_cols=20  Identities=20%  Similarity=0.172  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L   24 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLL   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHH
Confidence            46899999999999999987

>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=89.67  E-value=0.19  Score=43.16  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=21.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ....+||+++|+.++|||+++.++..
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~   40 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMY   40 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhh
Confidence            34568999999999999999999875

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=89.66  E-value=0.17  Score=46.90  Aligned_cols=22  Identities=18%  Similarity=0.240  Sum_probs=19.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..++|+|.|.+|+||||+.++|
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L   49 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNL   49 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3578999999999999999987

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=89.64  E-value=0.14  Score=48.84  Aligned_cols=19  Identities=21%  Similarity=0.490  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        36 ~~~iiGpnGsGKSTLl~~l   54 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNF   54 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999986

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=89.59  E-value=0.14  Score=48.29  Aligned_cols=19  Identities=21%  Similarity=0.485  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus        27 ~v~i~Gp~GsGKSTll~~l   45 (261)
T 2eyu_A           27 LILVTGPTGSGKSTTIASM   45 (261)
T ss_dssp             EEEEECSTTCSHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHH
Confidence            5899999999999999987

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=89.57  E-value=0.17  Score=45.11  Aligned_cols=20  Identities=25%  Similarity=0.212  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +.|.++|.+|+||||+.+.|
T Consensus         3 ~~i~l~G~~GsGKST~~~~L   22 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLF   22 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>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=89.45  E-value=0.15  Score=47.42  Aligned_cols=19  Identities=32%  Similarity=0.524  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        34 ~~~l~G~nGsGKSTLl~~l   52 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAI   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=89.45  E-value=0.15  Score=48.31  Aligned_cols=19  Identities=32%  Similarity=0.510  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        52 i~~liG~NGsGKSTLlk~l   70 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCL   70 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHH
Confidence            4789999999999999986

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=89.45  E-value=0.15  Score=48.37  Aligned_cols=19  Identities=26%  Similarity=0.466  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        39 ~~~liG~nGsGKSTLl~~l   57 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLL   57 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999987

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=89.43  E-value=0.17  Score=43.46  Aligned_cols=19  Identities=32%  Similarity=0.312  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +|+|.|.+|+||||+.+.|
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLL   20 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            6899999999999999987

>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=89.39  E-value=0.17  Score=46.77  Aligned_cols=19  Identities=21%  Similarity=0.424  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        36 ~~~i~G~nGsGKSTLl~~l   54 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMI   54 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=89.39  E-value=0.22  Score=44.24  Aligned_cols=22  Identities=18%  Similarity=0.283  Sum_probs=19.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ....|+|.|.+|+||||+.+.|
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L   35 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKL   35 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHH
Confidence            3457899999999999999987

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=89.38  E-value=0.17  Score=46.44  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ....|+|+|.+|+||||+.+.|
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~L   36 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKL   36 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3468999999999999999987

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=89.33  E-value=0.14  Score=46.81  Aligned_cols=19  Identities=16%  Similarity=0.163  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        24 ~~~liG~nGsGKSTLl~~l   42 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAK   42 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=89.19  E-value=0.17  Score=47.66  Aligned_cols=19  Identities=37%  Similarity=0.448  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        48 ~~~i~G~nGsGKSTLl~~l   66 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLL   66 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5889999999999999987

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=89.16  E-value=0.15  Score=44.33  Aligned_cols=19  Identities=21%  Similarity=0.427  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +|+|+|.+|+||||+.+.|
T Consensus         6 ~i~i~G~~GsGKsTla~~L   24 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARAL   24 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            5899999999999999987

>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=89.15  E-value=0.22  Score=42.91  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=21.6

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+||+++|+.++|||+++.++..
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHc
Confidence            357999999999999999999875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=89.14  E-value=0.2  Score=43.78  Aligned_cols=20  Identities=20%  Similarity=0.393  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|++.|.+|+||||+.+.|
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L   23 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARI   23 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999886

>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=89.13  E-value=0.16  Score=47.60  Aligned_cols=19  Identities=32%  Similarity=0.562  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        28 ~~~liG~NGsGKSTLlk~l   46 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARM   46 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999987

>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=89.13  E-value=0.16  Score=47.48  Aligned_cols=19  Identities=26%  Similarity=0.308  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        31 ~~~l~G~nGsGKSTLlk~l   49 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKIL   49 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>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=89.12  E-value=0.22  Score=42.34  Aligned_cols=24  Identities=33%  Similarity=0.516  Sum_probs=21.8

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +.+||+++|+.++|||+++.++..
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             eEEEEEEECCCCccHHHHHHHHhc
Confidence            568999999999999999999875

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=89.09  E-value=0.17  Score=44.07  Aligned_cols=20  Identities=35%  Similarity=0.491  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+.+.|
T Consensus        12 ~~i~i~G~~GsGKst~~~~l   31 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKEL   31 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHH
Confidence            35889999999999999987

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=89.07  E-value=0.18  Score=45.70  Aligned_cols=20  Identities=25%  Similarity=0.549  Sum_probs=18.6

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|+|.+|+||||+.+.|
T Consensus         5 ~~I~l~G~~GsGKsT~a~~L   24 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNL   24 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            57999999999999999987

>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=89.01  E-value=0.39  Score=42.88  Aligned_cols=26  Identities=19%  Similarity=0.374  Sum_probs=22.6

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+..+||+++|..|+|||+++.++..
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~   34 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTT   34 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhc
Confidence            34568999999999999999999876

>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=89.00  E-value=0.21  Score=44.61  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=19.1

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...|+|+|.+|+|||||++.|
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L   41 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNL   41 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            457899999999999999987

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=89.00  E-value=0.18  Score=47.85  Aligned_cols=19  Identities=32%  Similarity=0.364  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        47 ~~~i~G~nGsGKSTLlk~l   65 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALL   65 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=88.97  E-value=0.17  Score=47.69  Aligned_cols=19  Identities=32%  Similarity=0.454  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        43 i~~l~G~NGsGKSTLlk~l   61 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRII   61 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=88.94  E-value=0.17  Score=47.92  Aligned_cols=19  Identities=21%  Similarity=0.385  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        48 ~~~l~G~NGsGKSTLlk~l   66 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATL   66 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=88.94  E-value=0.2  Score=44.20  Aligned_cols=20  Identities=20%  Similarity=0.489  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+.+.|
T Consensus        11 ~~I~l~G~~GsGKSTv~~~L   30 (184)
T 1y63_A           11 INILITGTPGTGKTSMAEMI   30 (184)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999987

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=88.93  E-value=0.18  Score=44.44  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=6.8

Q ss_pred             ceeeEEEEecCCCcccceechhhhH
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLE   39 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~   39 (432)
                      ..+||+++|+.++|||+++.++...
T Consensus        19 ~~~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           19 LRCKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEEEC-----------------
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhC
Confidence            4589999999999999999998763

>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=88.91  E-value=0.17  Score=49.02  Aligned_cols=19  Identities=47%  Similarity=0.595  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus        82 ~vaivG~sGsGKSTLl~ll  100 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLL  100 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHH
T ss_pred             EEEEECCCCchHHHHHHHH
Confidence            6899999999999999986

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=88.90  E-value=0.19  Score=48.06  Aligned_cols=19  Identities=37%  Similarity=0.581  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|+.|+|||||++.+
T Consensus        49 ~~~liG~NGsGKSTLlk~l   67 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNIL   67 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            5789999999999999986

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=88.88  E-value=0.19  Score=45.62  Aligned_cols=21  Identities=19%  Similarity=0.281  Sum_probs=19.0

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...|+|+|.+|+||||+.+.|
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~L   25 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFI   25 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            357999999999999999987

>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=88.86  E-value=0.38  Score=47.92  Aligned_cols=19  Identities=32%  Similarity=0.480  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        31 ~~~llGpnGsGKSTLLr~i   49 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMI   49 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHH
Confidence            4789999999999999987

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=88.82  E-value=0.34  Score=46.30  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=19.1

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..-|++.|++|+|||||.+.+
T Consensus        33 ~~livl~G~sGsGKSTla~~L   53 (287)
T 1gvn_B           33 PTAFLLGGQPGSGKTSLRSAI   53 (287)
T ss_dssp             CEEEEEECCTTSCTHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            457899999999999999997

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=88.77  E-value=0.16  Score=43.69  Aligned_cols=19  Identities=21%  Similarity=0.419  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||+|++.+
T Consensus        38 ~~~l~G~~G~GKTtL~~~i   56 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAW   56 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=88.75  E-value=0.17  Score=46.06  Aligned_cols=20  Identities=25%  Similarity=0.503  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|+|.+|+||||+.+.|
T Consensus         8 ~~I~l~G~~GsGKsT~a~~L   27 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRI   27 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            57999999999999999987

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=88.68  E-value=0.22  Score=49.52  Aligned_cols=23  Identities=35%  Similarity=0.622  Sum_probs=21.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...+||+++|.+++|||||++++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            45789999999999999999986

>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=88.67  E-value=0.19  Score=46.59  Aligned_cols=18  Identities=39%  Similarity=0.652  Sum_probs=17.3

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      ++++|++|+|||+|++.+
T Consensus        52 ~ll~G~~G~GKTtl~~~i   69 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAV   69 (254)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            899999999999999987

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=88.67  E-value=0.19  Score=45.81  Aligned_cols=19  Identities=21%  Similarity=0.270  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|.|.+|+||||+.+.|
T Consensus         2 ~I~l~G~~GsGKsT~a~~L   20 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLV   20 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999987

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=88.61  E-value=0.19  Score=47.26  Aligned_cols=19  Identities=26%  Similarity=0.485  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        33 ~~~l~G~nGsGKSTLl~~l   51 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLL   51 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999986

>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=88.57  E-value=0.35  Score=47.82  Aligned_cols=19  Identities=26%  Similarity=0.524  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        33 ~~~llGpnGsGKSTLLr~i   51 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRII   51 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999986

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=88.54  E-value=0.22  Score=44.38  Aligned_cols=20  Identities=20%  Similarity=0.084  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus        11 ~~I~l~G~~GsGKST~~~~L   30 (212)
T 2wwf_A           11 KFIVFEGLDRSGKSTQSKLL   30 (212)
T ss_dssp             CEEEEEESTTSSHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHH
Confidence            46999999999999999987

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=88.53  E-value=0.21  Score=44.17  Aligned_cols=20  Identities=15%  Similarity=0.174  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L   24 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNI   24 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHH
Confidence            46899999999999999987

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=88.51  E-value=0.19  Score=47.52  Aligned_cols=19  Identities=26%  Similarity=0.504  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        35 ~~~liG~nGsGKSTLl~~i   53 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIV   53 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            5789999999999999986

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=88.45  E-value=0.2  Score=45.02  Aligned_cols=19  Identities=21%  Similarity=0.261  Sum_probs=17.3

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||+..+
T Consensus        25 ~~~i~G~~GsGKTtl~~~l   43 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHF   43 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            4788999999999999987

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=88.39  E-value=0.19  Score=48.78  Aligned_cols=23  Identities=22%  Similarity=0.177  Sum_probs=19.8

Q ss_pred             cceEEEEEeCcccchhHHHHHhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ....-|.|+|++|+|||||++.+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L  110 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVL  110 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHH
Confidence            34457899999999999999987

>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=88.26  E-value=0.29  Score=43.04  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=22.2

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+||+++|+.|+|||+++.++..
T Consensus        12 ~~~~ki~v~G~~~~GKSsli~~l~~   36 (206)
T 2bov_A           12 LALHKVIMVGSGGVGKSALTLQFMY   36 (206)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHh
Confidence            3468999999999999999999875

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=88.22  E-value=0.2  Score=47.47  Aligned_cols=18  Identities=28%  Similarity=0.475  Sum_probs=17.4

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      ++++|++|+|||+|++.+
T Consensus        47 vlL~Gp~GtGKTtLakal   64 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAV   64 (274)
T ss_dssp             EEEESSTTSCHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHH
Confidence            999999999999999987

>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=88.18  E-value=0.22  Score=41.93  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.6

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|+.++|||+++.++..
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~   25 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            6999999999999999999876

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=88.14  E-value=0.21  Score=44.01  Aligned_cols=26  Identities=35%  Similarity=0.514  Sum_probs=21.6

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+..+||+++|+.++|||+++.++..
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~   42 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTT   42 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHh
Confidence            44568999999999999999999876

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=88.12  E-value=0.23  Score=43.44  Aligned_cols=19  Identities=21%  Similarity=0.174  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|++.|.+|+||||+.+.|
T Consensus         2 ~I~l~G~~GsGKsT~~~~L   20 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKL   20 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999987

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=88.12  E-value=0.27  Score=45.82  Aligned_cols=22  Identities=32%  Similarity=0.289  Sum_probs=19.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ....|+++|.+|+||||+.+.+
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L   52 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIK   52 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3467999999999999999987

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=88.12  E-value=0.23  Score=47.05  Aligned_cols=19  Identities=26%  Similarity=0.635  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        32 ~~~i~G~NGsGKSTLlk~l   50 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAI   50 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999987

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=88.12  E-value=0.22  Score=44.93  Aligned_cols=20  Identities=15%  Similarity=0.322  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.+++.|++|+|||+|++.+
T Consensus        53 ~~~ll~G~~G~GKT~la~~l   72 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAA   72 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            36899999999999999987

>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=88.11  E-value=0.21  Score=48.37  Aligned_cols=89  Identities=13%  Similarity=0.015  Sum_probs=47.3

Q ss_pred             EEEEeCCCCcccch-h-----------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC
Q psy3450         126 LQLWDTSGQGRFCT-I-----------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF  193 (432)
Q Consensus       126 l~i~Dt~G~e~~~~-l-----------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~  193 (432)
                      +.+.||+|...... .           .+......+.++++.|.+...   ++...+..+.+.. + ..+|+.||.|...
T Consensus       187 ~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~---~~~~~~~~~~~~~-~-~t~iivTh~d~~a  261 (304)
T 1rj9_A          187 LLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ---NGLEQAKKFHEAV-G-LTGVIVTKLDGTA  261 (304)
T ss_dssp             EEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCT---HHHHHHHHHHHHH-C-CSEEEEECTTSSC
T ss_pred             EEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHH---HHHHHHHHHHHHc-C-CcEEEEECCcccc
Confidence            46889998642211 0           011234567788888876553   3333344443321 1 3467789988542


Q ss_pred             CcccCHHHHHHHHHhcCCcEEEEcCCCCCCHH
Q psy3450         194 NRTVTTREAEMYAIKNQMAFFEVSPLCDFNIR  225 (432)
Q Consensus       194 ~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~  225 (432)
                      ..    -.+.......+.|+..+.  +|++++
T Consensus       262 ~g----g~~l~i~~~~~~pi~~ig--~Ge~~~  287 (304)
T 1rj9_A          262 KG----GVLIPIVRTLKVPIKFVG--VGEGPD  287 (304)
T ss_dssp             CC----TTHHHHHHHHCCCEEEEE--CSSSTT
T ss_pred             cc----cHHHHHHHHHCCCeEEEe--CCCChh
Confidence            21    223455566777766665  444443

>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=88.05  E-value=0.44  Score=41.29  Aligned_cols=26  Identities=19%  Similarity=0.231  Sum_probs=21.7

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .++..+||+++|+.++|||+++ ++..
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~-~~l~   35 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNL-KWIY   35 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHH-HHHH
T ss_pred             ccccccEEEEECCCCCCHHHHH-HHHH
Confidence            4567899999999999999998 4443

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=88.04  E-value=0.2  Score=43.97  Aligned_cols=20  Identities=20%  Similarity=0.277  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+.+.|
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L   29 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKI   29 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=87.98  E-value=0.31  Score=42.76  Aligned_cols=21  Identities=29%  Similarity=0.306  Sum_probs=18.7

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...|+++|.+|+||||+++.+
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L   33 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRL   33 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHH
Confidence            356899999999999999987

>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=87.96  E-value=0.13  Score=45.47  Aligned_cols=29  Identities=21%  Similarity=0.040  Sum_probs=20.1

Q ss_pred             cccccceeeEEEEecCCCcccceechhhh
Q psy3450          10 QKQYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        10 ~~~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ....+..+||+++|+.++|||+++.++..
T Consensus        14 ~~~~~~~~ki~~vG~~~vGKTsLi~~l~~   42 (196)
T 3llu_A           14 LYFQGSKPRILLMGLRRSGKSSIQKVVFH   42 (196)
T ss_dssp             ------CCEEEEEESTTSSHHHHHHHHHS
T ss_pred             CcccCcceEEEEECCCCCCHHHHHHHHHh
Confidence            34556679999999999999999875543

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=87.93  E-value=0.23  Score=43.96  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=21.9

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+||+++|+.++|||+++.++..
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~   46 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVE   46 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHh
Confidence            358999999999999999999886

>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=87.93  E-value=0.28  Score=42.15  Aligned_cols=23  Identities=39%  Similarity=0.647  Sum_probs=20.8

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      -+||+++|+.++|||+++.++..
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHc
Confidence            47999999999999999988875

>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=87.93  E-value=0.29  Score=41.10  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=21.0

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .+||+++|+.|+|||+++.++..
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~   26 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHh
Confidence            37999999999999999999876

>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=87.87  E-value=0.28  Score=43.11  Aligned_cols=24  Identities=21%  Similarity=0.403  Sum_probs=21.8

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..+||+++|+.++|||+++.++..
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~   50 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLT   50 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHh
Confidence            457999999999999999999876

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=87.87  E-value=0.24  Score=42.62  Aligned_cols=19  Identities=21%  Similarity=0.380  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|++.|.+|+||||+.+.|
T Consensus         4 ~I~l~G~~GsGKsT~a~~L   22 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGREL   22 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>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=87.81  E-value=0.29  Score=40.98  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=20.4

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|+.++|||+++.++..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~   25 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVT   25 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            6999999999999999988876

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=87.79  E-value=0.21  Score=45.25  Aligned_cols=20  Identities=25%  Similarity=0.355  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|+|.+|+||||+.+.|
T Consensus         6 ~~I~l~G~~GsGKsT~~~~L   25 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELI   25 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=87.78  E-value=0.26  Score=43.50  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=19.2

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...|+|+|.+|+||||+.+.|
T Consensus         8 ~~~I~i~G~~GsGKST~~~~L   28 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALL   28 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            467999999999999999987

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=87.60  E-value=0.58  Score=47.84  Aligned_cols=23  Identities=13%  Similarity=0.179  Sum_probs=19.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .+..=|.|+|..++|||+|+|.+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~l   87 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFM   87 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHH
T ss_pred             CceEEEEEECCCCCchhHHHHHH
Confidence            34556779999999999999955

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=87.54  E-value=0.24  Score=43.53  Aligned_cols=20  Identities=20%  Similarity=0.323  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L   32 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKL   32 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            46999999999999999987

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=87.45  E-value=0.25  Score=45.74  Aligned_cols=20  Identities=15%  Similarity=0.295  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|.|+|+.|+|||||++.+
T Consensus        26 ~iigI~G~~GsGKSTl~k~L   45 (245)
T 2jeo_A           26 FLIGVSGGTASGKSTVCEKI   45 (245)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=87.37  E-value=0.25  Score=46.22  Aligned_cols=19  Identities=21%  Similarity=0.361  Sum_probs=17.3

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|+|+|++|+|||||.+.|
T Consensus         3 li~I~G~~GSGKSTla~~L   21 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQI   21 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHH
Confidence            3789999999999999987

>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=87.34  E-value=0.21  Score=44.56  Aligned_cols=25  Identities=24%  Similarity=0.224  Sum_probs=20.9

Q ss_pred             cceeeEEEEecCCCcccceechhhh
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...+||+++|+.++|||+++.++..
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~   29 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLT   29 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3457999999999999999999886

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=87.31  E-value=0.27  Score=45.82  Aligned_cols=20  Identities=25%  Similarity=0.293  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|+|++|+|||||++.+
T Consensus        28 ~~I~I~G~~GsGKSTl~k~L   47 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKAL   47 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999987

>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=87.29  E-value=0.32  Score=46.67  Aligned_cols=22  Identities=18%  Similarity=0.161  Sum_probs=19.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ....|.|+|++|+|||||++.+
T Consensus        30 ~~~ii~I~G~sGsGKSTla~~L   51 (290)
T 1odf_A           30 CPLFIFFSGPQGSGKSFTSIQI   51 (290)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4568999999999999999876

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=87.27  E-value=0.26  Score=43.93  Aligned_cols=19  Identities=37%  Similarity=0.559  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|.|++|+|||+|++.+
T Consensus        47 ~~ll~G~~G~GKT~l~~~~   65 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLL   65 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999987

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=87.26  E-value=0.28  Score=42.70  Aligned_cols=20  Identities=15%  Similarity=0.282  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L   26 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANI   26 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=87.25  E-value=0.25  Score=48.99  Aligned_cols=19  Identities=37%  Similarity=0.408  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        43 ~~~llGpnGsGKSTLLr~i   61 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLI   61 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999987

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=87.25  E-value=0.24  Score=44.19  Aligned_cols=20  Identities=25%  Similarity=0.238  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus        10 ~~I~l~G~~GsGKsT~~~~L   29 (215)
T 1nn5_A           10 ALIVLEGVDRAGKSTQSRKL   29 (215)
T ss_dssp             CEEEEEESTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46999999999999999987

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=87.13  E-value=0.26  Score=46.41  Aligned_cols=18  Identities=39%  Similarity=0.652  Sum_probs=17.3

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      ++++|++|+|||+|++.+
T Consensus        76 vll~Gp~GtGKTtl~~~i   93 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAV   93 (278)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHH
Confidence            899999999999999987

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=87.12  E-value=0.21  Score=43.42  Aligned_cols=20  Identities=25%  Similarity=0.238  Sum_probs=14.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|.+|+||||+.+.|
T Consensus         6 ~~I~l~G~~GsGKST~a~~L   25 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTL   25 (183)
T ss_dssp             CEEEEECCC----CHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            46899999999999999987

>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=87.08  E-value=0.27  Score=43.91  Aligned_cols=19  Identities=16%  Similarity=0.079  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||+|+..+
T Consensus        22 ~~~i~G~~GsGKTtl~~~l   40 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQT   40 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999997

>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=87.05  E-value=0.25  Score=43.04  Aligned_cols=19  Identities=26%  Similarity=0.354  Sum_probs=17.2

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -.+|+|+.|+|||||+..+
T Consensus        28 ~~~i~G~NGsGKStll~ai   46 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAI   46 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHH
Confidence            3689999999999999987

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=87.05  E-value=0.27  Score=46.09  Aligned_cols=20  Identities=30%  Similarity=0.473  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+.+.|
T Consensus         5 ~lIvl~G~pGSGKSTla~~L   24 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNL   24 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHH
Confidence            46899999999999999987

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=87.03  E-value=0.28  Score=42.82  Aligned_cols=19  Identities=42%  Similarity=0.431  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|+|.+|+||||+.+.|
T Consensus         4 ~I~l~G~~GsGKsT~a~~L   22 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRL   22 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            4899999999999999987

>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=87.02  E-value=0.28  Score=43.35  Aligned_cols=19  Identities=21%  Similarity=0.396  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|.+|+|||||+.++
T Consensus         6 ~i~i~G~sGsGKTTl~~~L   24 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKW   24 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5789999999999999997

>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=87.01  E-value=0.26  Score=48.91  Aligned_cols=19  Identities=37%  Similarity=0.371  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        31 ~~~llGpnGsGKSTLLr~i   49 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLML   49 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEcCCCchHHHHHHHH
Confidence            4789999999999999987

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=86.95  E-value=0.26  Score=47.31  Aligned_cols=19  Identities=21%  Similarity=0.424  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        66 ~~~i~G~NGsGKSTLlk~l   84 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMI   84 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            5789999999999999987

>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=86.94  E-value=0.25  Score=48.85  Aligned_cols=19  Identities=26%  Similarity=0.518  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        28 ~~~llGpnGsGKSTLLr~i   46 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELI   46 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHH
T ss_pred             EEEEECCCCccHHHHHHHH
Confidence            4789999999999999987

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=86.87  E-value=0.27  Score=48.89  Aligned_cols=19  Identities=32%  Similarity=0.468  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        31 ~~~llGpnGsGKSTLLr~i   49 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTI   49 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCchHHHHHHHH
Confidence            4789999999999999987

>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=86.84  E-value=0.26  Score=45.16  Aligned_cols=21  Identities=24%  Similarity=0.404  Sum_probs=18.7

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.-|+|+|..|+|||||++.+
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L   40 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHF   40 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            356899999999999999987

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=86.80  E-value=0.27  Score=47.45  Aligned_cols=20  Identities=30%  Similarity=0.396  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      --++++|+.|+||||+++.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~L  120 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKL  120 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHH
Confidence            46889999999999999987

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=86.79  E-value=0.32  Score=43.48  Aligned_cols=21  Identities=29%  Similarity=0.260  Sum_probs=18.9

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...|.|+|.+|+|||||++.+
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l   42 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQL   42 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            457899999999999999987

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=86.75  E-value=0.27  Score=49.18  Aligned_cols=19  Identities=32%  Similarity=0.492  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        31 ~~~llGpsGsGKSTLLr~i   49 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMI   49 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEcCCCchHHHHHHHH
Confidence            4789999999999999987

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=86.72  E-value=0.3  Score=42.56  Aligned_cols=20  Identities=30%  Similarity=0.348  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+++|.+|+||||+++.|
T Consensus         6 ~~i~l~G~~GsGKST~~~~L   25 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMAL   25 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46889999999999999987

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=86.67  E-value=0.28  Score=47.72  Aligned_cols=19  Identities=26%  Similarity=0.464  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|++|+|||||++.+
T Consensus        53 ~~ll~Gp~G~GKTTLa~~i   71 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHII   71 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHH
Confidence            4789999999999999987

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=86.66  E-value=0.3  Score=43.34  Aligned_cols=20  Identities=30%  Similarity=0.449  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.+++.|++|+|||+|+..+
T Consensus        55 ~~~~l~G~~GtGKT~la~~i   74 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAI   74 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHH
Confidence            46889999999999999987

>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=86.62  E-value=0.29  Score=44.42  Aligned_cols=19  Identities=26%  Similarity=0.329  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|+|++|+|||+|+..+
T Consensus        26 ~~~i~G~~GsGKTtl~~~l   44 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTL   44 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999987

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=86.60  E-value=0.29  Score=45.33  Aligned_cols=20  Identities=25%  Similarity=0.426  Sum_probs=18.2

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.++++|++|+|||+|++.+
T Consensus        46 ~~vll~G~~GtGKT~la~~l   65 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAI   65 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHH
Confidence            35899999999999999987

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=86.55  E-value=0.28  Score=48.88  Aligned_cols=19  Identities=32%  Similarity=0.469  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        39 ~~~llGpnGsGKSTLLr~i   57 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMI   57 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            4789999999999999986

>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=86.38  E-value=0.27  Score=46.65  Aligned_cols=19  Identities=16%  Similarity=0.321  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++|+|++|+|||||+..+
T Consensus        37 ~~~i~G~~G~GKTTl~~~i   55 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQ   55 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHH
Confidence            4789999999999999987

>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=86.26  E-value=0.42  Score=39.84  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=20.3

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|+.|+|||+++.++..
T Consensus         4 ~~i~v~G~~~~GKssl~~~l~~   25 (166)
T 2ce2_X            4 YKLVVVGAGGVGKSALTIQLIQ   25 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHh
Confidence            6999999999999999998875

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=86.20  E-value=0.3  Score=48.56  Aligned_cols=19  Identities=21%  Similarity=0.480  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.|+|++|+|||||++.+
T Consensus        56 i~~IiGpnGaGKSTLlr~i   74 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCV   74 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEcCCCchHHHHHHHH
Confidence            4789999999999999986

>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=86.17  E-value=0.3  Score=48.31  Aligned_cols=19  Identities=26%  Similarity=0.492  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus       125 ~i~I~GptGSGKTTlL~~l  143 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAM  143 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999987

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=86.17  E-value=0.39  Score=43.21  Aligned_cols=20  Identities=20%  Similarity=0.335  Sum_probs=18.6

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +.|+|.|.+|+||||+.+.|
T Consensus         5 ~~I~i~G~~GSGKST~~~~L   24 (218)
T 1vht_A            5 YIVALTGGIGSGKSTVANAF   24 (218)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            57899999999999999987

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=86.12  E-value=0.32  Score=44.70  Aligned_cols=18  Identities=22%  Similarity=0.394  Sum_probs=15.9

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|+|+||+||+|...+|
T Consensus        32 I~llGpPGsGKgTqa~~L   49 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKL   49 (217)
T ss_dssp             EEEECCTTCCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            457899999999999887

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=86.05  E-value=0.41  Score=46.73  Aligned_cols=23  Identities=22%  Similarity=0.167  Sum_probs=20.0

Q ss_pred             cceEEEEEeCcccchhHHHHHhh
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...+-|.|+|++|+|||||++.+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L  112 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVL  112 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHH
Confidence            34567899999999999999987

>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=85.99  E-value=0.41  Score=41.18  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=21.5

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .-+||+++|+.|+|||+++.++..
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~   26 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQ   26 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            347999999999999999999875

>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=85.89  E-value=0.34  Score=43.42  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=21.3

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      -+||+++|+.|+|||+++.++..
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~   56 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFAD   56 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            48999999999999999999876

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=85.84  E-value=0.3  Score=48.34  Aligned_cols=19  Identities=21%  Similarity=0.576  Sum_probs=18.0

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus       177 ~i~ivG~sGsGKSTll~~l  195 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKAL  195 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6899999999999999987

>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=85.84  E-value=0.33  Score=48.29  Aligned_cols=19  Identities=21%  Similarity=0.485  Sum_probs=17.9

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus       138 ~i~ivG~~GsGKTTll~~l  156 (372)
T 2ewv_A          138 LILVTGPTGSGKSTTIASM  156 (372)
T ss_dssp             EEEEECSSSSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>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=85.78  E-value=0.43  Score=41.41  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      -+||+++|+.|+|||+++.++..
T Consensus        21 ~~ki~vvG~~~~GKSsli~~l~~   43 (190)
T 3con_A           21 EYKLVVVGAGGVGKSALTIQLIQ   43 (190)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEEECcCCCCHHHHHHHHHc
Confidence            38999999999999999999876

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=85.56  E-value=0.43  Score=40.23  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.9

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      -+||+++|+.++|||+++.++..
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHc
Confidence            36999999999999999999876

>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=85.56  E-value=0.32  Score=46.90  Aligned_cols=21  Identities=24%  Similarity=0.243  Sum_probs=18.9

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...|.|+|++|+|||||++.+
T Consensus        80 g~iigI~G~~GsGKSTl~~~L  100 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVL  100 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            457899999999999999987

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=85.53  E-value=0.36  Score=43.37  Aligned_cols=20  Identities=35%  Similarity=0.428  Sum_probs=18.0

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      .-|+++|.+|+||||+.+.+
T Consensus        26 ~~i~~~G~~GsGKsT~~~~l   45 (211)
T 1m7g_A           26 LTIWLTGLSASGKSTLAVEL   45 (211)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            46889999999999999986

>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=85.48  E-value=0.41  Score=42.53  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.4

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .-+||+++|+.++|||+++.++..
T Consensus        24 ~~~ki~vvG~~~~GKSsli~~l~~   47 (207)
T 2fv8_A           24 IRKKLVVVGDGACGKTCLLIVFSK   47 (207)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCcEEEEECcCCCCHHHHHHHHhc
Confidence            347999999999999999998876

>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=85.44  E-value=0.32  Score=47.53  Aligned_cols=19  Identities=16%  Similarity=0.490  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|++|+|||||++.+
T Consensus       173 ~v~i~G~~GsGKTTll~~l  191 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSI  191 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999987

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=85.38  E-value=0.48  Score=45.11  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=18.0

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..+++.|++|+|||+|++.+
T Consensus        39 ~~vll~G~~GtGKT~la~~i   58 (324)
T 1hqc_A           39 EHLLLFGPPGLGKTTLAHVI   58 (324)
T ss_dssp             CCCEEECCTTCCCHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHH
Confidence            35889999999999999987

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=85.35  E-value=0.37  Score=45.16  Aligned_cols=20  Identities=25%  Similarity=0.370  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.+++.|++|+|||+|++.+
T Consensus        52 ~~~ll~G~~GtGKT~la~~l   71 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAV   71 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            35899999999999999987

>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=85.34  E-value=0.29  Score=45.64  Aligned_cols=27  Identities=19%  Similarity=0.264  Sum_probs=24.2

Q ss_pred             cccceeeEEEEecC---------CCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDS---------DVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~---------gvGKssll~r~~~   38 (432)
                      .++..+||+++|+.         ++|||+++.++..
T Consensus        15 ~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~   50 (255)
T 3c5h_A           15 YFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVR   50 (255)
T ss_dssp             SCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHC
T ss_pred             CCCceeEEEEECCCccccccCCCCcCHHHHHHHHHh
Confidence            45677999999999         9999999999875

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=85.33  E-value=0.37  Score=44.38  Aligned_cols=20  Identities=15%  Similarity=0.302  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      .-|++.|.+|+||||+++.+
T Consensus        27 ~~i~i~G~~GsGKsT~~~~l   46 (229)
T 4eaq_A           27 AFITFEGPEGSGKTTVINEV   46 (229)
T ss_dssp             EEEEEECCTTSCHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHH
Confidence            56899999999999999987

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=85.31  E-value=0.44  Score=44.20  Aligned_cols=22  Identities=14%  Similarity=0.211  Sum_probs=19.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..+.|.|.|.+|+||||+.+.|
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L   42 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKI   42 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHH
Confidence            4468999999999999999987

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=85.31  E-value=0.64  Score=44.48  Aligned_cols=18  Identities=22%  Similarity=0.329  Sum_probs=15.0

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      +++-|++|+|||++++.+
T Consensus        51 ~L~~G~~G~GKT~la~~l   68 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKAL   68 (324)
T ss_dssp             EEECSSTTSSHHHHHHHH
T ss_pred             EEeeCcCCCCHHHHHHHH
Confidence            455566999999999987

---

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	432
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-38
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	4e-05
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-33
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-04
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-32
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	6e-04
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	2e-30
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	6e-30
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	3e-04
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	8e-30
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-29
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	3e-04
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-29
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	3e-04
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	8e-29
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	2e-27
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-04
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	5e-27
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-26
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	6e-23
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	9e-22
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	4e-21
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	8e-20
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	8e-20
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	2e-19
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	2e-19
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	3e-19
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	2e-18
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	3e-18
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	8e-18
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	8e-18
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	2e-17
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-16
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	3e-16
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	7e-16
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-15
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-15
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	3e-15
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	4e-15
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	1e-14
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	2e-14
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	3e-14
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	6e-14
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	2e-13
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-13
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	5e-12
d2izva1	44	a.271.1.1 (A:386-429) Suppressor of cytokine signa	2e-11
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	3e-11
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	3e-11
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	9e-11
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	9e-11
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	1e-10
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	5e-10
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	2e-09
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	3e-09
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-08
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	1e-08
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-08
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-07
d2c9wa1	50	a.271.1.1 (A:149-198) Suppressor of cytokine signa	7e-06
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	9e-06
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	1e-05
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	1e-05
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-04

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  134 bits (339), Expect = 2e-38
 Identities = 75/190 (39%), Positives = 105/190 (55%), Gaps = 18/190 (9%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           K YDYL K LL+GDS VGK  +L   + E  F   ++                    +K 
Sbjct: 1   KTYDYLFKLLLIGDSGVGKTCVLF-RFSEDAFNSTFISTIGID--------------FKI 45

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            TI LDGKR+KLQ+WDT+GQ RF TI  +Y RGA GI+LVYDITN+ SFD I  W++ +E
Sbjct: 46  RTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIE 105

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
           EHA   V K+++GN+  +   R V+    E  A+   + F E S   + N+  +F  L+R
Sbjct: 106 EHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLAR 165

Query: 234 RALQRNGMER 243
               +  M++
Sbjct: 166 DIKAK--MDK 173

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.7 bits (97), Expect = 4e-05
 Identities = 15/27 (55%), Positives = 18/27 (66%)

Query: 11 KQYDYLLKFLLVGDSDVGKQEILSGYK 37
          K YDYL K LL+GDS VGK  +L  + 
Sbjct: 1  KTYDYLFKLLLIGDSGVGKTCVLFRFS 27

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  121 bits (304), Expect = 2e-33
 Identities = 60/182 (32%), Positives = 99/182 (54%), Gaps = 16/182 (8%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD+L K +L+G++ VGK  ++   + +  FP                        +   T
Sbjct: 2   YDFLFKIVLIGNAGVGKTCLVR-RFTQGLFPPGQGATIGVD--------------FMIKT 46

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           + ++G++VKLQ+WDT+GQ RF +I +SY R A  ++L YDIT + SF  +  WL+E+E++
Sbjct: 47  VEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQY 106

Query: 177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           A   V  VLVGN++ LA  R V+ + AE ++    M + E S     N+ + F +L+ R 
Sbjct: 107 ASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

Query: 236 LQ 237
           + 
Sbjct: 167 IS 168

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.8 bits (92), Expect = 2e-04
 Identities = 9/24 (37%), Positives = 17/24 (70%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGY 36
          YD+L K +L+G++ VGK  ++  +
Sbjct: 2  YDFLFKIVLIGNAGVGKTCLVRRF 25

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  119 bits (298), Expect = 2e-32
 Identities = 62/179 (34%), Positives = 95/179 (53%), Gaps = 15/179 (8%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD   K +LVGDS VGK  +L          RF      +  F +G+      + ++   
Sbjct: 3   YDVAFKVMLVGDSGVGKTCLLV---------RF-----KDGAFLAGTFISTVGIDFRNKV 48

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           + +DG +VKLQ+WDT+GQ RF ++  +Y R A  +LL+YD+TNK SFD I  WL E+ E+
Sbjct: 49  LDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEY 108

Query: 177 APGVPKV-LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           A     + L+GN++  A  R V   + E  A +  + F E S     N+  +FT +++ 
Sbjct: 109 AQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKE 167

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.3 bits (88), Expect = 6e-04
 Identities = 13/25 (52%), Positives = 16/25 (64%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGYK 37
          YD   K +LVGDS VGK  +L  +K
Sbjct: 3  YDVAFKVMLVGDSGVGKTCLLVRFK 27

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (284), Expect = 2e-30
 Identities = 55/184 (29%), Positives = 88/184 (47%), Gaps = 7/184 (3%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YDYL+K L +GDS VGK   L   Y +++F          +       K     A     
Sbjct: 2   YDYLIKLLALGDSGVGKTTFLY-RYTDNKFN----PKFITTVGIDFREKRVVYNAQGPNG 56

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
                 +V LQLWDT+GQ RF ++  ++ R A G LL++D+T++ SF  +  W+ +++ +
Sbjct: 57  SSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQAN 116

Query: 177 --APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
                   VL+GN+  L   R V  R+A   A K  + +FE S     N+ ++   L   
Sbjct: 117 AYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDL 176

Query: 235 ALQR 238
            ++R
Sbjct: 177 IMKR 180

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  111 bits (279), Expect = 6e-30
 Identities = 57/179 (31%), Positives = 95/179 (53%), Gaps = 16/179 (8%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           Y Y+ K++++GD  VGK  +L   + E +F                   +   + + T  
Sbjct: 1   YSYIFKYIIIGDMGVGKSCLLH-QFTEKKFMADC--------------PHTIGVEFGTRI 45

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I + G+++KLQ+WDT+GQ RF  + RSY RGA G L+VYDIT + +++ +  WL +    
Sbjct: 46  IEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNL 105

Query: 177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             P    +L+GN+  L   R VT  EA+ +A +N + F E S     N+ ++F E +++
Sbjct: 106 TNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKK 164

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.1 bits (90), Expect = 3e-04
 Identities = 9/24 (37%), Positives = 16/24 (66%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGY 36
          Y Y+ K++++GD  VGK  +L  +
Sbjct: 1  YSYIFKYIIIGDMGVGKSCLLHQF 24

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  111 bits (279), Expect = 8e-30
 Identities = 69/182 (37%), Positives = 98/182 (53%), Gaps = 16/182 (8%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YDYL K +L+GDS VGK  +LS  +  + F         ES    G             +
Sbjct: 1   YDYLFKVVLIGDSGVGKSNLLS-RFTRNEFN-------LESKSTIGVEFATR-------S 45

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I +DGK +K Q+WDT+GQ R+  I  +Y RGA G LLVYDI    +++ ++RWLKE+ +H
Sbjct: 46  IQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDH 105

Query: 177 A-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           A   +  +LVGN+  L   R V T EA  +A KN ++F E S L   N+ E+F  +    
Sbjct: 106 ADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEI 165

Query: 236 LQ 237
            +
Sbjct: 166 YR 167

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  111 bits (278), Expect = 2e-29
 Identities = 71/196 (36%), Positives = 109/196 (55%), Gaps = 20/196 (10%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLA--YKT 114
           YDYL K LL+G+S VGK  +L   + +  +                   Y   +   +K 
Sbjct: 3   YDYLFKLLLIGNSGVGKSCLLL-RFSDDTYT----------------NDYISTIGVDFKI 45

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
            T+ LDGK VKLQ+WDT+GQ RF TI  SY RG+ GI++VYD+T++ SF+G+  WL+E++
Sbjct: 46  KTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEID 105

Query: 175 EHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
            +A   V K+LVGN+  L   R V    A+ +A  N+M F E S L   N+ ++F  ++R
Sbjct: 106 RYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMAR 165

Query: 234 RALQRNGMERLWRSNK 249
           +  +    + L  + +
Sbjct: 166 QIKESMSQQNLNETTQ 181

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.5 bits (91), Expect = 3e-04
 Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 1/69 (1%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGYKL-ELTAWLMETKPVVATQKQYDYLLKFLLVGDSDV 71
          YDYL K LL+G+S VGK  +L  +     T   + T  V    K  +   K + +   D 
Sbjct: 3  YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 62

Query: 72 GKQEILSGL 80
            QE    +
Sbjct: 63 AGQERFRTI 71

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  110 bits (275), Expect = 2e-29
 Identities = 60/183 (32%), Positives = 100/183 (54%), Gaps = 16/183 (8%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           YD+L KFL++G++  GK  +L   ++E +F                   +   + + +  
Sbjct: 2   YDFLFKFLVIGNAGTGKSCLLH-QFIEKKFK--------------DDSNHTIGVEFGSKI 46

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEE 175
           I + GK VKLQ+WDT+GQ RF ++ RSY RGA G LLVYDIT++ +++ + +        
Sbjct: 47  INVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARML 106

Query: 176 HAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
            +  +  +L GN+  L  +R VT  EA  +A +N++ F E S L   N+ E+F + +R+ 
Sbjct: 107 ASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKI 166

Query: 236 LQR 238
           L +
Sbjct: 167 LNK 169

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.1 bits (90), Expect = 3e-04
 Identities = 10/24 (41%), Positives = 17/24 (70%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGY 36
          YD+L KFL++G++  GK  +L  +
Sbjct: 2  YDFLFKFLVIGNAGTGKSCLLHQF 25

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  108 bits (271), Expect = 8e-29
 Identities = 64/179 (35%), Positives = 96/179 (53%), Gaps = 15/179 (8%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           ++K LL+GDS VGK  +L   ++E +F                S      + +K  T+ +
Sbjct: 2   IMKILLIGDSGVGKSCLLV-RFVEDKFN--------------PSFITTIGIDFKIKTVDI 46

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPG 179
           +GK+VKLQ+WDT+GQ RF TI  +Y RGA GI+LVYDIT++ +F  I +W K V EHA  
Sbjct: 47  NGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHAND 106

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR 238
             ++L+         R VT  + E  A +  + F E S   D N+ E F  L++   ++
Sbjct: 107 EAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 165

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  105 bits (262), Expect = 2e-27
 Identities = 57/183 (31%), Positives = 91/183 (49%), Gaps = 16/183 (8%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           +DY+ K L++G+S VGK   L   Y +  F               G             T
Sbjct: 2   FDYMFKILIIGNSSVGKTSFLF-RYADDSFT-------PAFVSTVGIDFK-------VKT 46

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
           I  + KR+KLQ+WDT+GQ R+ TI  +Y RGA G +L+YDITN+ SF+ +  W  +++ +
Sbjct: 47  IYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTY 106

Query: 177 APGVPKV-LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           +    +V LVGN+  +   R V++      A      FFE S   + N++++F  L    
Sbjct: 107 SWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVI 166

Query: 236 LQR 238
            ++
Sbjct: 167 CEK 169

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 39.1 bits (90), Expect = 3e-04
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 13 YDYLLKFLLVGDSDVGKQEILSGYK 37
          +DY+ K L++G+S VGK   L  Y 
Sbjct: 2  FDYMFKILIIGNSSVGKTSFLFRYA 26

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  104 bits (259), Expect = 5e-27
 Identities = 57/181 (31%), Positives = 96/181 (53%), Gaps = 16/181 (8%)

Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           YL K++++GD+ VGK  +L   + + RF                       + +    + 
Sbjct: 2   YLFKYIIIGDTGVGKSCLLL-QFTDKRFQ--------------PVHDLTIGVEFGARMVN 46

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA- 177
           +DGK++KLQ+WDT+GQ  F +I RSY RGA G LLVYDIT + +F+ +  WL++  +H+ 
Sbjct: 47  IDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSS 106

Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             +  +L+GN+  L   R V   E E +A ++ + F E S     N+ E+F   ++   +
Sbjct: 107 SNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYR 166

Query: 238 R 238
           +
Sbjct: 167 K 167

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  102 bits (254), Expect = 2e-26
 Identities = 63/194 (32%), Positives = 91/194 (46%), Gaps = 21/194 (10%)

Query: 57  YDYL--LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
            D L  LK L++G+S VGK  +L   + +  F         E     G            
Sbjct: 2   EDVLTTLKILIIGESGVGKSSLLL-RFTDDTFD-------PELAATIGVDFKVKT----- 48

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
             I +DG + KL +WDT+GQ RF T+  SY RGAQG++LVYD+T + +F  +D WL E+E
Sbjct: 49  --ISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELE 106

Query: 175 EHAP-GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
            +        ++        NR V   E   +A K+ M F E S      ++ +F EL  
Sbjct: 107 TYCTRNDIVNMLVGNKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVE 166

Query: 234 RALQRNGMERLWRS 247
           + +Q  G   LW S
Sbjct: 167 KIIQTPG---LWES 177

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 92.7 bits (229), Expect = 6e-23
 Identities = 54/180 (30%), Positives = 88/180 (48%), Gaps = 16/180 (8%)

Query: 59  YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL 118
           Y  K +L+G+  VGK  ++   Y E++F                        ++ T  + 
Sbjct: 2   YSFKVVLLGEGCVGKTSLVL-RYCENKFN--------------DKHITTLGASFLTKKLN 46

Query: 119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA- 177
           + GKRV L +WDT+GQ RF  +   Y R + G +LVYDIT++ SF  +  W+KE+ +   
Sbjct: 47  IGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG 106

Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             +   +VGN++ L   R V+ +EAE YA       +  S   +  I E F +L +R ++
Sbjct: 107 NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 166

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 89.6 bits (221), Expect = 9e-22
 Identities = 44/181 (24%), Positives = 75/181 (41%), Gaps = 18/181 (9%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           L K ++VG   VGK  +    ++   F         +            ++         
Sbjct: 4   LHKVIMVGSGGVGKSALTL-QFMYDEFV-------EDYEPTKADSYRKKVVL-------- 47

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
           DG+ V++ + DT+GQ  +  I  +Y R  +G L V+ IT   SF     + +++      
Sbjct: 48  DGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED 107

Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
             VP +LVGN+  L   R V+  EA+  A +  + + E S     N+ + F +L R    
Sbjct: 108 ENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA 167

Query: 238 R 238
           R
Sbjct: 168 R 168

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 87.7 bits (216), Expect = 4e-21
 Identities = 50/186 (26%), Positives = 86/186 (46%), Gaps = 22/186 (11%)

Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
             L K +L+GD  VGK  +++  Y+ ++F                   +   + +    +
Sbjct: 4   SSLFKVILLGDGGVGKSSLMN-RYVTNKFDTQL--------------FHTIGVEFLNKDL 48

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            +DG  V +Q+WDT+GQ RF ++   + RG+   LL + + +  SF  +  W KE   +A
Sbjct: 49  EVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYA 108

Query: 178 -----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEVSPLCDFNIRESFTEL 231
                   P V++GN++ +   R V+T EA+ +   N    +FE S     N+  +F E 
Sbjct: 109 DVKEPESFPFVILGNKIDI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEA 167

Query: 232 SRRALQ 237
            RR L 
Sbjct: 168 VRRVLA 173

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 84.4 bits (207), Expect = 8e-20
 Identities = 52/194 (26%), Positives = 92/194 (47%), Gaps = 20/194 (10%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           LLK +++GDS VGK  +++  Y+  +F        ++     G+      +         
Sbjct: 2   LLKVIILGDSGVGKTSLMN-QYVNKKFS-------NQYKATIGADFLTKEVMV------- 46

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
           D + V +Q+WDT+GQ RF ++  ++ RGA   +LV+D+T   +F  +D W  E    A  
Sbjct: 47  DDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASP 106

Query: 178 ---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
                 P V++GN++ L   +  T R       KN + +FE S     N+ ++F  ++R 
Sbjct: 107 RDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARN 166

Query: 235 ALQRNGMERLWRSN 248
           AL++     L+   
Sbjct: 167 ALKQETEVELYNEF 180

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 83.9 bits (206), Expect = 8e-20
 Identities = 49/174 (28%), Positives = 87/174 (50%), Gaps = 16/174 (9%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K + +G+  VGK  +++  ++   F                + +    + + + T+ L+ 
Sbjct: 2   KLVFLGEQSVGKTSLIT-RFMYDSFD--------------NTYQATIGIDFLSKTMYLED 46

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGV 180
           + ++LQLWDT+GQ RF ++I SY R +   ++VYDITN  SF    +W+ +V       V
Sbjct: 47  RTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDV 106

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             +LVGN+  LA  R V+  E E  A +  + F E S    +N+++ F  ++  
Sbjct: 107 IIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA 160

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 83.6 bits (205), Expect = 2e-19
 Identities = 46/183 (25%), Positives = 76/183 (41%), Gaps = 18/183 (9%)

Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
               K ++VG   VGK  +    +++S F   +     +S                    
Sbjct: 4   SETHKLVVVGGGGVGKSALTI-QFIQSYFVSDYDPTIEDSYTK---------------IC 47

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA 177
            +DG   +L + DT+GQ  F  +   Y R   G LLV+ I ++ SF+ + +   ++    
Sbjct: 48  SVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVK 107

Query: 178 --PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
                P VLVGN+  L   R V   EA  +   + +A+FE S     N+ E+F +L R  
Sbjct: 108 DRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 167

Query: 236 LQR 238
            + 
Sbjct: 168 RKY 170

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 83.6 bits (205), Expect = 2e-19
 Identities = 50/187 (26%), Positives = 88/187 (47%), Gaps = 21/187 (11%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           +LK +++GDS VGK  ++   Y+  ++         +     G+      +         
Sbjct: 2   ILKVIILGDSGVGKTSLMH-RYVNDKYS-------QQYKATIGADFLTKEVTVD------ 47

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-- 177
             K   +Q+WDT+GQ RF ++  ++ RGA   +LVYD+TN  SF+ I  W  E   HA  
Sbjct: 48  GDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANV 107

Query: 178 ---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK--NQMAFFEVSPLCDFNIRESFTELS 232
                 P V++GN++    ++ + + ++     K    +  F  S     N+  +F E++
Sbjct: 108 NSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIA 167

Query: 233 RRALQRN 239
           R ALQ+N
Sbjct: 168 RSALQQN 174

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 82.7 bits (203), Expect = 3e-19
 Identities = 41/175 (23%), Positives = 71/175 (40%), Gaps = 18/175 (10%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +++G   VGK  +    ++   F         +               +    I +D 
Sbjct: 5   KVVVLGSGGVGKSALTV-QFVTGTFI-------EKYDPTIE--------DFYRKEIEVDS 48

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PG 179
               L++ DT+G  +F ++   Y +  QG +LVY + N+ SF  I     ++        
Sbjct: 49  SPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEK 108

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
           VP +LVGN++ L   R V++ E    A +    F E S      + E F E+ R+
Sbjct: 109 VPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQ 163

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 80.5 bits (197), Expect = 2e-18
 Identities = 42/187 (22%), Positives = 82/187 (43%), Gaps = 22/187 (11%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           Q++Y    + ++VG   VGK  +    +++S F        ++             +   
Sbjct: 3   QEKY----RLVVVGGGGVGKSALTI-QFIQSYFV-------TDYDPTIEDSYTKQCVIDD 50

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
                   +  +L + DT+GQ  F  +   Y R  +G LLV+ +T++ SF+ I ++ +++
Sbjct: 51  --------RAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQI 102

Query: 174 EEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTEL 231
                    P +L+GN+  L   R VT  E +  A + ++ + E S     N+ ++F EL
Sbjct: 103 LRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHEL 162

Query: 232 SRRALQR 238
            R   + 
Sbjct: 163 VRVIRKF 169

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 79.7 bits (195), Expect = 3e-18
 Identities = 54/179 (30%), Positives = 88/179 (49%), Gaps = 17/179 (9%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K +L+G+S VGK  ++   +++ +F  F       +                  T+ LD 
Sbjct: 8   KLVLLGESAVGKSSLVL-RFVKGQFHEFQESTIGAAFLT--------------QTVCLDD 52

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDR-WLKEVEEHAPGV 180
             VK ++WDT+GQ R+ ++   Y RGAQ  ++VYDITN+ SF        +   + +P +
Sbjct: 53  TTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNI 112

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN 239
              L GN+  LA  R V  +EA+ YA  N + F E S     N+ E F  ++++ L +N
Sbjct: 113 VIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKK-LPKN 170

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 78.2 bits (191), Expect = 8e-18
 Identities = 51/177 (28%), Positives = 88/177 (49%), Gaps = 15/177 (8%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VG+  VGK  ++   Y +  F + +              K    + +    I ++
Sbjct: 3   IKMVVVGNGAVGKSSMIQ-RYCKGIFTKDY--------------KKTIGVDFLERQIQVN 47

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
            + V+L LWDT+GQ  F  I ++Y RGAQ  +LV+  T++ SF+ I  W ++V      +
Sbjct: 48  DEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDI 107

Query: 181 PKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
           P  LV N++ L  +  +   EAE  A + ++ F+  S   D N+ E F  L+ + LQ
Sbjct: 108 PTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 164

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 78.5 bits (192), Expect = 8e-18
 Identities = 42/178 (23%), Positives = 73/178 (41%), Gaps = 19/178 (10%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K ++VG   VGK  +     +++ F         E            ++           
Sbjct: 5   KLVVVGAGGVGKSALTI-QLIQNHFV-------DEYDPTIEDSYRKQVVIDG-------- 48

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PG 179
           +   L + DT+GQ  +  +   Y R  +G L V+ I N  SF+ I ++ ++++       
Sbjct: 49  ETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDD 108

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQ 237
           VP VLVGN+      RTV +R+A+  A    + + E S      + ++F  L R   Q
Sbjct: 109 VPMVLVGNKCD-LAARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 77.4 bits (189), Expect = 2e-17
 Identities = 53/178 (29%), Positives = 88/178 (49%), Gaps = 21/178 (11%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL 119
           + K +++GDS+VGK  +    +   RFP         +    G         ++   + +
Sbjct: 2   IFKIIVIGDSNVGKTCLTY-RFCAGRFP-------DRTEATIGV-------DFRERAVDI 46

Query: 120 DGKRVKLQLWDTSGQGRFCTIIR-SYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA- 177
           DG+R+K+QLWDT+GQ RF   +   Y R    ++ VYD+TN  SF  +  W++E ++H  
Sbjct: 47  DGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLL 106

Query: 178 -PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS---PLCDFNIRESFTEL 231
              +P++LVGN+  L     V T  A+ +A  + M  FE S   P  + ++   F  L
Sbjct: 107 ANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 74.3 bits (181), Expect = 2e-16
 Identities = 46/181 (25%), Positives = 77/181 (42%), Gaps = 21/181 (11%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML-AYKTTTILLD 120
           K ++VGD  VGK  +    + +  F                   YD  +         +D
Sbjct: 6   KLVVVGDGGVGKSALTI-QFFQKIFV----------------PDYDPTIEDSYLKHTEID 48

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--P 178
            +   L + DT+GQ  F  +   Y R   G L+VY +T+K SF+ +DR+ + +       
Sbjct: 49  NQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRE 108

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC-DFNIRESFTELSRRALQ 237
             P +LV N++ L   R VT  + +  A K  + + E S      N+ ++F +L R   Q
Sbjct: 109 SFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ 168

Query: 238 R 238
           +
Sbjct: 169 Q 169

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 74.3 bits (181), Expect = 3e-16
 Identities = 42/206 (20%), Positives = 78/206 (37%), Gaps = 37/206 (17%)

Query: 45  METKPVVATQKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSG 104
           M   P          +LK ++VGD  VGK  +L   Y    FP  ++             
Sbjct: 1   MAHGP-------GALMLKCVVVGDGAVGKTCLLM-SYANDAFPEEYV------------- 39

Query: 105 KYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFD 164
               +  +   ++ + GK+  L L+DT+GQ  +  +           L+ + + N  SF 
Sbjct: 40  --PTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQ 97

Query: 165 GIDRW-LKEVEEHAPGVPKVLVGNRLHLAFNRT------------VTTREAEMYAIK-NQ 210
            +    + E++E+AP VP +L+G ++ L  +              +   + +  A +   
Sbjct: 98  NVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGA 157

Query: 211 MAFFEVSPLCDFNIRESFTELSRRAL 236
             + E S L    ++  F E     L
Sbjct: 158 CCYVECSALTQKGLKTVFDEAIIAIL 183

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 73.1 bits (178), Expect = 7e-16
 Identities = 43/177 (24%), Positives = 76/177 (42%), Gaps = 21/177 (11%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML-AYKTTTILLD 120
           K +++G   VGK  +    +++  F                  KYD  +       + +D
Sbjct: 5   KLVVLGSGGVGKSALTV-QFVQGIFV----------------EKYDPTIEDSYRKQVEVD 47

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--AP 178
            ++  L++ DT+G  +F  +   Y +  QG  LVY IT + +F+ +    +++       
Sbjct: 48  CQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTE 107

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIK-NQMAFFEVSPLCDFNIRESFTELSRR 234
            VP +LVGN+  L   R V   + +  A +    AF E S     N+ E F +L R+
Sbjct: 108 DVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQ 164

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 72.7 bits (177), Expect = 1e-15
 Identities = 45/192 (23%), Positives = 75/192 (39%), Gaps = 32/192 (16%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML-AYKTTTILL 119
           +K ++VGD  VGK  +L   Y  + FP                G+Y   +    +  +++
Sbjct: 6   IKCVVVGDGAVGKTCLLI-SYTTNAFP----------------GEYIPTVFDNYSANVMV 48

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW-LKEVEEHAP 178
           DGK V L LWDT+GQ  +  +           L+ + + +  SF+ +      EV  H P
Sbjct: 49  DGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP 108

Query: 179 GVPKVLVGNRLHLAFNRTVTTRE------------AEMYAIK-NQMAFFEVSPLCDFNIR 225
             P +LVG +L L  ++    +                 A +   + + E S L    ++
Sbjct: 109 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLK 168

Query: 226 ESFTELSRRALQ 237
             F E  R  L 
Sbjct: 169 TVFDEAIRAVLC 180

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 71.9 bits (175), Expect = 2e-15
 Identities = 30/179 (16%), Positives = 52/179 (29%), Gaps = 25/179 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           ++ L++G    GK  IL          +  L  S  +    G                  
Sbjct: 13  MRILMLGLDAAGKTTILY---------KLKLGQSVTTIPTVGFNVETVT----------- 52

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--P 178
            K VK  +WD  GQ +   + R Y  G QG++ V D  ++   D   + L  +       
Sbjct: 53  YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMR 112

Query: 179 GVPKVLVGNRLHLAFNRT---VTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
               ++  N+  L        +  +                       + E  T L+  
Sbjct: 113 DAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN 171

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 71.2 bits (173), Expect = 3e-15
 Identities = 52/175 (29%), Positives = 79/175 (45%), Gaps = 16/175 (9%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK  L+GD+ VGK  I+   ++E  F          S         +++  +        
Sbjct: 5   LKVCLLGDTGVGKSSIMW-RFVEDSFDPNINPTIGASFMTKTVQYQNELHKF-------- 55

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
                  +WDT+G  RF  +   Y RG+   ++VYDIT + +F  +  W++E+ +H P  
Sbjct: 56  ------LIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPS 109

Query: 181 PKV-LVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
             V + GN+  L   R V  R+A+ YA      F E S     NI E F E+SRR
Sbjct: 110 IVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRR 164

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 70.8 bits (172), Expect = 4e-15
 Identities = 42/181 (23%), Positives = 74/181 (40%), Gaps = 19/181 (10%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           +  + G   VGK  ++   +++  F        S  P    + +                
Sbjct: 4   RVAVFGAGGVGKSSLVL-RFVKGTFR------ESYIPTVEDTYRQVISCDKSIC------ 50

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA---P 178
               LQ+ DT+G  +F  + R         +LVY IT++ S + +    +++ E      
Sbjct: 51  ---TLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVE 107

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR 238
            +P +LVGN+   + +R V + EAE  A   + AF E S   + N++E F EL     +R
Sbjct: 108 SIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR 167

Query: 239 N 239
            
Sbjct: 168 T 168

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 69.3 bits (168), Expect = 1e-14
 Identities = 45/178 (25%), Positives = 73/178 (41%), Gaps = 19/178 (10%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K +L+G++ VGK  I+   ++ + F               G+      +     T+   
Sbjct: 4   IKLVLLGEAAVGKSSIVL-RFVSNDFA-------ENKEPTIGAAFLTQRVTINEHTV--- 52

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH---- 176
               K ++WDT+GQ RF ++   Y R AQ  L+VYD+T   SF     W+KE+ E     
Sbjct: 53  ----KFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKD 108

Query: 177 APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
                     + L     R V   E E  A +  + FFE S     N+ + F  +  +
Sbjct: 109 IIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEK 166

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 69.2 bits (168), Expect = 2e-14
 Identities = 29/183 (15%), Positives = 50/183 (27%), Gaps = 25/183 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           L+ L++G    GK  IL  L +          G                         L 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTTKPTIG--------------------FNVETLS 57

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--P 178
            K +KL +WD  GQ       R Y      ++ V D T+K       + L  + +     
Sbjct: 58  YKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQ 117

Query: 179 GVPKVLVGNRLHLAFNRTV---TTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
               ++  N+       +    +     +       +    S +    I E    L    
Sbjct: 118 DAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 177

Query: 236 LQR 238
            + 
Sbjct: 178 KEE 180

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 68.9 bits (167), Expect = 3e-14
 Identities = 43/197 (21%), Positives = 78/197 (39%), Gaps = 30/197 (15%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K ++VGD  VGK  +L   Y  ++FP      S   P          +      T+++ 
Sbjct: 4   IKCVVVGDGAVGKTCLLI-SYTTNKFP------SEYVP---------TVFDNYAVTVMIG 47

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW-LKEVEEHAPG 179
           G+   L L+DT+GQ  +  +           L+ + + +  SF+ +    + E+  H P 
Sbjct: 48  GEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPK 107

Query: 180 VPKVLVGNRLHLAFNRTV------------TTREAEMYA-IKNQMAFFEVSPLCDFNIRE 226
            P +LVG ++ L  + +             T   AE  A     + + E S L    ++ 
Sbjct: 108 TPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKN 167

Query: 227 SFTELSRRALQRNGMER 243
            F E    AL+    ++
Sbjct: 168 VFDEAILAALEPPEPKK 184

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.3 bits (163), Expect = 6e-14
 Identities = 47/181 (25%), Positives = 72/181 (39%), Gaps = 20/181 (11%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K  + G + VGK  ++   +L  RF                  +YD  L          
Sbjct: 3   VKLAIFGRAGVGKSALVV-RFLTKRFI----------------WEYDPTLESTYRHQATI 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--P 178
              V       +           + R  +G +LVYDIT++ SF+ +      ++E     
Sbjct: 46  DDEVVSMEILDTAGQEDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPK 105

Query: 179 GVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC-DFNIRESFTELSRRALQ 237
            V  +LVGN+  L  +R V+T E E  A +   AF+E S    + NI E F EL R   +
Sbjct: 106 NVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRR 165

Query: 238 R 238
           R
Sbjct: 166 R 166

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 65.8 bits (159), Expect = 2e-13
 Identities = 36/189 (19%), Positives = 80/189 (42%), Gaps = 21/189 (11%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           Q Q+    K +LVGD   GK   +   +L   F + +                   +   
Sbjct: 1   QVQF----KLVLVGDGGTGKTTFVK-RHLTGEFEKKY--------------VATLGVEVH 41

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
                 +   +K  +WDT+GQ +F  +   Y   AQ  ++++D+T++ ++  +  W +++
Sbjct: 42  PLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL 101

Query: 174 EEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSR 233
                 +P VL GN++ +   +         +  K  + ++++S   ++N  + F  L+R
Sbjct: 102 VRVCENIPIVLCGNKVDIKDRKVKAKSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLAR 159

Query: 234 RALQRNGME 242
           + +    +E
Sbjct: 160 KLIGDPNLE 168

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 65.4 bits (158), Expect = 3e-13
 Identities = 25/179 (13%), Positives = 49/179 (27%), Gaps = 25/179 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           ++ L+VG    GK  IL                               +         ++
Sbjct: 1   MRILMVGLDAAGKTTILY-KLKLGEIV-------------------TTIPTIGFNVETVE 40

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--AP 178
            K +   +WD  GQ +   + R Y +  QG++ V D  ++   +     L  +       
Sbjct: 41  YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELR 100

Query: 179 GVPKVLVGNRLHL---AFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
               ++  N+  L        +T +                       + E    LS +
Sbjct: 101 DAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQ 159

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 62.1 bits (149), Expect = 5e-12
 Identities = 39/184 (21%), Positives = 67/184 (36%), Gaps = 17/184 (9%)

Query: 58  DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           +   + +L+G+  VGK  + +          F     S    C   G+            
Sbjct: 1   NTYYRVVLIGEQGVGKSTLAN---------IFAGVHDSMDSDCEVLGEDTYERTLMV--- 48

Query: 118 LLDGKRVKLQLWDTS-GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH 176
             DG+   + L D    +G    +     +     L+VY IT++ SF+       ++   
Sbjct: 49  --DGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRA 106

Query: 177 A--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
                +P +LVGN+  L   R V+  E    A+     F E S     N++E F  + R+
Sbjct: 107 RQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQ 166

Query: 235 ALQR 238
              R
Sbjct: 167 VRLR 170

>d2izva1 a.271.1.1 (A:386-429) Suppressor of cytokine signaling 4, SOCS-4 {Human (Homo sapiens) [TaxId: 9606]} Length = 44

class: All alpha proteins
fold: SOCS box-like
superfamily: SOCS box-like
family: SOCS box-like
domain: Suppressor of cytokine signaling 4, SOCS-4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.2 bits (136), Expect = 2e-11
 Identities = 15/35 (42%), Positives = 21/35 (60%)

Query: 318 SLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY 352
           SLQ +C   I   TT   I+ LP+P+ +K +LK Y
Sbjct: 3   SLQHICRTVICNCTTYDGIDALPIPSSMKLYLKEY 37

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 59.7 bits (143), Expect = 3e-11
 Identities = 39/193 (20%), Positives = 74/193 (38%), Gaps = 31/193 (16%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K ++VGDS  GK  +L  ++ +  FP       +  P    +               +D
Sbjct: 3   CKIVVVGDSQCGKTALLH-VFAKDCFP------ENYVPTVFENYTASFE---------ID 46

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV-EEHAPG 179
            +R++L LWDTSG   +  +       +  +L+ +DI+   + D + +  K   +E  P 
Sbjct: 47  TQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPN 106

Query: 180 VPKVLVGNRLHLAFN------------RTVTTREAEMYAIK-NQMAFFEVSPLCDFN-IR 225
              +LVG +  L  +              V+  +    A +     + E S L   N +R
Sbjct: 107 TKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVR 166

Query: 226 ESFTELSRRALQR 238
           + F   +   + +
Sbjct: 167 DIFHVATLACVNK 179

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 59.6 bits (143), Expect = 3e-11
 Identities = 47/191 (24%), Positives = 72/191 (37%), Gaps = 30/191 (15%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K ++VGD   GK  +L  +  + +FP          P          +       I +D
Sbjct: 3   KKLVIVGDGACGKTCLLI-VNSKDQFP------EVYVP---------TVFENYVADIEVD 46

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRW-LKEVEEHAPG 179
           GK+V+L LWDT+G   +  +          IL+ + I +  S + I      EV+   P 
Sbjct: 47  GKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPN 106

Query: 180 VPKVLVGNRLHLAFNRTV------------TTREAEMYAIK-NQMAFFEVSPLCDFNIRE 226
           VP +LVGN+  L  +                  E    A +     + E S      +RE
Sbjct: 107 VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVRE 166

Query: 227 SFTELSRRALQ 237
            F   +R ALQ
Sbjct: 167 VFEMATRAALQ 177

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 58.2 bits (139), Expect = 9e-11
 Identities = 44/178 (24%), Positives = 73/178 (41%), Gaps = 20/178 (11%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDML-AYKTTTILL 119
            K  ++G   VGK  +    ++E +F                   YD  +    T  I +
Sbjct: 5   RKIAILGYRSVGKSSLTI-QFVEGQFV----------------DSYDPTIENTFTKLITV 47

Query: 120 DGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EEHA 177
           +G+   LQL DT+GQ  +    ++YS    G +LVY +T+  SF+ I     ++      
Sbjct: 48  NGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGK 107

Query: 178 PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
             +P +LVGN+  L   R ++  E +  A     AF E S   +    + F  +   A
Sbjct: 108 VQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEA 165

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 58.4 bits (140), Expect = 9e-11
 Identities = 30/186 (16%), Positives = 57/186 (30%), Gaps = 25/186 (13%)

Query: 54  QKQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYK 113
           +   D  ++ LL+G  + GK  +L          +   +  S      G           
Sbjct: 10  KSAPDQEVRILLLGLDNAGKTTLLK---------QLASEDISHITPTQGFNIKSVQ---- 56

Query: 114 TTTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV 173
                   +  KL +WD  GQ +     RSY      ++ V D  ++  F+   + L E+
Sbjct: 57  -------SQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTEL 109

Query: 174 EEHA--PGVPKVLVGNRLHLAFNRT---VTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
            E      VP ++  N+  L        +                   S L    +++  
Sbjct: 110 LEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGM 169

Query: 229 TELSRR 234
             + + 
Sbjct: 170 NWVCKN 175

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 57.7 bits (138), Expect = 1e-10
 Identities = 25/179 (13%), Positives = 56/179 (31%), Gaps = 25/179 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
            K ++VG  + GK  IL          +F ++    +    GS   + +           
Sbjct: 16  HKVIIVGLDNAGKTTILY---------QFSMNEVVHTSPTIGSNVEEIV----------- 55

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--AP 178
               +  +WD  GQ    +   +Y    + +++V D T++         L ++  H    
Sbjct: 56  INNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLR 115

Query: 179 GVPKVLVGNRLHLAFNRT---VTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRR 234
               ++  N+  +    T   ++          +Q        L    + +    +  R
Sbjct: 116 KAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSR 174

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.9 bits (133), Expect = 5e-10
 Identities = 35/179 (19%), Positives = 60/179 (33%), Gaps = 19/179 (10%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K LL+G   VGK  +         F        +E+   +            +  +    
Sbjct: 3   KVLLLGAPGVGKSALAR------IFGGVEDGPEAEAAGHTYDRSIVVDGEEASLMV---- 52

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APG 179
                  +D   Q     +           ++VY +T+K SF+       ++        
Sbjct: 53  -------YDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDD 105

Query: 180 VPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQR 238
           VP +LVGN+  L  +R V+  E    A+     F E S     N++  F  + R+   R
Sbjct: 106 VPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 164

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 55.1 bits (132), Expect = 2e-09
 Identities = 26/214 (12%), Positives = 54/214 (25%), Gaps = 38/214 (17%)

Query: 55  KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKT 114
           + Y    + LL+G  + GK  I+  + +                                
Sbjct: 1   QVYRATHRLLLLGAGESGKSTIVKQMRI---------------------LHVVLTSGIFE 39

Query: 115 TTILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVE 174
           T       +V   ++D  GQ                I+ V   ++       D     ++
Sbjct: 40  TKF--QVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQ 97

Query: 175 EHA------------PGVPKVLVGNRLHLAFNRTVTTREA-EMYAIKNQMAFFEVSPLCD 221
           E                +  +L  N+  L   + +  +   E Y  +            +
Sbjct: 98  EALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPE 157

Query: 222 FNIRESFTELSRRALQRNGMERLWRSNKVGRKPL 255
                  T    +   R+   R+  ++  GR   
Sbjct: 158 PGEDPRVTRA--KYFIRDEFLRISTASGDGRHYC 189

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.2 bits (129), Expect = 3e-09
 Identities = 26/191 (13%), Positives = 66/191 (34%), Gaps = 29/191 (15%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           L+  ++GD+  GK  ++   +L   +                              +L+D
Sbjct: 6   LRLGVLGDARSGKSSLIH-RFLTGSY----------------QVLEKTESEQYKKEMLVD 48

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGV 180
           G+   + + + +G          +S  A  ++ V+ + ++ SF  + R   ++       
Sbjct: 49  GQTHLVLIREEAGAPDAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEG 103

Query: 181 PK------VLVGNRLHLAFNRTVTTREAEMYAI-KNQMAFFEVSPLCDFNIRESFTELSR 233
                   V   +R+  +  R V    A        + +++E       N+   F E+++
Sbjct: 104 RGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQ 163

Query: 234 RALQRNGMERL 244
           + +     ++L
Sbjct: 164 KVVTLRKQQQL 174

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 51.6 bits (122), Expect = 1e-08
 Identities = 31/186 (16%), Positives = 59/186 (31%), Gaps = 31/186 (16%)

Query: 61  LKFLLVGDSDVGKQEIL---SGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI 117
           L+ L++G  + GK  IL   +G  +++  P                              
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDVDTISPTLG-----------------------FNIK 39

Query: 118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEV--EE 175
            L+ +  KL +WD  GQ    +  R+Y     G++ V D  ++       R L+ +  EE
Sbjct: 40  TLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEE 99

Query: 176 HAPGVPKVLVGNRLHLAFNRTVTTREAE---MYAIKNQMAFFEVSPLCDFNIRESFTELS 232
              G   ++  N+  L    +    +          +       S +   ++      L 
Sbjct: 100 RLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLL 159

Query: 233 RRALQR 238
                R
Sbjct: 160 DDISSR 165

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 51.6 bits (122), Expect = 1e-08
 Identities = 32/184 (17%), Positives = 59/184 (32%), Gaps = 32/184 (17%)

Query: 62  KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG 121
           K L +G  + GK  +L  +    R                          +  T+  L  
Sbjct: 2   KLLFLGLDNAGKTTLLH-MLKNDRLATLQPT-------------------WHPTSEELAI 41

Query: 122 KRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PG 179
             +K   +D  G  +   + + Y     GI+ + D  +   FD     L  +   A    
Sbjct: 42  GNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKD 101

Query: 180 VPKVLVGNRLHLAFNRTVT----------TREAEMYAIKNQMAFFEVSPLCDFNIRESFT 229
           VP V++GN++      +            T  ++    +  +  F  S +      E+F 
Sbjct: 102 VPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQ 161

Query: 230 ELSR 233
            LS+
Sbjct: 162 WLSQ 165

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 51.6 bits (122), Expect = 2e-08
 Identities = 30/180 (16%), Positives = 65/180 (36%), Gaps = 24/180 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           ++  LVG    GK   ++ +    +F                +      + +    I   
Sbjct: 3   MELTLVGLQYSGKTTFVN-VIASGQF----------------NEDMIPTVGFNMRKI--T 43

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAP-- 178
              V ++LWD  GQ RF ++   Y RG   I+ + D  ++   +     L  + +     
Sbjct: 44  KGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQ 103

Query: 179 GVPKVLVGNRLHLA---FNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
           G+P +++GN+  L      + +  +         ++  + +S     NI  +   L + +
Sbjct: 104 GIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 163

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 47.8 bits (112), Expect = 3e-07
 Identities = 28/183 (15%), Positives = 48/183 (26%), Gaps = 25/183 (13%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           ++ L++G    GK  IL          R  +     +    G                  
Sbjct: 6   MRILILGLDGAGKTTILY---------RLQVGEVVTTIPTIGFNVETVT----------- 45

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--AP 178
            K +K Q+WD  G        R Y      ++ V D  ++         L  + E     
Sbjct: 46  YKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELR 105

Query: 179 GVPKVLVGNRLHLAFNRTV---TTREAEMYAIKNQMAFFEVSPLCDFNIRESFTELSRRA 235
               V+  N+  +    T                +   F+ S      + E+   L    
Sbjct: 106 KAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 165

Query: 236 LQR 238
             R
Sbjct: 166 KSR 168

>d2c9wa1 a.271.1.1 (A:149-198) Suppressor of cytokine signaling 2, SOCS-2 {Human (Homo sapiens) [TaxId: 9606]} Length = 50

class: All alpha proteins
fold: SOCS box-like
superfamily: SOCS box-like
family: SOCS box-like
domain: Suppressor of cytokine signaling 2, SOCS-2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (96), Expect = 7e-06
 Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 2/41 (4%)

Query: 312 LSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSY 352
           L  S  SLQ LC R  + + T  AI  LPLP  +K +L+ Y
Sbjct: 8   LYTSAPSLQHLC-RLTINKCTG-AIWGLPLPTRLKDYLEEY 46

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 43.9 bits (102), Expect = 9e-06
 Identities = 24/195 (12%), Positives = 50/195 (25%), Gaps = 37/195 (18%)

Query: 57  YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTT 116
           Y    K + +G  + GK  +L              D   +          +         
Sbjct: 10  YKKTGKLVFLGLDNAGKTTLLH---------MLKDDRLGQHVPTLHPTSEELT------- 53

Query: 117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKE--VE 174
                  +    +D  G  +   + ++Y     GI+ + D  +          L     +
Sbjct: 54  ----IAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTD 109

Query: 175 EHAPGVPKVLVGNRLHLAFNRTVTTREAEM---------------YAIKNQMAFFEVSPL 219
           E    VP +++GN++      +                             +  F  S L
Sbjct: 110 ETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVL 169

Query: 220 CDFNIRESFTELSRR 234
                 E F  +++ 
Sbjct: 170 KRQGYGEGFRWMAQY 184

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.7 bits (102), Expect = 1e-05
 Identities = 28/196 (14%), Positives = 45/196 (22%), Gaps = 44/196 (22%)

Query: 60  LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTT---- 115
           L+K LL+G  + GK   L                           +   +     T    
Sbjct: 2   LVKILLLGAGESGKSTFLK--------------------------QMRIIHGQDPTKGIH 35

Query: 116 TILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEE 175
               + K V  ++ D  GQ                IL +   +        DR    + E
Sbjct: 36  EYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTE 95

Query: 176 HA------------PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFN 223
                           V  +L  N+  L   +       + +                  
Sbjct: 96  SLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRD--VQKF 153

Query: 224 IRESFTELSRRALQRN 239
           + E F    R   QR 
Sbjct: 154 LVECFRGKRRDQQQRP 169

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 43.8 bits (102), Expect = 1e-05
 Identities = 24/191 (12%), Positives = 52/191 (27%), Gaps = 39/191 (20%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           +K LL+G  + GK  I+          +  +   + +                       
Sbjct: 3   VKLLLLGAGESGKSTIVK---------QMKIIHEAGTGI---------------VETHFT 38

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--- 177
            K +  +++D  GQ            G   I+    +++       D  +  + E     
Sbjct: 39  FKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLF 98

Query: 178 ---------PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
                         +L  N+  L   +   +     Y        +E        I+  F
Sbjct: 99  DSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEE---AAAYIQCQF 155

Query: 229 TELSRRALQRN 239
            +L++R   + 
Sbjct: 156 EDLNKRKDTKE 166

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 40.3 bits (93), Expect = 2e-04
 Identities = 20/187 (10%), Positives = 46/187 (24%), Gaps = 35/187 (18%)

Query: 61  LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD 120
           LK LL+G  + GK   +                          G               D
Sbjct: 3   LKLLLLGTGESGKSTFIKQ-------------------MRIIHGSGVPTTGIIEYPF--D 41

Query: 121 GKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITN-----------KWSFDGIDRW 169
            + V  ++ D  GQ                I+ +  ++                +    +
Sbjct: 42  LQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALF 101

Query: 170 LKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF 228
              +          +L  N+  L   + + +   + +   +       +      I + F
Sbjct: 102 RTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQA--AREFILKMF 159

Query: 229 TELSRRA 235
            +L+  +
Sbjct: 160 VDLNPDS 166

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	432
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.98
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.97
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.97
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.97
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.97
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.97
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.96
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.96
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.96
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.96
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.94
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.93
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.93
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.93
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.93
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.91
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.87
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.86
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.86
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.86
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.86
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.84
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.83
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.82
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.8
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.8
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.76
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.75
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.74
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.74
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.71
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.7
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.7
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.67
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.62
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.61
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.61
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.61
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.55
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.53
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.46
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.43
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.41
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.37
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.2
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.15
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.13
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.13
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.12
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.11
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.02
d2izva1	44	Suppressor of cytokine signaling 4, SOCS-4 {Human	98.95
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.95
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.86
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.61
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.57
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.56
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.52
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.43
d2c9wa1	50	Suppressor of cytokine signaling 2, SOCS-2 {Human	98.22
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	98.17
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.14
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.74
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.68
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.43
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.31
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.3
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.23
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.15
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.01
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.97
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.96
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.95
d1okkd2	207	GTPase domain of the signal recognition particle r	96.94
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	96.85
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	96.82
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.79
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.72
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.64
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.64
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	96.57
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.52
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	96.33
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	96.33
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	96.32
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.15
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.12
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	96.11
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.98
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.96
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.91
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.83
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.78
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	95.75
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	95.69
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.66
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	95.63
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.62
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.6
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.53
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.48
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.38
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.28
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	95.28
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.18
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	95.17
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.16
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.06
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.02
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.99
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.77
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	94.77
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.76
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.73
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.65
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.52
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	94.38
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.33
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	94.26
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.23
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	94.18
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.14
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	94.13
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	94.03
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	93.99
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	93.88
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.87
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.82
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.82
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	93.81
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.78
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	93.7
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	93.54
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	93.43
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	93.21
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.14
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	93.07
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	93.06
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	93.02
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	93.0
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	92.91
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	92.82
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.71
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	92.7
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	92.57
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.52
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.52
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	92.41
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.32
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.28
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	92.24
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	91.99
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	91.95
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	91.94
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	91.92
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.89
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	91.87
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	91.83
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	91.83
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	91.7
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	91.64
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	91.5
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	91.4
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	91.33
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	91.27
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	91.23
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	91.05
d1g2912	240	Maltose transport protein MalK, N-terminal domain	91.01
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.01
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	90.76
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	90.72
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	90.72
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.7
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	90.61
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.58
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	90.58
d2awna2	232	Maltose transport protein MalK, N-terminal domain	90.55
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	90.4
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.35
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	90.28
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	90.13
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	89.93
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	89.89
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	89.79
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	89.59
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	89.44
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	89.37
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	89.28
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	89.21
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	89.21
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	89.18
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	89.06
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	88.68
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	88.67
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	88.55
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	88.39
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	88.33
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	88.01
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	87.96
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	87.87
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	87.86
d1egaa2	113	GTPase Era C-terminal domain {Escherichia coli [Ta	87.44
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	87.23
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	87.04
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	86.72
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	86.28
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	86.19
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	86.16
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	86.08
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	86.0
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	85.63
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	85.35
d2fh5b1	207	Signal recognition particle receptor beta-subunit	85.29
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	85.27
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	84.97
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	84.96
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	84.88
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	84.87
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	84.74
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	84.63
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	84.54
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	84.54
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	83.54
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	82.22
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	82.17
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	82.0
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	81.96
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	81.66
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	81.47
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	80.68
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	80.52
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	80.31
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	80.27

>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=100.00  E-value=1e-33  Score=252.83  Aligned_cols=163  Identities=23%  Similarity=0.303  Sum_probs=134.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .+..+.         . ..++.+      +.+.+.+.++++.+.+.+||++|++++..
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~-~~~~~~---------~-~~~~~~------~~~~~~i~~~~~~~~l~i~D~~g~e~~~~   63 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIF-GGVEDG---------P-EAEAAG------HTYDRSIVVDGEEASLMVYDIWEQDGGRW   63 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH-HTC-------------------C------EEEEEEEEETTEEEEEEEEECC-------
T ss_pred             CeEEEEECCCCcCHHHHHHHH-hCCccC---------C-cCCeee------eeecceeeccccccceeeeecccccccce
Confidence            489999999999999999997 333221         1 112222      55667888999999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++++|++|+|||+++++||+++..|+.++....  .++|++|||||+|+.++++++.++++++++.++++|+|||
T Consensus        64 ~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~S  143 (168)
T d2gjsa1          64 LPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETS  143 (168)
T ss_dssp             CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECB
T ss_pred             ecccchhhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEe
Confidence            99999999999999999999999999999999987765  5689999999999998889999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhc
Q psy3450         218 PLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~  239 (432)
                      |++|.||+++|++|++.+..++
T Consensus       144 ak~~~~v~~~f~~l~~~i~~~~  165 (168)
T d2gjsa1         144 AALHHNVQALFEGVVRQIRLRR  165 (168)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHHHHh
Confidence            9999999999999999887654

>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=100.00  E-value=1e-33  Score=251.42  Aligned_cols=163  Identities=31%  Similarity=0.556  Sum_probs=146.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.++++     .++.......++..+.+.+|||+|++++..
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl-~~~~~---------~~~~~~ti~-----~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~   66 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRY-CKGIF---------TKDYKKTIG-----VDFLERQIQVNDEDVRLMLWDTAGQEEFDA   66 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHCCC---------CCCSSCCCS-----SSEEEEEEEETTEEEEEEEECCTTGGGTTC
T ss_pred             eEEEEEECCCCcCHHHHHHHH-HhCCC---------Ccccccccc-----cccceeeeeecCceeeeeeeccCCccchhh
Confidence            479999999999999999997 33333         333445554     467778888899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      ++..+++++|++++|||+++++||+++..|++++.+..+++|++|||||+|+.++++++.+++++++++++++|+|+||+
T Consensus        67 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak  146 (164)
T d1z2aa1          67 ITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVK  146 (164)
T ss_dssp             CCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTT
T ss_pred             hhhhhhccCceEEEEEeccchhhhhhcccccccccccCCCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccC
Confidence            99999999999999999999999999999999999888889999999999998889999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHhh
Q psy3450         220 CDFNIRESFTELSRRALQ  237 (432)
Q Consensus       220 tg~nI~elf~~L~~~i~~  237 (432)
                      +|.||+++|++|++.+++
T Consensus       147 ~g~~v~e~f~~l~~~~lq  164 (164)
T d1z2aa1         147 EDLNVSEVFKYLAEKHLQ  164 (164)
T ss_dssp             TTBSSHHHHHHHHHHHHC
T ss_pred             CCcCHHHHHHHHHHHHhC
Confidence            999999999999998864

>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=100.00  E-value=2.8e-33  Score=250.18  Aligned_cols=168  Identities=36%  Similarity=0.643  Sum_probs=148.3

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ++++.+||+++|++|||||||+++| ..+.|+         ..+.++.+     .++..+.+.+++..+++.+|||+|++
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l-~~~~f~---------~~~~~~~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~e   65 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRF-TQGLFP---------PGQGATIG-----VDFMIKTVEINGEKVKLQIWDTAGQE   65 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHH-HHSSCC---------TTCCCCCS-----EEEEEEEEEETTEEEEEEEEEECCSG
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHH-HhCCCC---------Cccccccc-----ceEEEEEEEECCEEEEEEEEECCCch
Confidence            3678999999999999999999997 444443         22233332     47778888999999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +|..+++.+++++|++++|||++++.+|+.+.+|+..+.+.. .++|++|||||+|+.+++++..++++.+++.++++|+
T Consensus        66 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~  145 (171)
T d2ew1a1          66 RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYL  145 (171)
T ss_dssp             GGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEE
T ss_pred             hhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEE
Confidence            999999999999999999999999999999999999887665 5799999999999988889999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +|||++|.||+++|.+|++.++.+
T Consensus       146 ~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         146 ETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             EEccCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999888664

>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=100.00  E-value=2.3e-33  Score=251.60  Aligned_cols=168  Identities=28%  Similarity=0.458  Sum_probs=147.9

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +...+||+|+|++|||||||+++| ..+.|.         ..+.++.+      +...+.+.+++..+.+.+||++|+++
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~-~~~~f~---------~~~~~t~~------~~~~~~~~~~~~~~~l~~~d~~g~~~   66 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQF-IQSYFV---------SDYDPTIE------DSYTKICSVDGIPARLDILDTAGQEE   66 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHH-HHSSCC---------SSCCTTCC------EEEEEEEEETTEEEEEEEEECCCTTT
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHH-HhCCCC---------cccccccc------cceeeEeccCCeeeeeeccccccccc
Confidence            346799999999999999999997 444443         22333332      67778889999999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +..++..+++++|++|+|||++++.||+.+..|+..+.+.  ..++|++|||||+|+.+++++..++++.++++++++|+
T Consensus        67 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~  146 (173)
T d2fn4a1          67 FGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYF  146 (173)
T ss_dssp             TSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEE
T ss_pred             cccccchhhccceeeeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEE
Confidence            9999999999999999999999999999999999988654  36799999999999988888999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      ||||++|.||+++|+.|++.+.++++
T Consensus       147 e~Sak~g~gv~e~f~~l~~~i~k~~~  172 (173)
T d2fn4a1         147 EASAKLRLNVDEAFEQLVRAVRKYQE  172 (173)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             EEeCCCCcCHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999877554

>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=100.00  E-value=2.3e-33  Score=249.87  Aligned_cols=164  Identities=33%  Similarity=0.576  Sum_probs=138.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+||+|+|++|||||||+++| .++.|.         ..+.++.+     .++..+.+..++..+.+++||++|++++.
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~-~~~~f~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~d~~g~~~~~   66 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRY-CENKFN---------DKHITTLG-----ASFLTKKLNIGGKRVNLAIWDTAGQERFH   66 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHH-HHCCCC---------SSCCCCCS-----CEEEEEEEESSSCEEEEEEEECCCC----
T ss_pred             ceEEEEEECCCCcCHHHHHHHH-HhCCCC---------cccccccc-----cchheeeeccCCccceeeeeccCCcceec
Confidence            6799999999999999999997 444443         33444443     36667788889999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .+++.+++++|++|+|||+++++||+++..|+..+.... .+.|++|||||+|+..+++++.+++++++++++++|+|||
T Consensus        67 ~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~S  146 (167)
T d1z08a1          67 ALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTS  146 (167)
T ss_dssp             ---CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEB
T ss_pred             ccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEe
Confidence            999999999999999999999999999999998876554 6789999999999998899999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++|.||+++|++|++.+++
T Consensus       147 ak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         147 AKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             TTTTBSHHHHHHHHHHHHHC
T ss_pred             cCCCcCHHHHHHHHHHHHhh
Confidence            99999999999999998864

>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=100.00  E-value=4.1e-33  Score=248.87  Aligned_cols=167  Identities=35%  Similarity=0.653  Sum_probs=147.1

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +++.+||+++|++|||||||+++| ..+.|         ...+.++.+     .+.....+..++..+.+++|||+|+++
T Consensus         2 ~~~~~Ki~vvG~~~vGKTsLi~~l-~~~~~---------~~~~~~~~~-----~~~~~~~~~~~~~~~~l~~wDt~G~e~   66 (169)
T d3raba_           2 FDYMFKILIIGNSSVGKTSFLFRY-ADDSF---------TPAFVSTVG-----IDFKVKTIYRNDKRIKLQIWDTAGQER   66 (169)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHH-HHSCC---------CSSCCCCCS-----EEEEEEEEEETTEEEEEEEEEECCSGG
T ss_pred             CCeEEEEEEECCCCcCHHHHHHHH-HcCCC---------Ccccccccc-----cceeeEEEEeecceEEEEEEECCCchh
Confidence            678999999999999999999997 33333         233333443     467777888899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..+++.+++++|++|+|||+++++++..+..|+..+.... ++.|+++||||+|+.+++.++.++++.++++++++|+|
T Consensus        67 ~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e  146 (169)
T d3raba_          67 YRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFE  146 (169)
T ss_dssp             GHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEE
T ss_pred             hHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEE
Confidence            99999999999999999999999999999999888877655 67999999999999888899999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         216 VSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~  238 (432)
                      |||++|.||+++|++|++.++++
T Consensus       147 ~Sak~g~gv~e~f~~l~~~i~ek  169 (169)
T d3raba_         147 ASAKDNINVKQTFERLVDVICEK  169 (169)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHTC
T ss_pred             ecCCCCcCHHHHHHHHHHHHhhC
Confidence            99999999999999999998653

>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=100.00  E-value=2.2e-33  Score=250.69  Aligned_cols=163  Identities=27%  Similarity=0.417  Sum_probs=142.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+||+|+|++|||||||+++| ..+.|.         ..+.+++|      +.+.+.+.+++..+.+.+||++|++++.
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~-~~~~f~---------~~~~~T~~------~~~~~~~~~~~~~~~l~i~d~~g~~~~~   66 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQF-MYDEFV---------EDYEPTKA------DSYRKKVVLDGEEVQIDILDTAGQEDYA   66 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHH-HHSCCC---------SCCCTTCC------EEEEEEEEETTEEEEEEEEECCC---CH
T ss_pred             ceeEEEEECCCCcCHHHHHHHH-HhCCCC---------cccCCccc------cccccccccccccccccccccccccchh
Confidence            4689999999999999999997 344443         33445555      5556778899999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .++..+++++|++|+|||+++++||+.+..|++++.+..  +++|++|||||+|+.++++++.+++++++++++++|+||
T Consensus        67 ~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~  146 (168)
T d1u8za_          67 AIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVET  146 (168)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEC
T ss_pred             hhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEE
Confidence            999999999999999999999999999999999987653  679999999999998889999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHhh
Q psy3450         217 SPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~~  237 (432)
                      ||++|.||+++|++|++.+..
T Consensus       147 Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         147 SAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHT
T ss_pred             cCCCCcCHHHHHHHHHHHHHC
Confidence            999999999999999998854

>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=100.00  E-value=4.2e-33  Score=249.15  Aligned_cols=164  Identities=27%  Similarity=0.420  Sum_probs=145.2

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+||+++|++|||||||+++| .++.|         ...+.++.+      +.+.+.+.+++..+.+.+||++|++.+.
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~-~~~~~---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~d~~g~~~~~   66 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQF-FQKIF---------VPDYDPTIE------DSYLKHTEIDNQWAILDVLDTAGQEEFS   66 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHH-HHSSC---------CTTCCTTCC------EEEEEEEEETTEEEEEEEEECCSCGGGC
T ss_pred             CcEEEEEECCCCcCHHHHHHHH-HhCCC---------CcccCccee------eccccccccccccccccccccccccccc
Confidence            4689999999999999999997 33333         333445554      5567778899999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .+++.+++++|++++|||++|++||+++..|+.++.+..  .++|++|||||+|+...++++.+++++++++++++|+||
T Consensus        67 ~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~  146 (169)
T d1x1ra1          67 AMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIET  146 (169)
T ss_dssp             SSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEE
T ss_pred             cchhhhhhhccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEE
Confidence            999999999999999999999999999999999987653  579999999999999989999999999999999999999


Q ss_pred             cCCCCC-CHHHHHHHHHHHHhhh
Q psy3450         217 SPLCDF-NIRESFTELSRRALQR  238 (432)
Q Consensus       217 SAktg~-nI~elf~~L~~~i~~~  238 (432)
                      ||+++. ||+++|+.|++.++++
T Consensus       147 Sak~~~~nV~~~F~~l~~~i~~~  169 (169)
T d1x1ra1         147 SAKDPPLNVDKTFHDLVRVIRQQ  169 (169)
T ss_dssp             BCSSSCBSHHHHHHHHHHHHHHC
T ss_pred             cCCCCCcCHHHHHHHHHHHHHhC
Confidence            999986 9999999999998763

>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=100.00  E-value=4.1e-33  Score=247.96  Aligned_cols=162  Identities=26%  Similarity=0.355  Sum_probs=143.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+|+|++|||||||+++| .++.|         ...+.++++      ..+.+.+.+++..+.+.+||++|++++.
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~d~~g~~~~~   66 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQF-VEGQF---------VDSYDPTIE------NTFTKLITVNGQEYHLQLVDTAGQDEYS   66 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHH-HHSCC---------CSCCCSSCC------EEEEEEEEETTEEEEEEEEECCCCCTTC
T ss_pred             cceEEEEECCCCcCHHHHHHHH-HhCCC---------CcccCccee------cccceEEecCcEEEEeeecccccccccc
Confidence            4579999999999999999997 33333         333445554      3446778899999999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .++..+++++|++|+|||+++++||+.+..|+.++.+..  +++|++|||||+|+..+++++.+++++++++++++|+||
T Consensus        67 ~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~  146 (167)
T d1xtqa1          67 IFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLES  146 (167)
T ss_dssp             CCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEC
T ss_pred             cccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEE
Confidence            999999999999999999999999999999999987653  579999999999998888999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHh
Q psy3450         217 SPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~  236 (432)
                      ||++|.||+++|+.|++.+.
T Consensus       147 Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1         147 SAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             CTTCHHHHHHHHHHHHHHHH
T ss_pred             ecCCCCCHHHHHHHHHHHhc
Confidence            99999999999999998874

>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=100.00  E-value=3.1e-33  Score=249.51  Aligned_cols=161  Identities=25%  Similarity=0.340  Sum_probs=141.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.         +...+.++++      +.......+++..+.+.+||++|++.+..
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~-~~~~---------f~~~~~~T~~------~~~~~~~~~~~~~~~l~~~d~~g~~~~~~   65 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRF-VKGT---------FRESYIPTVE------DTYRQVISCDKSICTLQITDTTGSHQFPA   65 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HTCC---------CCSSCCCCSC------EEEEEEEEETTEEEEEEEEECCSCSSCHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH-HhCC---------CCCccCccee------eccccceeeccccceeccccccccccccc
Confidence            589999999999999999997 3333         3334456665      55566778899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh---CCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH---APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~---~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                      .+..+++++|++|+|||++++++|+++..|+..+.+.   .+++|++|||||+|+..+++++.+++++++++++++|+||
T Consensus        66 ~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~  145 (171)
T d2erxa1          66 MQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMET  145 (171)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEC
T ss_pred             cccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEE
Confidence            9999999999999999999999999999998887653   2679999999999998889999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHh
Q psy3450         217 SPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~  236 (432)
                      ||++|.||+++|+.|++.+.
T Consensus       146 Sak~~~~v~e~f~~l~~~~~  165 (171)
T d2erxa1         146 SAKLNHNVKELFQELLNLEK  165 (171)
T ss_dssp             BTTTTBSHHHHHHHHHHTCC
T ss_pred             cCCCCcCHHHHHHHHHHHHH
Confidence            99999999999999998664

>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=100.00  E-value=1.2e-32  Score=244.85  Aligned_cols=164  Identities=35%  Similarity=0.683  Sum_probs=145.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +++.+||+|+|++|||||||+++| .++.|..         .+.++.+     .++....+.+++..+.+.+||++|+++
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~-~~~~~~~---------~~~~~~~-----~~~~~~~~~~~~~~~~l~i~D~~g~~~   65 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQF-TEKKFMA---------DCPHTIG-----VEFGTRIIEVSGQKIKLQIWDTAGQER   65 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHH-HHSCCCS---------SCTTSCC-----CCEEEEEEEETTEEEEEEEEECTTGGG
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHH-HhCCCCC---------ccccccc-----ccceeEEEEECCEEEEEEEeccCCchh
Confidence            478899999999999999999997 4444432         2222222     367778888999999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..++..+++++|++|+|||+++++||+.+..|+..+.+.. +..|+++||||+|+...+.+..++++.++++++++|+|
T Consensus        66 ~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e  145 (166)
T d1z0fa1          66 FRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLE  145 (166)
T ss_dssp             TCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999999999887765 67899999999999888889999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i  235 (432)
                      |||++|.||+++|++|++.+
T Consensus       146 ~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         146 ASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             CCTTTCTTHHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999999886

>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=100.00  E-value=1.8e-32  Score=248.55  Aligned_cols=165  Identities=24%  Similarity=0.411  Sum_probs=143.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+|+|++|||||||+++| ..+.|.         ..+.++++      ++..+.+..++..+.+.+||++|++.
T Consensus         6 ~~~~~Ki~lvG~~~vGKTsLi~r~-~~~~f~---------~~~~~Ti~------~~~~~~~~~~~~~~~l~i~D~~g~e~   69 (185)
T d2atxa1           6 GALMLKCVVVGDGAVGKTCLLMSY-ANDAFP---------EEYVPTVF------DHYAVSVTVGGKQYLLGLYDTAGQED   69 (185)
T ss_dssp             EEEEEEEEEEECTTSSHHHHHHHH-HHSSCC---------CSCCCSSC------CCEEEEEESSSCEEEEEEECCCCSSS
T ss_pred             CCcEEEEEEECCCCCCHHHHHHHH-hhCCCC---------CcCCCcee------eeeeEEEeeCCceEEeecccccccch
Confidence            456799999999999999999997 444443         33445554      66677788899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHH
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAE  203 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~  203 (432)
                      |..++..+++++|++|+|||+++++||+++ ..|...++...+++|+++||||+|+.+            ++.++.+++.
T Consensus        70 ~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~  149 (185)
T d2atxa1          70 YDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQ  149 (185)
T ss_dssp             STTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHH
T ss_pred             hhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHH
Confidence            999999999999999999999999999987 566666777778899999999999864            4678999999


Q ss_pred             HHHHhcC-CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         204 MYAIKNQ-MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       204 ~~a~~~~-~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++++ +.|+||||++|.||+++|+.+++.++.
T Consensus       150 ~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il~  184 (185)
T d2atxa1         150 KLAKEIGACCYVECSALTQKGLKTVFDEAIIAILT  184 (185)
T ss_dssp             HHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHcC
Confidence            9999987 699999999999999999999998854

>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=100.00  E-value=2.1e-32  Score=244.47  Aligned_cols=163  Identities=26%  Similarity=0.464  Sum_probs=141.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+|+|++|||||||+++| ..+.|         ...+.++.+      +.....+.+++..+.+.+||++|++++..
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~r~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~~~~~d~~g~~~~~~   68 (171)
T d2erya1           5 KYRLVVVGGGGVGKSALTIQF-IQSYF---------VTDYDPTIE------DSYTKQCVIDDRAARLDILDTAGQEEFGA   68 (171)
T ss_dssp             EEEEEEEECTTSSHHHHHHHH-HHSCC---------CSSCCTTCC------EEEEEEEEETTEEEEEEEEECC----CCH
T ss_pred             ceEEEEECCCCCCHHHHHHHH-HhCCC---------CcccCcccc------cceeeeeeecccccccccccccccccccc
Confidence            489999999999999999997 33333         333445555      77788889999999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .+..+++++|++++|||+++++||+.+..|+.++.+..  .+.|+||||||+|+..++.+..+++++++++++++|+|||
T Consensus        69 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~S  148 (171)
T d2erya1          69 MREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEAS  148 (171)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECB
T ss_pred             cccccccccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEc
Confidence            99999999999999999999999999999998876543  5799999999999998899999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhh
Q psy3450         218 PLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~  238 (432)
                      |++|.||+++|++|++.+.+.
T Consensus       149 ak~~~~i~e~f~~l~~~i~k~  169 (171)
T d2erya1         149 AKIRMNVDQAFHELVRVIRKF  169 (171)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHHHh
Confidence            999999999999999998654

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.98  E-value=1.1e-32  Score=246.72  Aligned_cols=164  Identities=21%  Similarity=0.494  Sum_probs=141.4

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++|          ..+.+...+.+++|     +++..+.+..++..+.+.+|||+|++.+..
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~----------~~~~f~~~~~~Ti~-----~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   67 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRH----------LTGEFEKKYVATLG-----VEVHPLVFHTNRGPIKFNVWDTAGQEKFGG   67 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTT----------C-----CCEEEETT-----EEEEEEEECBTTCCEEEEEEECTTHHHHSS
T ss_pred             eEEEEEECCCCcCHHHHHHHH----------HhCCCCccccccee-----ccccccccccccccccccccccccccccce
Confidence            589999999999999999997          34444444556665     577778888899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      ++..+++++|++++|||+++++||+++..|+.++.+..+++|++|||||+|+..++..  +++..+++..+++|+||||+
T Consensus        68 ~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak  145 (170)
T d1i2ma_          68 LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAK  145 (170)
T ss_dssp             CGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTT
T ss_pred             ecchhcccccchhhccccccccccchhHHHHHHHhhccCCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCC
Confidence            9999999999999999999999999999999999887788999999999999765543  34567888899999999999


Q ss_pred             CCCCHHHHHHHHHHHHhhhcC
Q psy3450         220 CDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       220 tg~nI~elf~~L~~~i~~~~~  240 (432)
                      +|.||+++|++|++.++++..
T Consensus       146 ~~~~v~e~f~~l~~~l~~~~~  166 (170)
T d1i2ma_         146 SNYNFEKPFLWLARKLIGDPN  166 (170)
T ss_dssp             TTBTTTHHHHHHHHHHHTCTT
T ss_pred             CCCCHHHHHHHHHHHHccCCC
Confidence            999999999999999976543

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.98  E-value=2.8e-32  Score=243.30  Aligned_cols=162  Identities=30%  Similarity=0.411  Sum_probs=138.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.+++|      ..+...+..++..+.+++||++|++.+. 
T Consensus         2 eiKi~lvG~~~vGKTsli~r~-~~~~f---------~~~~~pTi~------~~~~~~~~~~~~~~~l~i~D~~g~~~~~-   64 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRF-LTKRF---------IWEYDPTLE------STYRHQATIDDEVVSMEILDTAGQEDTI-   64 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHH-HHSCC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCCCCCCH-
T ss_pred             cEEEEEECCCCCCHHHHHHHH-HhCCC---------CCccCCcee------ccccccccccccceEEEEeecccccccc-
Confidence            489999999999999999997 44444         333455665      3445666789999999999999998874 


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .+..+++++|++++|||+++++||+.+..|+..+...  .++.|+++||||+|+..+++++.+++++++++++++|+|||
T Consensus        65 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~S  144 (168)
T d2atva1          65 QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECS  144 (168)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECC
T ss_pred             cchhhhcccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEc
Confidence            5667899999999999999999999998887665443  36899999999999988889999999999999999999999


Q ss_pred             CCCCC-CHHHHHHHHHHHHhhh
Q psy3450         218 PLCDF-NIRESFTELSRRALQR  238 (432)
Q Consensus       218 Aktg~-nI~elf~~L~~~i~~~  238 (432)
                      |++|. ||+++|..|++.+.++
T Consensus       145 aktg~gnV~e~F~~l~~~i~~~  166 (168)
T d2atva1         145 ACTGEGNITEIFYELCREVRRR  166 (168)
T ss_dssp             TTTCTTCHHHHHHHHHHHHHHH
T ss_pred             cccCCcCHHHHHHHHHHHHHHh
Confidence            99998 6999999999998765

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.98  E-value=2.3e-32  Score=243.06  Aligned_cols=161  Identities=25%  Similarity=0.414  Sum_probs=144.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.|         ...+.++++      ++....+.+++..+.+.+||++|++.+..
T Consensus         3 ~~Ki~lvG~~~vGKTsLi~r~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~~~d~~g~~~~~~   66 (167)
T d1kaoa_           3 EYKVVVLGSGGVGKSALTVQF-VTGTF---------IEKYDPTIE------DFYRKEIEVDSSPSVLEILDTAGTEQFAS   66 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HHSCC---------CSCCCTTCC------EEEEEEEEETTEEEEEEEEECCCTTCCHH
T ss_pred             eeEEEEECCCCcCHHHHHHHH-HhCCC---------CCccCCcee------eeeeeeeecCcceEeeccccCCCcccccc
Confidence            589999999999999999997 33333         334455665      77778888999999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      ++..+++++|++++|||++++++|+++..|+.++....  +++|++|||||+|+.+.+.+..++++.++++++++|+|||
T Consensus        67 ~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~S  146 (167)
T d1kaoa_          67 MRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETS  146 (167)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEEC
T ss_pred             chHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEEC
Confidence            99999999999999999999999999999999887654  6799999999999988889999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHh
Q psy3450         218 PLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~  236 (432)
                      |++|.||+++|++|++++.
T Consensus       147 ak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         147 AKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             TTCHHHHHHHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHHHHc
Confidence            9999999999999998874

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.98  E-value=8e-32  Score=242.00  Aligned_cols=162  Identities=29%  Similarity=0.422  Sum_probs=139.7

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      ..||+|+|++|||||||+++| ..+.|         ...+.++++      +.....+.+++..+.+++||++|++.|..
T Consensus         2 r~KivvvG~~~vGKTsLi~~~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   65 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVN-SKDQF---------PEVYVPTVF------ENYVADIEVDGKQVELALWDTAGLEDYDR   65 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH-HHSCC---------CSSCCCCSE------EEEEEEEEETTEEEEEEEEEECCSGGGTT
T ss_pred             cEEEEEECCCCcCHHHHHHHH-HhCCC---------CCCcCCcee------eeccccccccccceeeeccccCccchhcc
Confidence            479999999999999999997 44443         333445554      66677788899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHH-HHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHHHHH
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDR-WLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAEMYA  206 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~-~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~~~a  206 (432)
                      +++.|++++|++|+|||+++++||+++.. |...+....+++|++|||||+|+..            .+.++.++++.++
T Consensus        66 ~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a  145 (177)
T d1kmqa_          66 LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMA  145 (177)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHH
T ss_pred             cchhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHH
Confidence            99999999999999999999999999855 5666676778899999999999964            2568889999999


Q ss_pred             HhcCC-cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         207 IKNQM-AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       207 ~~~~~-~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++. +|+||||++|.||+++|+.+++.+++
T Consensus       146 ~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         146 NRIGAFGYMECSAKTKDGVREVFEMATRAALQ  177 (177)
T ss_dssp             HHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHcCCcEEEEecCCCCcCHHHHHHHHHHHHhC
Confidence            99985 89999999999999999999998864

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.98  E-value=3.2e-32  Score=241.20  Aligned_cols=160  Identities=31%  Similarity=0.603  Sum_probs=141.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .+++|+         ..+.++++     .+........++..+.+.+||++|++++..+
T Consensus         1 fKv~vvG~~~vGKTsLi~r~-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~   65 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRF-MYDSFD---------NTYQATIG-----IDFLSKTMYLEDRTIRLQLWDTAGQERFRSL   65 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHH-HHSCCC---------SSCCCCCS-----EEEEEEEEECSSCEEEEEEEEECCSGGGGGG
T ss_pred             CEEEEECCCCcCHHHHHHHH-HhCCCC---------Ccccccee-----eeccceeeccCCCceeeeecccCCcchhccc
Confidence            69999999999999999997 444443         33334443     3555667777888999999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPL  219 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAk  219 (432)
                      +..+++++|++++|||++++.||+++.+|+.++.... +++|++|||||+|+.+.+++..+++.+++++++++|+||||+
T Consensus        66 ~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk  145 (164)
T d1yzqa1          66 IPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAK  145 (164)
T ss_dssp             HHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTT
T ss_pred             hHHHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCC
Confidence            9999999999999999999999999999999887655 689999999999998888999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy3450         220 CDFNIRESFTELSRRA  235 (432)
Q Consensus       220 tg~nI~elf~~L~~~i  235 (432)
                      +|.||+++|++|++.+
T Consensus       146 ~g~~v~e~f~~i~~~l  161 (164)
T d1yzqa1         146 AGYNVKQLFRRVAAAL  161 (164)
T ss_dssp             TCTTHHHHHHHHHHHS
T ss_pred             CCcCHHHHHHHHHHhh
Confidence            9999999999999876

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=8.2e-32  Score=241.07  Aligned_cols=168  Identities=38%  Similarity=0.688  Sum_probs=146.8

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +++.+||+|+|++|||||||+++| ..++|.         ..+.++.+     .......+..++..+.+.+|||+|+++
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~D~~G~~~   66 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQF-IEKKFK---------DDSNHTIG-----VEFGSKIINVGGKYVKLQIWDTAGQER   66 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHH-HHSSCC---------TTCCCCSE-----EEEEEEEEEETTEEEEEEEEEECCSGG
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHH-HhCCCC---------cccccccc-----cceeeEEEEecCcceeEEEEECCCchh
Confidence            678999999999999999999997 434433         22333332     244556677789999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..+++.+++.+|++|+|||.+++++|+.+..|+..+.... +++|+++||||+|+..++++..+++..++++++++|+|
T Consensus        67 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e  146 (174)
T d2bmea1          67 FRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLE  146 (174)
T ss_dssp             GHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             hhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEE
Confidence            99999999999999999999999999999999999887765 67999999999999888889999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      |||++|.||+++|++|++.++++.
T Consensus       147 ~Sak~~~gi~e~f~~l~~~i~~~~  170 (174)
T d2bmea1         147 TSALTGENVEEAFVQCARKILNKI  170 (174)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             eeCCCCcCHHHHHHHHHHHHHHHH
Confidence            999999999999999999998764

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.3e-31  Score=240.42  Aligned_cols=168  Identities=41%  Similarity=0.711  Sum_probs=145.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +|+.+||+|+|++|||||||+++| .++.+.         ..+.++.+     .+.....+..++..+.+.+||++|+++
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~d~~g~e~   65 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRF-TRNEFN---------LESKSTIG-----VEFATRSIQVDGKTIKAQIWDTAGQER   65 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHH-HHSCCC---------C---CCCS-----CEEEEEEEEETTEEEEEEEEECSSGGG
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHH-HhCCCC---------Cccccccc-----ceeeeEEEEECCEEEEEEecccCCcHH
Confidence            478899999999999999999997 333332         33333332     356677788899999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      |..++..+++++|++|+|||+++++||+.+.+|+..+.+.. +++|++|||||+|+.+++....+.+..+.+.++.+|+|
T Consensus        66 ~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e  145 (175)
T d2f9la1          66 YRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIE  145 (175)
T ss_dssp             TTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEE
Confidence            99999999999999999999999999999999999998776 67999999999999887888888888899999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      |||++|.||+++|+++++.+.+..
T Consensus       146 ~Sa~~g~~i~e~f~~l~~~i~~~~  169 (175)
T d2f9la1         146 TSALDSTNVEEAFKNILTEIYRIV  169 (175)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EecCCCcCHHHHHHHHHHHHHHHh
Confidence            999999999999999999986543

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.97  E-value=1.2e-31  Score=238.61  Aligned_cols=161  Identities=34%  Similarity=0.572  Sum_probs=142.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|.         ..+.++.+     ..+.......++....+.+||++|++++..
T Consensus         4 ~~Ki~lvG~~~vGKTsli~rl-~~~~f~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~   68 (167)
T d1z0ja1           4 ELKVCLLGDTGVGKSSIMWRF-VEDSFD---------PNINPTIG-----ASFMTKTVQYQNELHKFLIWDTAGLERFRA   68 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HHSCCC---------TTCCCCCS-----EEEEEEEEEETTEEEEEEEEEECCSGGGGG
T ss_pred             eeEEEEECCCCcCHHHHHHHH-HhCCCC---------cccccccc-----cccccccccccccccceeeeecCCchhhhH
Confidence            589999999999999999997 444443         33344443     255566677788889999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      ++..+++++|++|+|||++++++|+.+..|+..+.... ++.|++|||||+|+.+++.+..+++++++++++++|+||||
T Consensus        69 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA  148 (167)
T d1z0ja1          69 LAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSA  148 (167)
T ss_dssp             GTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBT
T ss_pred             HHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEec
Confidence            99999999999999999999999999999998887665 68999999999999888999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy3450         219 LCDFNIRESFTELSRRA  235 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i  235 (432)
                      ++|.||+++|.+|++.+
T Consensus       149 k~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         149 KNAININELFIEISRRI  165 (167)
T ss_dssp             TTTBSHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHhC
Confidence            99999999999999876

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.1e-31  Score=240.34  Aligned_cols=166  Identities=35%  Similarity=0.670  Sum_probs=144.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+||+|+|++|||||||+++| ..+++...         +.++.+     ..........++..+.+.+||++|++.+.
T Consensus         2 y~~KivvvG~~~vGKTsli~r~-~~~~~~~~---------~~~~~~-----~~~~~~~~~~~~~~~~~~i~d~~g~~~~~   66 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQF-TDKRFQPV---------HDLTIG-----VEFGARMVNIDGKQIKLQIWDTAGQESFR   66 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHH-HHSCCCC--------------CC-----SSEEEEEEEETTEEEEEEEECCTTGGGTS
T ss_pred             eeEEEEEECCCCcCHHHHHHHH-hcCCCCCC---------ccccee-----eccceeeeeeeeeEEEEEeecccCccchh
Confidence            6799999999999999999997 44444322         222222     35566677788889999999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .+++.+++++|++|+|||+++++||+++..|+..+.+.. +++|++|||||+|+...+.+..+++..+++.++++|+|||
T Consensus        67 ~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~S  146 (173)
T d2a5ja1          67 SITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETS  146 (173)
T ss_dssp             CCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEC
T ss_pred             hHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEec
Confidence            999999999999999999999999999999999887765 6899999999999988888999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhhhc
Q psy3450         218 PLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~~~  239 (432)
                      |++|.||+++|.+|++.++++.
T Consensus       147 a~tg~~V~e~f~~i~~~i~~~~  168 (173)
T d2a5ja1         147 AKTACNVEEAFINTAKEIYRKI  168 (173)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999987654

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=7e-32  Score=240.12  Aligned_cols=161  Identities=25%  Similarity=0.405  Sum_probs=141.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.++++      +.....+..++..+.+.+||++|++.+..
T Consensus         3 ~~KivvvG~~~vGKTsli~r~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~~~~~d~~g~~~~~~   66 (167)
T d1c1ya_           3 EYKLVVLGSGGVGKSALTVQF-VQGIF---------VEKYDPTIE------DSYRKQVEVDCQQCMLEILDTAGTEQFTA   66 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHCCC---------CCSCCCCSE------EEEEEEEESSSCEEEEEEEEECSSCSSTT
T ss_pred             eeEEEEECCCCCCHHHHHHHH-HcCCC---------CCccCCccc------cccceeEEeeeeEEEeccccccCcccccc
Confidence            589999999999999999997 44444         333445554      55566778899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHhc-CCcEEEE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN-QMAFFEV  216 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~-~~~~~ev  216 (432)
                      +++.+++++|++|+|||+++++||+++..|+..+.+.  .+++|++|||||+|+..++.+..+++..+++++ +++|+||
T Consensus        67 ~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~  146 (167)
T d1c1ya_          67 MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLES  146 (167)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEEC
T ss_pred             cccccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEE
Confidence            9999999999999999999999999999999988764  367999999999999988889999999999875 6899999


Q ss_pred             cCCCCCCHHHHHHHHHHHHh
Q psy3450         217 SPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       217 SAktg~nI~elf~~L~~~i~  236 (432)
                      ||++|.||+++|++|++.+.
T Consensus       147 Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         147 SAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             BTTTTBSHHHHHHHHHHHHT
T ss_pred             cCCCCcCHHHHHHHHHHHhc
Confidence            99999999999999999874

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=2.8e-31  Score=242.39  Aligned_cols=174  Identities=41%  Similarity=0.718  Sum_probs=151.4

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      ++++.+||+|+|++|||||||+++| ..+.+         ...+.++.|     ..+....+.+++..+.+.+|||+|++
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~i~~~~~~~~l~i~Dt~G~e   66 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRF-SDDTY---------TNDYISTIG-----VDFKIKTVELDGKTVKLQIWDTAGQE   66 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHH-HHCCC---------CTTCCCSSC-----CCEEEEEEEETTEEEEEEEECCTTTT
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHH-hhCCC---------CCCcCCccc-----eeEEEEEEEEeeEEEEEEEEECCCch
Confidence            4688999999999999999999998 33333         333444444     35566788899999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      +|..++..+++++|++|+|||++++++|..+..|+..+.+.. .++|++|||||.|+.+.+.+..+++..+++..++.|+
T Consensus        67 ~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  146 (194)
T d2bcgy1          67 RFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFL  146 (194)
T ss_dssp             TTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEE
T ss_pred             hhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceE
Confidence            999999999999999999999999999999998888887644 7899999999999999899999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhcCCccc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRNGMERL  244 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~~~~~~  244 (432)
                      |+||++|.||+++|++|++.+.+.......
T Consensus       147 e~SAk~g~gi~e~f~~l~~~i~~~~~~~~~  176 (194)
T d2bcgy1         147 ETSALDSTNVEDAFLTMARQIKESMSQQNL  176 (194)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHHCCHHHH
T ss_pred             EEecCcCccHHHHHHHHHHHHHHHhhhccc
Confidence            999999999999999999999876654443

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.5e-31  Score=238.73  Aligned_cols=163  Identities=36%  Similarity=0.615  Sum_probs=143.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|+         ..+.++.+     .++....+..++..+.+.+||++|++++..
T Consensus         6 ~~Ki~vvG~~~vGKTsLi~~l-~~~~f~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~   70 (170)
T d1r2qa_           6 QFKLVLLGESAVGKSSLVLRF-VKGQFH---------EFQESTIG-----AAFLTQTVCLDDTTVKFEIWDTAGQERYHS   70 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHSCCC---------TTCCCCSS-----EEEEEEEEEETTEEEEEEEEEECCSGGGGG
T ss_pred             EEEEEEECCCCcCHHHHHHHH-HhCCCC---------cccccccc-----cccccceeeccceEEEEEeccCCCchhhhh
Confidence            579999999999999999997 444443         23334443     355667777889999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      ++..+++++|++|+|||+++.++|+++..|+..+.+.. +++|++|||||+|+.++++++.++++.+++.++++|+||||
T Consensus        71 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SA  150 (170)
T d1r2qa_          71 LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSA  150 (170)
T ss_dssp             GHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCT
T ss_pred             hHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeC
Confidence            99999999999999999999999999999988886654 78999999999999988999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhh
Q psy3450         219 LCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~~  237 (432)
                      ++|.||+++|+.|++.+.+
T Consensus       151 k~g~~V~e~f~~l~~~i~~  169 (170)
T d1r2qa_         151 KTSMNVNEIFMAIAKKLPK  169 (170)
T ss_dssp             TTCTTHHHHHHHHHHTSCC
T ss_pred             CCCCCHHHHHHHHHHHHhh
Confidence            9999999999999987743

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=3e-32  Score=246.52  Aligned_cols=169  Identities=33%  Similarity=0.603  Sum_probs=142.2

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEEC----------CeEEE
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLD----------GKRVK  125 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~----------~~~v~  125 (432)
                      ++++.+||+++|++|||||||+++| .++.|..         .+.++.+     .++..+.+.++          +..++
T Consensus         1 ~~d~~~Ki~ivG~~~vGKTsLi~~l-~~~~~~~---------~~~~~~~-----~~~~~~~i~~~~~~~~~~~~~~~~~~   65 (186)
T d2f7sa1           1 DYDYLIKLLALGDSGVGKTTFLYRY-TDNKFNP---------KFITTVG-----IDFREKRVVYNAQGPNGSSGKAFKVH   65 (186)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHH-HCSCCCC---------EEEEEEE-----EEEEEEEEEEEC-------CCEEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHH-hcCCCCC---------ccCCccc-----ceeeEEEEEEecccccccccccceEE
Confidence            4688999999999999999999997 4444432         2222222     23444444433          34578


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +.+|||+|+++|..++..+++++|++|+|||++++++|+.+..|+.++....  +++|++|||||+|+.+++++..+++.
T Consensus        66 ~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~  145 (186)
T d2f7sa1          66 LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQAR  145 (186)
T ss_dssp             EEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHH
T ss_pred             eccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHH
Confidence            9999999999999999999999999999999999999999999998876543  56899999999999988999999999


Q ss_pred             HHHHhcCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         204 MYAIKNQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       204 ~~a~~~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +++++++++|+||||++|.||+++|++|++.+.++.
T Consensus       146 ~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~  181 (186)
T d2f7sa1         146 ELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM  181 (186)
T ss_dssp             HHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999987654

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.97  E-value=1.3e-31  Score=240.03  Aligned_cols=169  Identities=45%  Similarity=0.752  Sum_probs=123.2

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      .+++.+||+++|++|||||||+++| .++.         +...+.++++     .++..+.+.+++..+.+.+|||+|++
T Consensus         2 ~~~~~~Ki~vvG~~~vGKTsLi~~l-~~~~---------~~~~~~~t~~-----~~~~~~~~~~~~~~~~l~i~D~~G~e   66 (173)
T d2fu5c1           2 TYDYLFKLLLIGDSGVGKTCVLFRF-SEDA---------FNSTFISTIG-----IDFKIRTIELDGKRIKLQIWDTAGQE   66 (173)
T ss_dssp             CCSEEEEEEEECCCCC--------------------------CHHHHHC-----EEEEEEEEEETTEEEEEEEEEC----
T ss_pred             cccEEEEEEEECCCCcCHHHHHHHH-HhCC---------CCCccCcccc-----ceEEEEEEEECCEEEEEEEEECCCch
Confidence            3678999999999999999999997 3333         3333333433     46777888999999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      .|..+++.+++++|++|+|||++++.||+.+..|+..+.... ++.|+++|+||.|+...+....+++..++++.+++|+
T Consensus        67 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~  146 (173)
T d2fu5c1          67 RFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFM  146 (173)
T ss_dssp             -----CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEE
T ss_pred             hhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEE
Confidence            999999999999999999999999999999999999887555 6799999999999988888888999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +|||++|.||+++|++|++.+..+.
T Consensus       147 e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         147 ETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             ECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999986653

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=5.4e-31  Score=235.04  Aligned_cols=166  Identities=38%  Similarity=0.651  Sum_probs=137.2

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      +++.+||+++|++|||||||+++| ..+.|...        ...++++     .++....+..++..+++.||||+|+++
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~-~~~~~~~~--------~~~~~~~-----~~~~~~~~~~~~~~~~l~i~Dt~G~e~   68 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRF-KDGAFLAG--------TFISTVG-----IDFRNKVLDVDGVKVKLQMWDTAGQER   68 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHH-HHSCCCCC--------CCCCCCS-----CEEEEEEEEETTEEEEEEEEECCCC--
T ss_pred             CceEEEEEEECCCCcCHHHHHHHH-HhCCCCcc--------cccceee-----eeeEEEEEEecCcEEEEEEEECCCchh
Confidence            678999999999999999999997 44444221        1122222     366777888999999999999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..++..+++++|++++|||++++++|..+..|+..+.... ...|+++|+||+|+.+++.+..+++..+++.++++|+|
T Consensus        69 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e  148 (170)
T d2g6ba1          69 FRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFME  148 (170)
T ss_dssp             ------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEE
T ss_pred             hHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999988888776655 57899999999999988899999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHh
Q psy3450         216 VSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~  236 (432)
                      |||++|.||+++|++|++.+.
T Consensus       149 ~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         149 TSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHH
T ss_pred             EeCCCCcCHHHHHHHHHHHcC
Confidence            999999999999999999875

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=5.1e-31  Score=239.93  Aligned_cols=164  Identities=25%  Similarity=0.430  Sum_probs=141.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.++++      +.......+++..+.+.+||++|+++|..
T Consensus         3 ~iKvvllG~~~vGKTSli~r~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~l~i~D~~g~~~~~~   66 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISY-TTNKF---------PSEYVPTVF------DNYAVTVMIGGEPYTLGLFDTAGQEDYDR   66 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH-HHSCC---------CSSCCCCSE------EEEEEEEEETTEEEEEEEEEECCSGGGTT
T ss_pred             ceEEEEECCCCcCHHHHHHHH-HhCCC---------CCCcCCcee------eecceeEeeCCceeeeeccccccchhhhh
Confidence            589999999999999999997 34443         333445564      66677788899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHH-HHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHHHHH
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDR-WLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAEMYA  206 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~-~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~~~a  206 (432)
                      ++..+++++|++|+|||+++++||+++.. |...+....+++|+++||||+|+.+            .+.+..+++++++
T Consensus        67 ~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~  146 (191)
T d2ngra_          67 LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLA  146 (191)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHH
T ss_pred             hhhhcccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHH
Confidence            99999999999999999999999999965 5666666668899999999999853            3568999999999


Q ss_pred             HhcC-CcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         207 IKNQ-MAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       207 ~~~~-~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ++++ ++|+||||++|.||+++|+.+++.+++..
T Consensus       147 ~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~~~~  180 (191)
T d2ngra_         147 RDLKAVKYVECSALTQKGLKNVFDEAILAALEPP  180 (191)
T ss_dssp             HHTTCSCEEECCTTTCTTHHHHHHHHHHHHTSCC
T ss_pred             HHcCCCeEEEEeCCCCcCHHHHHHHHHHHHhcCc
Confidence            9865 79999999999999999999999887653

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=3.5e-31  Score=239.24  Aligned_cols=164  Identities=26%  Similarity=0.440  Sum_probs=141.3

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...+||+|+|++|||||||+++| ..+.|         ...+.++++      +...+.+..++..+.+.+||++|++.+
T Consensus         3 p~~iKivviG~~~vGKTsli~~~-~~~~f---------~~~~~~ti~------~~~~~~~~~~~~~~~~~~~d~~g~~~~   66 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISY-TTNAF---------PGEYIPTVF------DNYSANVMVDGKPVNLGLWDTAGQEDY   66 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHH-HHSSC---------CSSCCCCSC------CEEEEEEEETTEEEEEEEECCCCSGGG
T ss_pred             ceeEEEEEECCCCCCHHHHHHHH-HhCCC---------Cccccccee------eceeeeeeccCcceEEEeecccccccc
Confidence            45689999999999999999997 33333         334455665      677788889999999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHH-HHHHHHhhCCCCcEEEEEECccCCCC------------cccCHHHHHH
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDR-WLKEVEEHAPGVPKVLVGNRLHLAFN------------RTVTTREAEM  204 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~-~l~~i~~~~~~iPiILVgNK~DL~~~------------r~v~~ee~~~  204 (432)
                      ..++..+++++|++|+|||+++++||+++.. |...++...+++|++|||||+|+.++            +.+...++..
T Consensus        67 ~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  146 (183)
T d1mh1a_          67 DRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLA  146 (183)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHH
T ss_pred             hhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHH
Confidence            9999999999999999999999999999954 77777777788999999999998543            3456778889


Q ss_pred             HHHhcC-CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         205 YAIKNQ-MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       205 ~a~~~~-~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++++ ++|+||||++|.||+++|+.|++.+++
T Consensus       147 ~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il~  180 (183)
T d1mh1a_         147 MAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  180 (183)
T ss_dssp             HHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             HHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHcC
Confidence            999887 699999999999999999999999865

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=7.5e-31  Score=235.04  Aligned_cols=164  Identities=23%  Similarity=0.364  Sum_probs=137.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCC---Ccc
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG---QGR  136 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G---~e~  136 (432)
                      -+||+++|++|||||||+++| ....+..       . ...++.|     +++..+.+.++++.+.+.+||+++   +++
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~-~~~~~~~-------~-~~~~t~~-----~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~   68 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIF-AGVHDSM-------D-SDCEVLG-----EDTYERTLMVDGESATIILLDMWENKGENE   68 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HCCCCTT-------C-CC---CC-----TTEEEEEEEETTEEEEEEEECCTTTTHHHH
T ss_pred             EEEEEEECCCCcCHHHHHHHH-HhCcCCc-------c-cccccee-----eecceeeeccCCceeeeeeecccccccccc
Confidence            589999999999999999997 3222211       0 1111222     477888899999999999999764   555


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEE
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~  214 (432)
                      |  ++..+++++|++|+|||+++++||+++..|+.++....  +++|++|||||+|+.++++++.++++++++.++++|+
T Consensus        69 ~--~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~  146 (172)
T d2g3ya1          69 W--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFI  146 (172)
T ss_dssp             H--HHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEE
T ss_pred             c--cccccccccceeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEE
Confidence            4  56788999999999999999999999999999887654  6899999999999998899999999999999999999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      ||||++|.||+++|+.|++.+..++
T Consensus       147 e~Sak~g~~i~~~f~~l~~~i~~rr  171 (172)
T d2g3ya1         147 ETSAAVQHNVKELFEGIVRQVRLRR  171 (172)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             EEeCCCCcCHHHHHHHHHHHHHHcc
Confidence            9999999999999999999987654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=7.8e-31  Score=233.07  Aligned_cols=161  Identities=29%  Similarity=0.479  Sum_probs=140.5

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.|+         ..+.++++      +.....+..++..+.+.+||++|++.+..
T Consensus         3 e~Ki~viG~~~vGKTsli~~l-~~~~~~---------~~~~~~~~------~~~~~~~~~~~~~~~l~~~d~~~~~~~~~   66 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQL-IQNHFV---------DEYDPTIE------DSYRKQVVIDGETCLLDILDTAGQEEYSA   66 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH-HHCCCC---------CSCCCCSE------EEEEEEEEETTEEEEEEEEEECCCGGGHH
T ss_pred             eeEEEEECCCCCCHHHHHHHH-HhCCCC---------CccCCccc------eeeccceeeeceeeeeeeeeccCcccccc
Confidence            489999999999999999997 334333         33344554      44455677889999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVS  217 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evS  217 (432)
                      .+..+++.++++++|||++++.+|+.+.+|+..+.+..  +++|+++||||+|+. ++.+..++++++++.++++|+|||
T Consensus        67 ~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~e~S  145 (166)
T d1ctqa_          67 MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETS  145 (166)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCS-CCCSCHHHHHHHHHHHTCCEEECC
T ss_pred             chhhhhhcccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccc-cccccHHHHHHHHHHhCCeEEEEc
Confidence            99999999999999999999999999999999988754  579999999999985 467888999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHhh
Q psy3450         218 PLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       218 Aktg~nI~elf~~L~~~i~~  237 (432)
                      |++|.||+++|++|++.+.+
T Consensus       146 ak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         146 AKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             TTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCcCHHHHHHHHHHHHHh
Confidence            99999999999999998854

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=1.1e-30  Score=232.73  Aligned_cols=161  Identities=32%  Similarity=0.556  Sum_probs=141.4

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .+++|.         ..+.++.|     .++..+.+..++..+.+.+||++|++++..
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~-~~~~f~---------~~~~~t~~-----~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~   67 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRF-VSNDFA---------ENKEPTIG-----AAFLTQRVTINEHTVKFEIWDTAGQERFAS   67 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHSCCC---------TTCCCCSS-----EEEEEEEEEETTEEEEEEEEEECCSGGGGG
T ss_pred             EEEEEEECCCCcCHHHHHHHH-HhCCCC---------cccccccc-----ceeeccccccccccccccccccCCchhHHH
Confidence            589999999999999999997 444443         33444554     467778889999999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCC---CcccCHHHHHHHHHhcCCcEEE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAF---NRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~---~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ++..+++++|++|+|||+++++||+++..|+.++.... ...|+++|+||+|+.+   .+++..+++++++++++++|+|
T Consensus        68 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e  147 (170)
T d1ek0a_          68 LAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFE  147 (170)
T ss_dssp             GHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEE
T ss_pred             HHHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEE
Confidence            99999999999999999999999999999988776655 6789999999999854   4789999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i  235 (432)
                      |||++|.||+++|+.|++.|
T Consensus       148 ~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         148 TSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             CCTTTCTTHHHHHHHHHTTS
T ss_pred             ecCCCCcCHHHHHHHHHHHh
Confidence            99999999999999998765

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.97  E-value=9.3e-31  Score=236.19  Aligned_cols=163  Identities=24%  Similarity=0.405  Sum_probs=140.1

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|         ...+.++++      +...+.+.+++..+.+++||++|++.+..
T Consensus         2 ~~KivliG~~~vGKTsli~r~-~~~~f---------~~~~~~t~~------~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   65 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVF-AKDCF---------PENYVPTVF------ENYTASFEIDTQRIELSLWDTSGSPYYDN   65 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH-HHSCC---------CSSCCCCSE------EEEEEEEECSSCEEEEEEEEECCSGGGTT
T ss_pred             ceEEEEECCCCcCHHHHHHHH-HhCCC---------CCccCCcee------ecccccccccceEEeeccccccccccccc
Confidence            479999999999999999997 44444         333445554      67777788899999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHH-HHHHHHhhCCCCcEEEEEECccCCC------------CcccCHHHHHHHH
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDR-WLKEVEEHAPGVPKVLVGNRLHLAF------------NRTVTTREAEMYA  206 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~-~l~~i~~~~~~iPiILVgNK~DL~~------------~r~v~~ee~~~~a  206 (432)
                      +++.+++++|++|+|||+++++||+.+.. |...+....+++|++|||||+|+..            .+.++.+++..++
T Consensus        66 ~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a  145 (179)
T d1m7ba_          66 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMA  145 (179)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHH
T ss_pred             cccchhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHH
Confidence            99999999999999999999999999865 5555666678999999999999853            4668999999999


Q ss_pred             HhcC-CcEEEEcCCCCCC-HHHHHHHHHHHHhhh
Q psy3450         207 IKNQ-MAFFEVSPLCDFN-IRESFTELSRRALQR  238 (432)
Q Consensus       207 ~~~~-~~~~evSAktg~n-I~elf~~L~~~i~~~  238 (432)
                      ++++ +.|+||||++|.| |+++|+.+++.++++
T Consensus       146 ~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~k  179 (179)
T d1m7ba_         146 KQIGAATYIECSALQSENSVRDIFHVATLACVNK  179 (179)
T ss_dssp             HHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHTC
T ss_pred             HHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhcC
Confidence            9987 5899999999985 999999999998763

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.97  E-value=2.9e-30  Score=230.66  Aligned_cols=165  Identities=32%  Similarity=0.557  Sum_probs=124.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEE-ECCeEEEEEEEeCCCCcccc
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTIL-LDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~-i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      .+||+++|++|||||||+++| .++.|...         +.++.+     ......... .+...+.+.+|||+|++++.
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~-~~~~~~~~---------~~~t~~-----~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~   66 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRY-VNDKYSQQ---------YKATIG-----ADFLTKEVTVDGDKVATMQVWDTAGQERFQ   66 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HHSCCCTT---------C---CC-----CSCEEEEECCSSSCCEEEEEECCC------
T ss_pred             eEEEEEECCCCcCHHHHHHHH-HcCCCCCc---------cCcccc-----cceeeeeeeecCcccccceeeccCCchhhh
Confidence            689999999999999999997 44444322         222322     122222222 34456789999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCC-cccCHHHHHHHHHhcC-C
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFN-RTVTTREAEMYAIKNQ-M  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~-r~v~~ee~~~~a~~~~-~  211 (432)
                      .++..+++.+|++++|||++++.||+.+..|+.++....     .++|++|||||+|+.++ +.++.+++++++++++ +
T Consensus        67 ~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~  146 (175)
T d1ky3a_          67 SLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDI  146 (175)
T ss_dssp             ----CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSC
T ss_pred             hHHHHHhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCC
Confidence            999999999999999999999999999999999987532     47899999999999765 4478889999999986 7


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +|+||||++|.||+++|++|++.+++++
T Consensus       147 ~~~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         147 PLFLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             CEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence            9999999999999999999999998765

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=9.4e-30  Score=227.74  Aligned_cols=166  Identities=30%  Similarity=0.578  Sum_probs=140.1

Q ss_pred             cccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCc
Q psy3450          56 QYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQG  135 (432)
Q Consensus        56 ~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e  135 (432)
                      +.+..+||+|+|++|||||||+++| ..+.|.         ..+.++++     ..+....+..++..+.+.+||++|+.
T Consensus         2 ~~~~~~KI~vvG~~~vGKSSli~~~-~~~~~~---------~~~~~t~~-----~~~~~~~~~~~~~~~~~~i~d~~g~~   66 (174)
T d1wmsa_           2 GKSSLFKVILLGDGGVGKSSLMNRY-VTNKFD---------TQLFHTIG-----VEFLNKDLEVDGHFVTMQIWDTAGQE   66 (174)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHH-HHSCCC---------C----CCS-----EEEEEEEEEETTEEEEEEEEECCCCG
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHH-HhCCCC---------Ccccccee-----eeeeeeeeeecCceeeEeeecccCcc
Confidence            4567899999999999999999997 334443         33334443     24556677789999999999999999


Q ss_pred             ccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCCcccCHHHHHHHHHhcC
Q psy3450         136 RFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ  210 (432)
Q Consensus       136 ~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~  210 (432)
                      ++...+..++..+|+++++||.+++.||+.+..|++++....     +++|++|||||+|+. ++++..+++++++++.+
T Consensus        67 ~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~-~~~v~~~~~~~~~~~~~  145 (174)
T d1wmsa_          67 RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNG  145 (174)
T ss_dssp             GGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTT
T ss_pred             eehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchh-hccCcHHHHHHHHHHcC
Confidence            999999999999999999999999999999999998886542     468999999999985 47899999999998865


Q ss_pred             -CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         211 -MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       211 -~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                       ++|+||||++|.||+++|++|++.++.
T Consensus       146 ~~~~~e~Sak~~~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_         146 DYPYFETSAKDATNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             CCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCeEEEEcCCCCcCHHHHHHHHHHHHhc
Confidence             799999999999999999999998864

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.96  E-value=6.8e-30  Score=226.73  Aligned_cols=163  Identities=42%  Similarity=0.717  Sum_probs=139.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..++|         ...+.++++     .++....+.+++..+.+.+|||+|++.|..
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l-~~~~~---------~~~~~~t~~-----~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~   66 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRF-VEDKF---------NPSFITTIG-----IDFKIKTVDINGKKVKLQIWDTAGQERFRT   66 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH-HHCCC---------CC------------CCEEEEEEESSSCEEEEEEECCTTGGGTSC
T ss_pred             EEEEEEECCCCcCHHHHHHHH-HhCCC---------CCccCCccc-----eeEEEEEEEECCEEEEEEEEECCCchhhHH
Confidence            689999999999999999997 33443         333444444     477778888999999999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSP  218 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSA  218 (432)
                      +++.+++++|++|+|||.++++||+++..|+..+.... ...|+++++||.|+. ++.+..+++.+++++++++|++|||
T Consensus        67 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~-~~~~~~~~~~~~~~~~~~~~~~~Sa  145 (166)
T d1g16a_          67 ITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSA  145 (166)
T ss_dssp             CCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBT
T ss_pred             HHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhh-hhhhhHHHHHHHHHhcCCeEEEECC
Confidence            99999999999999999999999999998888877666 568899999999985 4667889999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhhh
Q psy3450         219 LCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       219 ktg~nI~elf~~L~~~i~~~  238 (432)
                      ++|.||+++|++|++.+.++
T Consensus       146 ~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_         146 KNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             TTTBSHHHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHhc
Confidence            99999999999999998664

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.96  E-value=6.2e-30  Score=226.36  Aligned_cols=158  Identities=33%  Similarity=0.643  Sum_probs=134.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.|+         ..+.++.+     ..+..+...+.+....+.+||++|.+.+..
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   66 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRF-CAGRFP---------DRTEATIG-----VDFRERAVDIDGERIKIQLWDTAGQERFRK   66 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HHSSCC---------SSCCCCCS-----CCEEEEEEEETTEEEEEEEEECCCSHHHHT
T ss_pred             EEEEEEECCCCcCHHHHHHHH-HhCCCC---------CccCcccc-----cccceeeeeeeccceEEEEEeccCchhhcc
Confidence            689999999999999999997 444443         22333333     355567778889999999999999887654


Q ss_pred             -hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEE
Q psy3450         140 -IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEV  216 (432)
Q Consensus       140 -l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~ev  216 (432)
                       .++.|++++|++|+|||++|++||+++..|+.++.+..  +++|++|||||+|+.++++++.+++++++++++++|+||
T Consensus        67 ~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~  146 (165)
T d1z06a1          67 SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFET  146 (165)
T ss_dssp             TTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEC
T ss_pred             ccceeeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEE
Confidence             56789999999999999999999999999999988764  579999999999998888999999999999999999999


Q ss_pred             cCCC---CCCHHHHHHHHH
Q psy3450         217 SPLC---DFNIRESFTELS  232 (432)
Q Consensus       217 SAkt---g~nI~elf~~L~  232 (432)
                      ||++   +.||+++|++|+
T Consensus       147 SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         147 SAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             CSSSGGGGSCHHHHHHHHC
T ss_pred             ecccCCcCcCHHHHHHHhC
Confidence            9997   459999999874

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=2.2e-29  Score=226.12  Aligned_cols=166  Identities=37%  Similarity=0.637  Sum_probs=143.7

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      -..+||+++|++|||||||+++| .+++|.         ..+.++.+     ..+..+.+.+++..+.+.+|||+|++++
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l-~~~~~~---------~~~~~~~~-----~~~~~~~~~~~~~~~~~~i~Dt~G~~~~   69 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRF-TDDTFD---------PELAATIG-----VDFKVKTISVDGNKAKLAIWDTAGQERF   69 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHH-HHSCCC---------TTCCCCCS-----EEEEEEEEEETTEEEEEEEEEECSSGGG
T ss_pred             cceeEEEEECCCCcCHHHHHHHH-HhCCCC---------Ccccccee-----ecceeEEEEEeccccEEEEEECCCchhh
Confidence            35689999999999999999997 444433         22223332     3556677888999999999999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~e  215 (432)
                      ..++..+++++|++|+|||++++.+|+.+..|+.++.+..  ...|+++++||.|.. ++++..+++.+++++++++|++
T Consensus        70 ~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~-~~~v~~~~~~~~~~~~~~~~~e  148 (177)
T d1x3sa1          70 RTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIE  148 (177)
T ss_dssp             CCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeeccccc-cccccHHHHHHHHHHCCCEEEE
Confidence            9999999999999999999999999999999999987755  468999999999974 5789999999999999999999


Q ss_pred             EcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         216 VSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i~~~~  239 (432)
                      +||++|.||+++|++|++.+++..
T Consensus       149 ~Sa~tg~gv~e~f~~l~~~l~~~p  172 (177)
T d1x3sa1         149 ASAKTCDGVQCAFEELVEKIIQTP  172 (177)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             EeCCCCCCHHHHHHHHHHHHccCc
Confidence            999999999999999999998764

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.96  E-value=5.9e-29  Score=223.87  Aligned_cols=160  Identities=17%  Similarity=0.344  Sum_probs=132.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.+||+++|++|||||||+++| .++.|..          ..++.+      +.+.+.+.++++.+.+.+|||+|++.+ 
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~-~~~~f~~----------~~~t~~------~~~~~~i~v~~~~~~l~i~Dt~g~~~~-   65 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRF-LTGSYQV----------LEKTES------EQYKKEMLVDGQTHLVLIREEAGAPDA-   65 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHH-HHSCCCC----------CCCSSC------EEEEEEEEETTEEEEEEEEECSSCCCH-
T ss_pred             CcEEEEEECCCCCCHHHHHHHH-HhCCCCC----------cCCccc------eeEEEEeecCceEEEEEEeeccccccc-
Confidence            3599999999999999999997 4444421          112222      555677889999999999999998764 


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC----CCCcEEEEEECccCC--CCcccCHHHHHHHHHh-cCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA----PGVPKVLVGNRLHLA--FNRTVTTREAEMYAIK-NQM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~----~~iPiILVgNK~DL~--~~r~v~~ee~~~~a~~-~~~  211 (432)
                          .|++.+|++|+|||+++++||+++..|++++....    +++|+++||||.|+.  .++.++.++++.++.+ +++
T Consensus        66 ----~~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~  141 (175)
T d2bmja1          66 ----KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRC  141 (175)
T ss_dssp             ----HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTE
T ss_pred             ----ccccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCC
Confidence                47889999999999999999999999999887653    568999999998874  3577888999999765 468


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +|+||||++|.||+++|..+++.+++.+.
T Consensus       142 ~~~e~SAk~~~~v~~~F~~l~~~i~~~~~  170 (175)
T d2bmja1         142 SYYETCATYGLNVDRVFQEVAQKVVTLRK  170 (175)
T ss_dssp             EEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             eEEEeCCCCCcCHHHHHHHHHHHHHHhhh
Confidence            99999999999999999999999977654

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.96  E-value=9.7e-29  Score=223.03  Aligned_cols=165  Identities=32%  Similarity=0.634  Sum_probs=139.4

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+|+|++|||||||+++| .++.|         ...+.+++|     .++..+.+...+..+.+.+||++|++.+..
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l-~~~~f---------~~~~~~t~~-----~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~   66 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQY-VNKKF---------SNQYKATIG-----ADFLTKEVMVDDRLVTMQIWDTAGQERFQS   66 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHH-HHSCC---------CSSCCCCCS-----EEEEEEEEESSSCEEEEEEEEECSSGGGSC
T ss_pred             EEEEEEECCCCcCHHHHHHHH-HhCCC---------CCCcCCccc-----eeeeeeeeeeCCceEEEEeeecCCcccccc
Confidence            589999999999999999997 33333         333444554     356667777888899999999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-----CCCcEEEEEECccCCCCcccCHHHHHHHHH-hcCCcE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-----PGVPKVLVGNRLHLAFNRTVTTREAEMYAI-KNQMAF  213 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-----~~iPiILVgNK~DL~~~r~v~~ee~~~~a~-~~~~~~  213 (432)
                      .+..++..+|++++|||.+++.+|+.+..|++++....     .++|++|||||+|+.+ +.+..++...++. ..+++|
T Consensus        67 ~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~  145 (184)
T d1vg8a_          67 LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPY  145 (184)
T ss_dssp             SCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCE
T ss_pred             cccccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHHhcCCeE
Confidence            99999999999999999999999999999999887643     3689999999999865 5677777777775 457899


Q ss_pred             EEEcCCCCCCHHHHHHHHHHHHhhhcC
Q psy3450         214 FEVSPLCDFNIRESFTELSRRALQRNG  240 (432)
Q Consensus       214 ~evSAktg~nI~elf~~L~~~i~~~~~  240 (432)
                      +||||++|.||+++|++|++.++++..
T Consensus       146 ~e~Sak~~~gI~e~f~~l~~~i~~~~~  172 (184)
T d1vg8a_         146 FETSAKEAINVEQAFQTIARNALKQET  172 (184)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             EEEcCCCCcCHHHHHHHHHHHHHhccc
Confidence            999999999999999999999887654

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.94  E-value=7e-27  Score=206.85  Aligned_cols=155  Identities=20%  Similarity=0.345  Sum_probs=121.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| ..+.+         ...+.+++       .+....+..++  +.+.+||++|++.+..
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l-~~~~~---------~~~~~~T~-------~~~~~~~~~~~--~~~~i~D~~G~~~~~~   62 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVI-ASGQF---------NEDMIPTV-------GFNMRKITKGN--VTIKLWDIGGQPRFRS   62 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHSCC---------CCSCCCCC-------SEEEEEEEETT--EEEEEEEECCSHHHHT
T ss_pred             eEEEEEECCCCCCHHHHHHHH-HcCCC---------CCcccccc-------eeeeeeeeeee--EEEEEeeccccccccc
Confidence            589999999999999999998 33333         22333444       34444444554  7789999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHH-----HHHHhcCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAE-----MYAIKNQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~-----~~a~~~~~~  212 (432)
                      .+..++.+++++++|||+++.++|+++..|+..+.+..  +++|++|||||.|+.+..  ...+..     ..++..+++
T Consensus        63 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~  140 (164)
T d1zd9a1          63 MWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREIC  140 (164)
T ss_dssp             THHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEE
T ss_pred             cccccccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhh--hHHHHHHHHHHHHHHhCCCE
Confidence            99999999999999999999999999988888776543  689999999999986432  222222     222334568


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ++|+||++|.||+++|++|++.+
T Consensus       141 ~~e~Sa~~g~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         141 CYSISCKEKDNIDITLQWLIQHS  163 (164)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHTC
T ss_pred             EEEEeCcCCcCHHHHHHHHHHcc
Confidence            99999999999999999998754

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.93  E-value=6.3e-26  Score=200.28  Aligned_cols=156  Identities=17%  Similarity=0.266  Sum_probs=119.8

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.+.          ...++.       .+....+..++  +.+.+||++|++.++.
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l-~~~~~~----------~~~~t~-------~~~~~~~~~~~--~~~~~~D~~G~~~~~~   61 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKF-NGEDVD----------TISPTL-------GFNIKTLEHRG--FKLNIWDVGGQKSLRS   61 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH-TTCCCS----------SCCCCS-------SEEEEEEEETT--EEEEEEEECCSHHHHT
T ss_pred             cEEEEEECCCCCCHHHHHHHH-cCCCCC----------cccceE-------eeeeeeccccc--cceeeeecCcchhhhh
Confidence            479999999999999999997 333221          123333       34444454544  7789999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHH-----HhcCCc
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKNQMA  212 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~~~~  212 (432)
                      .+..+++.++++++|||+++..++.+...|+.......  .++|++||+||+|+.+...+  ++.....     +..+++
T Consensus        62 ~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~  139 (165)
T d1ksha_          62 YWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC--NAIQEALELDSIRSHHWR  139 (165)
T ss_dssp             TGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEE
T ss_pred             HHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCH--HHHHHHHHhhhhhcCCCE
Confidence            99999999999999999999999999877666554322  67999999999999654433  3332221     123468


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++|||++|.||+++|++|++++..
T Consensus       140 ~~~~Sa~~g~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         140 IQGCSAVTGEDLLPGIDWLLDDISS  164 (165)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHc
Confidence            9999999999999999999998864

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.93  E-value=1.2e-26  Score=208.68  Aligned_cols=160  Identities=18%  Similarity=0.223  Sum_probs=118.8

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ....+||+++|++|||||||+++| ..+.+.          ...++.|       .....+..+  .+.+.+||++|++.
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l-~~~~~~----------~~~~t~~-------~~~~~~~~~--~~~~~i~D~~g~~~   73 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRL-QIGEVV----------TTKPTIG-------FNVETLSYK--NLKLNVWDLGGQTS   73 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHT-CCSEEE----------EECSSTT-------CCEEEEEET--TEEEEEEEEC----
T ss_pred             CCceEEEEEECCCCCCHHHHHHHH-hcCCCC----------ccccccc-------eEEEEEeeC--CEEEEEEecccccc
Confidence            345799999999999999999997 333332          1223332       223333344  47789999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHH-----HHHhc
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEM-----YAIKN  209 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~-----~a~~~  209 (432)
                      +..++..+++++|++++|||++++.++.++..|+..+....  .+.|++||+||+|+.+.  +..+++.+     .+...
T Consensus        74 ~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~  151 (182)
T d1moza_          74 IRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDR  151 (182)
T ss_dssp             CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSS
T ss_pred             cchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccc--cCHHHHHHHHHHHHHhhC
Confidence            99999999999999999999999999999988887765433  57999999999999542  23333332     22334


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +++++||||++|.||+++|++|++.+.++
T Consensus       152 ~~~~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         152 SWSIVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             CEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            56899999999999999999999998664

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.93  E-value=2.6e-26  Score=204.70  Aligned_cols=156  Identities=20%  Similarity=0.325  Sum_probs=120.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      .+..+||+++|++|||||||+++| .++.+..          ..++.       .+....+..++  +.+.+||++|++.
T Consensus        13 ~~~~~kI~vvG~~~vGKSsLi~~l-~~~~~~~----------~~~~~-------~~~~~~i~~~~--~~~~i~d~~g~~~   72 (176)
T d1fzqa_          13 PDQEVRILLLGLDNAGKTTLLKQL-ASEDISH----------ITPTQ-------GFNIKSVQSQG--FKLNVWDIGGQRK   72 (176)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHH-CCSCCEE----------EEEET-------TEEEEEEEETT--EEEEEEECSSCGG
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHH-hcCCCCc----------ceeee-------eeeEEEeccCC--eeEeEeecccccc
Confidence            345689999999999999999997 3333321          12233       33444454544  7889999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHH-----HHHhc
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEM-----YAIKN  209 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~-----~a~~~  209 (432)
                      +...+..+++.+|++|+|||+++..+|+++..|+.++....  .++|++||+||+|+.+...  .++..+     .++..
T Consensus        73 ~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~  150 (176)
T d1fzqa_          73 IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDR  150 (176)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSS
T ss_pred             chhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccccccc--HHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999988887765543  5799999999999965332  222222     22234


Q ss_pred             CCcEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         210 QMAFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       210 ~~~~~evSAktg~nI~elf~~L~~~  234 (432)
                      .+++++|||++|.||+|+|++|++.
T Consensus       151 ~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         151 VWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            5689999999999999999999875

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.93  E-value=2.5e-26  Score=204.96  Aligned_cols=155  Identities=19%  Similarity=0.263  Sum_probs=118.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|++|||||||+++| ..+.++         . ..++.       .+......  ...+.+.+||++|++.+.
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl-~~~~~~---------~-~~~t~-------~~~~~~~~--~~~~~~~i~D~~g~~~~~   70 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKL-KLGQSV---------T-TIPTV-------GFNVETVT--YKNVKFNVWDVGGQDKIR   70 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHT-TCCCCE---------E-EEEET-------TEEEEEEE--ETTEEEEEEEESCCGGGH
T ss_pred             CeEEEEEECCCCCCHHHHHHHH-hcCCCC---------C-cccee-------eeeEEEee--ccceeeEEecCCCcchhh
Confidence            4589999999999999999997 333222         1 12222       22223333  334788999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHH-----HHHHhcCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAE-----MYAIKNQM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~-----~~a~~~~~  211 (432)
                      ..+..++++++++|+|||+++.+++.++..|+..+.+..  .+.|++||+||+|+.+..  ...++.     ..++..++
T Consensus        71 ~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~  148 (173)
T d1e0sa_          71 PLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAM--KPHEIQEKLGLTRIRDRNW  148 (173)
T ss_dssp             HHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCE
T ss_pred             hHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccc--cHHHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999999988887765532  579999999999996432  222222     22233456


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+++|||++|+||+|+|++|.+.+
T Consensus       149 ~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         149 YVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             EEEEeeCCCCcCHHHHHHHHHHhc
Confidence            899999999999999999998764

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.91  E-value=2.3e-25  Score=193.90  Aligned_cols=155  Identities=17%  Similarity=0.207  Sum_probs=118.2

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+++| .++.+....         . ..       .  ......+...+.+.+||++|.+.+...
T Consensus         1 ikivlvG~~~vGKSsLi~~l-~~~~~~~~~---------~-~~-------~--~~~~~~~~~~~~~~~~d~~g~~~~~~~   60 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKL-KLGEIVTTI---------P-TI-------G--FNVETVEYKNISFTVWDVGGQDKIRPL   60 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHH-HHHCSSCCC---------C-CS-------S--CCEEEEECSSCEEEEEECCCCGGGHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH-hcCCCCccc---------c-ce-------e--eEEEEEeeeeEEEEEecCCCcccchhh
Confidence            59999999999999999997 333332110         0 00       1  112234556788999999999999999


Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCc---ccCHHHHHHHHHhcCCcEEE
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNR---TVTTREAEMYAIKNQMAFFE  215 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r---~v~~ee~~~~a~~~~~~~~e  215 (432)
                      +..+++.+++++++||++++.++..+..|+.++....  ..+|+++|+||.|+.+..   ++..+....+++..++++++
T Consensus        61 ~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~  140 (160)
T d1r8sa_          61 WRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQA  140 (160)
T ss_dssp             HHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEE
T ss_pred             hhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEE
Confidence            9999999999999999999999999988888776543  568999999999986432   12222222344455778999


Q ss_pred             EcCCCCCCHHHHHHHHHHHH
Q psy3450         216 VSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       216 vSAktg~nI~elf~~L~~~i  235 (432)
                      |||++|.||+++|++|++++
T Consensus       141 ~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         141 TCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             CBTTTTBTHHHHHHHHHHHC
T ss_pred             eECCCCCCHHHHHHHHHhcC
Confidence            99999999999999998763

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.87  E-value=1.6e-22  Score=181.46  Aligned_cols=155  Identities=15%  Similarity=0.160  Sum_probs=111.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||++||+.|||||||++|| ....+              ++.|       +....  ++...+.+++|||+|++.+..
T Consensus         2 e~KivllG~~~vGKTsl~~r~-~~~~~--------------~t~~-------~~~~~--~~~~~~~~~i~D~~Gq~~~~~   57 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQM-KIIHE--------------AGTG-------IVETH--FTFKDLHFKMFDVGGQRSERK   57 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHH-HHHHS--------------CCCS-------EEEEE--EEETTEEEEEEEECCSGGGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHH-hhCCC--------------CCcc-------EEEEE--EEeeeeeeeeecccccccccc
Confidence            589999999999999999997 22222              2222       22333  344457889999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhh-----------HHHHHHHHHhhC-CCCcEEEEEECccCCCC-------------
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDG-----------IDRWLKEVEEHA-PGVPKVLVGNRLHLAFN-------------  194 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~-----------l~~~l~~i~~~~-~~iPiILVgNK~DL~~~-------------  194 (432)
                      ++..|+++++++++|||+++.++|..           ...|...+.... .+.|+++++||+|+..+             
T Consensus        58 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~  137 (195)
T d1svsa1          58 KWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPE  137 (195)
T ss_dssp             GGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTT
T ss_pred             chhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhh
Confidence            99999999999999999999888743           233444443332 57899999999997221             


Q ss_pred             --cccCHHHHHH-----HHHh------cCCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         195 --RTVTTREAEM-----YAIK------NQMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       195 --r~v~~ee~~~-----~a~~------~~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                        .....+++..     +.+.      ..+.+++|||++|.||+++|+.+.+.++++
T Consensus       138 ~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         138 YAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             CCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             hcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence              1112222221     1111      124578999999999999999999888765

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.86  E-value=6.8e-22  Score=175.30  Aligned_cols=155  Identities=15%  Similarity=0.204  Sum_probs=112.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+|+|++|||||||++++ .++.+...          .++.       ......+...+  +++.+||+++.+...
T Consensus        14 k~~kI~vvG~~~~GKSsLi~rl-~~~~~~~~----------~~~~-------~~~~~~~~~~~--~~~~~~d~~~~~~~~   73 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTILYQF-SMNEVVHT----------SPTI-------GSNVEEIVINN--TRFLMWDIGGQESLR   73 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHH-HTTSCEEE----------ECCS-------CSSCEEEEETT--EEEEEEECCC----C
T ss_pred             CeEEEEEECCCCCCHHHHHHHH-hcCCCCcc----------cccc-------ceeEEEEeecc--eEEEEeccccccccc
Confidence            3489999999999999999997 44443221          1222       12223333343  678999999999999


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHH-----HhcCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYA-----IKNQM  211 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a-----~~~~~  211 (432)
                      ..+..++..++++++|+|.++..+++....+........  .+.|++||+||+|+....  ..++.....     ...++
T Consensus        74 ~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~  151 (177)
T d1zj6a1          74 SSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM--TVAEISQFLKLTSIKDHQW  151 (177)
T ss_dssp             GGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCCSSCE
T ss_pred             cchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccC--cHHHHHHHHHHHhhHhcCC
Confidence            999999999999999999999999998866665554333  579999999999986433  223332222     23456


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +|+++||++|.||+|+|++|++++
T Consensus       152 ~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         152 HIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHh
Confidence            899999999999999999999886

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.86  E-value=1.1e-21  Score=171.28  Aligned_cols=159  Identities=17%  Similarity=0.201  Sum_probs=118.2

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||+++| .++.+..          ..++.       .........+  .+.+.+||.++.+.+..
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~-~~~~~~~----------~~~~~-------~~~~~~~~~~--~~~~~~~~~~~~~~~~~   64 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRL-QVGEVVT----------TIPTI-------GFNVETVTYK--NLKFQVWDLGGLTSIRP   64 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH-HHSSCCC----------CCCCS-------SEEEEEEEET--TEEEEEEEECCCGGGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHH-hCCCCcc----------eeccc-------ceeeeeeccC--ceEEEEeeccccccccc
Confidence            489999999999999999997 4333321          11222       2222333334  46789999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcc---cCHHHHHHHHHhcCCcEE
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRT---VTTREAEMYAIKNQMAFF  214 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~---v~~ee~~~~a~~~~~~~~  214 (432)
                      ....++...+++++++|+++..++.....+........  .+.|+++|+||.|+.....   +..+.+..++...+++|+
T Consensus        65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~  144 (169)
T d1upta_          65 YWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIF  144 (169)
T ss_dssp             GGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEE
T ss_pred             cchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEE
Confidence            99999999999999999999999998866655544332  6789999999999965332   212222233444567999


Q ss_pred             EEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         215 EVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       215 evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      +|||++|.||+++|++|++.+.++
T Consensus       145 ~~SA~~g~gv~e~~~~l~~~l~~k  168 (169)
T d1upta_         145 KTSATKGTGLDEAMEWLVETLKSR  168 (169)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHhC
Confidence            999999999999999999988553

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.86  E-value=5.2e-21  Score=170.82  Aligned_cols=156  Identities=16%  Similarity=0.122  Sum_probs=107.7

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .-+|+|+|.+|||||||+|+|+..+ ....          ....   .++.+.........+  .++.+|||+|......
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~-~~~~----------~~~~---~tt~~~~~~~~~~~~--~~~~~~DtpG~~~~~~   68 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVK-VAPI----------SPRP---QTTRKRLRGILTEGR--RQIVFVDTPGLHKPMD   68 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC-CSCC----------CSSS---CCCCSCEEEEEEETT--EEEEEEECCCCCCCCS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC-ceee----------cccC---Ccccccccceeeeee--eeeeeccccccccccc
Confidence            3479999999999999999983332 2110          0011   112234444444555  4679999999865433


Q ss_pred             hh--------hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcC-
Q psy3450         140 II--------RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQ-  210 (432)
Q Consensus       140 l~--------~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~-  210 (432)
                      ..        ..+++++|++|+|+|++++....+ ..|.+.++....+.|+++|+||+|+....   .+..+.+.+..+ 
T Consensus        69 ~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~  144 (178)
T d1wf3a1          69 ALGEFMDQEVYEALADVNAVVWVVDLRHPPTPED-ELVARALKPLVGKVPILLVGNKLDAAKYP---EEAMKAYHELLPE  144 (178)
T ss_dssp             HHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHH-HHHHHHHGGGTTTSCEEEEEECGGGCSSH---HHHHHHHHHTSTT
T ss_pred             ccchhcccccccccccccceeeeechhhhhcccc-cchhhheeccccchhhhhhhcccccccCH---HHHHHHHHhhccc
Confidence            22        345689999999999988755432 45566666666789999999999996432   233445555555 


Q ss_pred             CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         211 MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       211 ~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ..++++||++|.||+++++.|++.+
T Consensus       145 ~~~~~iSA~~~~gi~~L~~~i~~~l  169 (178)
T d1wf3a1         145 AEPRMLSALDERQVAELKADLLALM  169 (178)
T ss_dssp             SEEEECCTTCHHHHHHHHHHHHTTC
T ss_pred             CceEEEecCCCCCHHHHHHHHHHhC
Confidence            4889999999999999999998766

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=1.8e-22  Score=181.93  Aligned_cols=159  Identities=16%  Similarity=0.140  Sum_probs=117.1

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|+.|||||||+++| ..+.         +.  +.|++|     +++  ..  +....+.+++||++|++.+..
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~-~~~~---------~~--~~pTiG-----~~~--~~--~~~~~~~~~~~d~~g~~~~~~   60 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQM-RIIH---------GS--GVPTTG-----IIE--YP--FDLQSVIFRMVDVGGQRSERR   60 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHH-HHHT---------SS--CCCCCS-----CEE--EE--EECSSCEEEEEECCCSTTGGG
T ss_pred             eeEEEEECCCCCCHHHHHHHH-hCCC---------CC--CCceee-----EEE--EE--Eeccceeeeeccccccccccc
Confidence            589999999999999999997 2222         22  335665     222  22  334557789999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCC-----------hhhHHHHHHHHHhhC-CCCcEEEEEECccCCCCc------------
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWS-----------FDGIDRWLKEVEEHA-PGVPKVLVGNRLHLAFNR------------  195 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~S-----------f~~l~~~l~~i~~~~-~~iPiILVgNK~DL~~~r------------  195 (432)
                      .+..++++++++++|||.++..+           ++.+..|...+.... .+.|+++|+||.|+...+            
T Consensus        61 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~  140 (200)
T d2bcjq2          61 KWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPE  140 (200)
T ss_dssp             GGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTT
T ss_pred             cccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhccc
Confidence            99999999999999999987643           344567777776554 689999999999983211            


Q ss_pred             ----ccCHHHHHHHHHh----------cCCcEEEEcCCCCCCHHHHHHHHHHHHhhhc
Q psy3450         196 ----TVTTREAEMYAIK----------NQMAFFEVSPLCDFNIRESFTELSRRALQRN  239 (432)
Q Consensus       196 ----~v~~ee~~~~a~~----------~~~~~~evSAktg~nI~elf~~L~~~i~~~~  239 (432)
                          +...+.+..+...          ..+.++++||++|.||+++|+.+.+.|++++
T Consensus       141 ~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~n  198 (200)
T d2bcjq2         141 YDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  198 (200)
T ss_dssp             CCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHHh
Confidence                1222333333221          1245789999999999999999999887653

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.84  E-value=1.2e-20  Score=163.29  Aligned_cols=150  Identities=22%  Similarity=0.276  Sum_probs=112.6

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchhh
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTII  141 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l~  141 (432)
                      ||+++|++|||||||+|+| .++.+..          ..++.+       .....  .....+...+||+.|...+...+
T Consensus         2 KI~liG~~nvGKSSLln~l-~~~~~~~----------~~~t~~-------~~~~~--~~~~~~~~~~~~~~~~~~~~~~~   61 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHML-KNDRLAT----------LQPTWH-------PTSEE--LAIGNIKFTTFDLGGHIQARRLW   61 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHH-HHSCCCC----------CCCCCS-------CEEEE--ECCTTCCEEEEECCCSGGGGGGG
T ss_pred             EEEEECCCCCCHHHHHHHH-hCCCCCe----------eeceee-------EeEEE--eccCCeeEEEEeeccchhhhhhH
Confidence            8999999999999999997 4433321          223332       22222  33334667999999999999999


Q ss_pred             hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC--CCCcEEEEEECccCCCCcccCHHHHHHHHH------------
Q psy3450         142 RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA--PGVPKVLVGNRLHLAFNRTVTTREAEMYAI------------  207 (432)
Q Consensus       142 ~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~--~~iPiILVgNK~DL~~~r~v~~ee~~~~a~------------  207 (432)
                      ..+++.++++++++|.++..++.....|........  .+.|+++++||.|+..  .+...+..+...            
T Consensus        62 ~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~--~~~~~~i~~~~~~~~~~~~~~~~~  139 (166)
T d2qtvb1          62 KDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEG  139 (166)
T ss_dssp             GGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSS--CCCHHHHHHHHTCSSCCC---CCS
T ss_pred             hhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccc--cCCHHHHHHHhhhhhhhHHHhhcc
Confidence            999999999999999999999998877777665544  5789999999999854  233333322221            


Q ss_pred             hcCCcEEEEcCCCCCCHHHHHHHHHH
Q psy3450         208 KNQMAFFEVSPLCDFNIRESFTELSR  233 (432)
Q Consensus       208 ~~~~~~~evSAktg~nI~elf~~L~~  233 (432)
                      ..++.+++|||++|+||+|+|++|.+
T Consensus       140 ~~~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         140 QRPVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             SCCEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             cCCCEEEEeeCCCCCCHHHHHHHHhC
Confidence            22357999999999999999999864

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.83  E-value=1.3e-20  Score=164.68  Aligned_cols=151  Identities=18%  Similarity=0.189  Sum_probs=109.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      +||+++|++|||||||+|+|...+.....         ..+  |   ++.+.....+...+  ..+.+||++|..+....
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~---------~~~--~---~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~   65 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVT---------DIA--G---TTRDVLREHIHIDG--MPLHIIDTAGLREASDE   65 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCC---------SST--T---CCCSCEEEEEEETT--EEEEEEECCCCSCCSSH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEee---------ccc--c---cccceEeeeeeccC--ceeeecccccccccccc
Confidence            79999999999999999998433221110         001  1   11233334455555  45789999997543221


Q ss_pred             --------hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         141 --------IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       141 --------~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                              ...++.++|++++++|..+..+++....|...+.....+.|+++|+||+|+.++....       .+..+.+
T Consensus        66 ~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~iilv~NK~Dl~~~~~~~-------~~~~~~~  138 (161)
T d2gj8a1          66 VERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADITGETLGM-------SEVNGHA  138 (161)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCEEEEEECHHHHCCCCEE-------EEETTEE
T ss_pred             chhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhhhhcccccceeeccchhhhhhhHHHH-------HHhCCCc
Confidence                    2345789999999999999998888888877777766789999999999986533211       1123568


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHH
Q psy3450         213 FFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~  234 (432)
                      ++++||++|.||++++++|++.
T Consensus       139 ~~~iSAk~~~gi~~L~~~l~~~  160 (161)
T d2gj8a1         139 LIRLSARTGEGVDVLRNHLKQS  160 (161)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            9999999999999999999875

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.82  E-value=1.7e-20  Score=169.37  Aligned_cols=157  Identities=17%  Similarity=0.192  Sum_probs=106.0

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccch
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCT  139 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~  139 (432)
                      .+||+++|++|||||||++||    .+.         ..+.||+|       +....+..+  .+.+++||++|++.+..
T Consensus         2 ~iKivllG~~~vGKTsll~r~----~f~---------~~~~pTiG-------~~~~~~~~~--~~~~~~~D~~gq~~~~~   59 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQM----RII---------HGQDPTKG-------IHEYDFEIK--NVPFKMVDVGGQRSERK   59 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH----HHH---------HSCCCCSS-------EEEEEEEET--TEEEEEEEECC------
T ss_pred             eEEEEEECCCCCCHHHHHHHH----hcC---------CCCCCeee-------eEEEEEeee--eeeeeeecccceeeecc
Confidence            589999999999999999997    121         22345565       333444444  46789999999999999


Q ss_pred             hhhhcccCceEEEEEEeCCCCCCh----------hhHHHHHHHHHhh--CCCCcEEEEEECccCCCC-------------
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSF----------DGIDRWLKEVEEH--APGVPKVLVGNRLHLAFN-------------  194 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf----------~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~-------------  194 (432)
                      .+..+++++++++++||.++..++          ++...|+..+...  ..++|++|||||+|+.++             
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~  139 (200)
T d1zcba2          60 RWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLE  139 (200)
T ss_dssp             -CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTT
T ss_pred             cccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCcc
Confidence            999999999999999999987654          3333444444332  267999999999998321             


Q ss_pred             ---cccCHHHHHHHHHhc-----------CCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         195 ---RTVTTREAEMYAIKN-----------QMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       195 ---r~v~~ee~~~~a~~~-----------~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                         ..-..+.+.++..+.           .+.++++||+++.||+++|+.+.+.|+++
T Consensus       140 ~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         140 FEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             CCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence               011223344333221           24467899999999999999998888664

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.80  E-value=2.6e-19  Score=158.35  Aligned_cols=155  Identities=15%  Similarity=0.232  Sum_probs=109.2

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ...||+++|++|||||||+++| .++.+..          ..++.       ......+..++  ..+.+||+.++..+.
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l-~~~~~~~----------~~~~~-------~~~~~~~~~~~--~~~~~~~~~~~~~~~   71 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHML-KDDRLGQ----------HVPTL-------HPTSEELTIAG--MTFTTFDLGGHIQAR   71 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHH-SCC----------------CCC-------CCSCEEEEETT--EEEEEEEECC----C
T ss_pred             CCCEEEEECCCCCCHHHHHHHH-hCCCCcc----------eeccc-------ccceeEEEecc--cccccccccchhhhh
Confidence            4579999999999999999997 3333321          11222       22233445555  457899999999998


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh--CCCCcEEEEEECccCCCCcccCHHHHHHHHHh--------
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH--APGVPKVLVGNRLHLAFNRTVTTREAEMYAIK--------  208 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~--~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~--------  208 (432)
                      ..+..+++..+++++++|+++...+.+...++......  ..+.|++|++||.|+..  .+..++..+....        
T Consensus        72 ~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~--~~~~~~i~~~~~~~~~~~~~~  149 (186)
T d1f6ba_          72 RVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKG  149 (186)
T ss_dssp             CGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSS
T ss_pred             hHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccc--cCCHHHHHHHHhhcccchhhh
Confidence            98999999999999999999999988876555444432  26899999999999853  3344444333321        


Q ss_pred             ---------cCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         209 ---------NQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       209 ---------~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                               .++++++|||++|+||+|+|++|++++
T Consensus       150 ~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         150 SVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             CCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             hhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence                     124699999999999999999998754

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.80  E-value=1.8e-19  Score=160.77  Aligned_cols=157  Identities=15%  Similarity=0.095  Sum_probs=100.7

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc----
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF----  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~----  137 (432)
                      .|+++|.+|||||||+|+|. +.......         ..+.     +...... .........+++|||||....    
T Consensus         3 ~VaivG~~nvGKSTLin~L~-~~~~~~~~---------~~~~-----t~~~~~~-~~~~~~~~~~~~~DtpG~~~~~~~~   66 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMT-RAHPKIAP---------YPFT-----TLSPNLG-VVEVSEEERFTLADIPGIIEGASEG   66 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHC-SSCCEECC---------CTTC-----SSCCEEE-EEECSSSCEEEEEECCCCCCCGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHh-CCCCceec---------cCCC-----ceeeeec-eeeecCCCeEEEcCCCeeecCchHH
Confidence            48999999999999999972 22211100         0010     1122111 222333346799999995421    


Q ss_pred             c---hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhh---CCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         138 C---TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEH---APGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       138 ~---~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~---~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                      .   ......+..++++++++|..... +..+..|...+...   ..+.|+++|+||+|+.+++.  .++..+.....+.
T Consensus        67 ~~~~~~~l~~~~~~~~~~~~~d~~~~~-~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~  143 (180)
T d1udxa2          67 KGLGLEFLRHIARTRVLLYVLDAADEP-LKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEA--VKALADALAREGL  143 (180)
T ss_dssp             CCSCHHHHHHHTSSSEEEEEEETTSCH-HHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTS
T ss_pred             HHHHHHHHHHHHhhhhhhhhccccccc-ccchhhhhhhhhccccccchhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCC
Confidence            1   11223467899999999986542 34444444333322   23579999999999965432  2344555566788


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      +++++||++|.||+++++.|.+.+..
T Consensus       144 ~~~~iSA~tg~gid~L~~~i~~~l~~  169 (180)
T d1udxa2         144 AVLPVSALTGAGLPALKEALHALVRS  169 (180)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            99999999999999999999888743

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.76  E-value=5.4e-18  Score=147.58  Aligned_cols=150  Identities=17%  Similarity=0.189  Sum_probs=97.5

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc--
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC--  138 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~--  138 (432)
                      +||+++|.+|||||||+|+|.........           ...+   .+.......+..++  ..+.+|||+|.....  
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~-----------~~~~---~~~~~~~~~~~~~~--~~~~~~Dt~G~~~~~~~   64 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVT-----------DIPG---TTRDVISEEIVIRG--ILFRIVDTAGVRSETND   64 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCC-----------CSSC---CSSCSCCEEEEETT--EEEEEEESSCCCSSCCT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeee-----------cccc---ccccceeEEEEeCC--eeEEeccccccccCCcc
Confidence            69999999999999999998433222110           0111   01122233444555  567899999953210  


Q ss_pred             -------hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCC
Q psy3450         139 -------TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQM  211 (432)
Q Consensus       139 -------~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~  211 (432)
                             ......++.+|++++|+|.+++...+...-+.     .....++++++||.|+.++.  ..++.... ...+.
T Consensus        65 ~~~~~~~~~~~~~~~~ad~ii~v~d~~~~~~~~~~~~~~-----~~~~~~~i~~~~k~d~~~~~--~~~~~~~~-~~~~~  136 (160)
T d1xzpa2          65 LVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILE-----RIKNKRYLVVINKVDVVEKI--NEEEIKNK-LGTDR  136 (160)
T ss_dssp             TCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHH-----HHTTSSEEEEEEECSSCCCC--CHHHHHHH-HTCST
T ss_pred             HHHHHHHHHHHHHHHhCCEEEEEEeCCCCcchhhhhhhh-----hcccccceeeeeeccccchh--hhHHHHHH-hCCCC
Confidence                   11122357899999999999987765443222     12347899999999996532  23333221 23456


Q ss_pred             cEEEEcCCCCCCHHHHHHHHHHH
Q psy3450         212 AFFEVSPLCDFNIRESFTELSRR  234 (432)
Q Consensus       212 ~~~evSAktg~nI~elf~~L~~~  234 (432)
                      +++++||++|.||++++++|.++
T Consensus       137 ~~~~vSA~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         137 HMVKISALKGEGLEKLEESIYRE  159 (160)
T ss_dssp             TEEEEEGGGTCCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHhc
Confidence            89999999999999999998764

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.75  E-value=7.9e-19  Score=162.68  Aligned_cols=159  Identities=16%  Similarity=0.170  Sum_probs=110.6

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR  136 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~  136 (432)
                      ++..+||+++|+.|||||||+++|..+              .+.|++|       +....+.+++  +.+++||++|++.
T Consensus         3 ~k~~~KilllG~~~vGKTsll~~~~~~--------------~~~pTiG-------~~~~~~~~~~--~~~~~~D~~Gq~~   59 (221)
T d1azta2           3 YRATHRLLLLGAGESGKSTIVKQMRIL--------------HVVLTSG-------IFETKFQVDK--VNFHMFDVGGQRD   59 (221)
T ss_dssp             HHHSEEEEEECSTTSSHHHHHHHHHHH--------------HCCCCCS-------CEEEEEEETT--EEEEEEECCCSTT
T ss_pred             chhcCEEEEECCCCCCHHHHHHHHhcC--------------CcCCCCC-------eEEEEEEECc--EEEEEEecCccce
Confidence            346789999999999999999998211              1234554       3445555665  7789999999999


Q ss_pred             cchhhhhcccCceEEEEEEeCCCCCC----------hhhHHHHHHHHHhh-C-CCCcEEEEEECccCCCCcc----c---
Q psy3450         137 FCTIIRSYSRGAQGILLVYDITNKWS----------FDGIDRWLKEVEEH-A-PGVPKVLVGNRLHLAFNRT----V---  197 (432)
Q Consensus       137 ~~~l~~~~~~~ad~iIlV~Dvt~~~S----------f~~l~~~l~~i~~~-~-~~iPiILVgNK~DL~~~r~----v---  197 (432)
                      ++..|..++++++++++|+|.++...          +.+...++..+... . .++|++|+|||+|+.+++.    .   
T Consensus        60 ~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~  139 (221)
T d1azta2          60 ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIE  139 (221)
T ss_dssp             TTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHH
T ss_pred             eccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHH
Confidence            99999999999999999999986432          22222223333222 2 6799999999999843211    0   


Q ss_pred             -----------------------CHHHHHHHHHh-----c--------CCcEEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         198 -----------------------TTREAEMYAIK-----N--------QMAFFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       198 -----------------------~~ee~~~~a~~-----~--------~~~~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                                             ..+++..+.+.     +        .+-..++||.++.||+.+|+.+.+.|+++
T Consensus       140 ~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         140 DYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             HHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             HhCccccccCCcccccccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence                                   12223332211     1        12346899999999999999988887664

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.74  E-value=2.8e-18  Score=151.64  Aligned_cols=156  Identities=17%  Similarity=0.140  Sum_probs=98.9

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc----
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF----  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~----  137 (432)
                      .|+++|++|||||||+|+|+ +......          ....+   .+.......+...+  ..+.+||++|....    
T Consensus         2 ~V~liG~~n~GKSsLi~~L~-~~~~~~~----------~~~~~---~t~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~   65 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLV-KKKKAIV----------EDEEG---VTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDI   65 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHH-C---------------------------CCSEEEEEETT--EEEEEEECTTTTSSGGGC
T ss_pred             EEEEECCCCCCHHHHHHHHh-CCCccee----------cccCc---eeeccccccccccc--cccccccccceeeeeccc
Confidence            68999999999999999983 2222110          00111   11122233333344  56799999995322    


Q ss_pred             -----chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCc
Q psy3450         138 -----CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMA  212 (432)
Q Consensus       138 -----~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~  212 (432)
                           ......++..+|+++++.|.++...... ..|+..++..  ++|+|+|+||+|+.++  ...+...++.+.....
T Consensus        66 ~~~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~-~~~~~~l~~~--~~pviiv~NK~Dl~~~--~~~~~~~~~~~~~~~~  140 (171)
T d1mkya1          66 ISQKMKEVTLNMIREADLVLFVVDGKRGITKED-ESLADFLRKS--TVDTILVANKAENLRE--FEREVKPELYSLGFGE  140 (171)
T ss_dssp             CCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHH-HHHHHHHHHH--TCCEEEEEESCCSHHH--HHHHTHHHHGGGSSCS
T ss_pred             cccccccccccccccCcEEEEeecccccccccc-cccccccccc--cccccccchhhhhhhh--hhhHHHHHHHhcCCCC
Confidence                 1122334678999999999877654433 5566666654  4799999999998532  1222222333333457


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhhh
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQR  238 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~~  238 (432)
                      ++++||++|.||++++++|.+.+.++
T Consensus       141 ~i~iSAk~g~gid~L~~~i~~~l~e~  166 (171)
T d1mkya1         141 PIPVSAEHNINLDTMLETIIKKLEEK  166 (171)
T ss_dssp             CEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             eEEEecCCCCCHHHHHHHHHHhCCCC
Confidence            89999999999999999999988554

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.74  E-value=2.9e-18  Score=153.39  Aligned_cols=166  Identities=12%  Similarity=0.072  Sum_probs=104.9

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..++|+++|.+|+|||||+|+|....... .  ..........++     +.+.....+..++  ..+.++|++|+.+|.
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~-~--~~~~~~~~~~g~-----~~~~~~~~~~~~~--~~~~~~d~~g~~~~~   73 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTS-A--HDKLPESQKRGI-----TIDIGFSAFKLEN--YRITLVDAPGHADLI   73 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC----------------------------CCCEEEETT--EEEEECCCSSHHHHH
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCce-e--cccccceeeeee-----eccccccccccCC--ccccccccccccccc
Confidence            35799999999999999999983211111 0  000000001111     1122222333444  557899999999888


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC--HHHHHHHHHhc----CCc
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT--TREAEMYAIKN----QMA  212 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~--~ee~~~~a~~~----~~~  212 (432)
                      ......+..+|++++|+|+++....+....| ..+..  .++|+++|.||+|+.......  .+..+.+.+..    +.+
T Consensus        74 ~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~-~~~~~--~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~  150 (179)
T d1wb1a4          74 RAVVSAADIIDLALIVVDAKEGPKTQTGEHM-LILDH--FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSS  150 (179)
T ss_dssp             HHHHHHTTSCCEEEEEEETTTCSCHHHHHHH-HHHHH--TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCC
T ss_pred             cchhhhhhhccccccccccccccchhhhhhh-hhhhh--cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCe
Confidence            8888888999999999999987554433222 33333  358999999999986532211  11222233322    358


Q ss_pred             EEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         213 FFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       213 ~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      ++++||++|.|++++++.|.+.+-+
T Consensus       151 iv~iSA~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         151 IIPISAKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             EEEEEccCCcCHHHHHHHHHhcCCc
Confidence            9999999999999999999987743

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.71  E-value=5.2e-17  Score=144.90  Aligned_cols=159  Identities=19%  Similarity=0.181  Sum_probs=102.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..+||+++|.+|||||||+|+|+...........              .++.......+..++.  .+.++|++|.....
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~--------------~t~~~~~~~~~~~~~~--~~~~~d~~g~~~~~   70 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIP--------------GTTRDPVDDEVFIDGR--KYVFVDTAGLRRKS   70 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC--------------------CCEEEEETTE--EEEESSCSCC----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcceeeccc--------------ccccccceeeeccCCc--eeeeeccCCccccc
Confidence            3589999999999999999998433221111000              0111222233455664  46888999864322


Q ss_pred             h------------hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHH
Q psy3450         139 T------------IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYA  206 (432)
Q Consensus       139 ~------------l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a  206 (432)
                      .            .....++.+|++++|+|+.....- ....|+..+...  +.|+|+|+||+|+....+...++..+..
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~~~~~-~~~~~~~~~~~~--~~~~i~v~nK~D~~~~~~~~~~~~~~~~  147 (186)
T d1mkya2          71 RVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITR-QDQRMAGLMERR--GRASVVVFNKWDLVVHREKRYDEFTKLF  147 (186)
T ss_dssp             -------CCSCCHHHHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHHT--TCEEEEEEECGGGSTTGGGCHHHHHHHH
T ss_pred             cccccccccchhHHHHHHHhcCCEEEEeecccccchh-hHHHHHHHHHHc--CCceeeeccchhhhcchhhhhhhHHHHH
Confidence            2            223345789999999999876443 234455555543  4799999999998765555555544443


Q ss_pred             Hhc-----CCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         207 IKN-----QMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       207 ~~~-----~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ++.     ..+++++||++|.||+++++.|.+.+.
T Consensus       148 ~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~  182 (186)
T d1mkya2         148 REKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYA  182 (186)
T ss_dssp             HHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHhcccCCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            331     358999999999999999999976653

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.70  E-value=3e-17  Score=145.92  Aligned_cols=150  Identities=19%  Similarity=0.193  Sum_probs=91.2

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc----
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF----  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~----  137 (432)
                      .|+++|.+|||||||+|+|+ +.+...           ....|.+   .+.  ..+...+    +.+|||||....    
T Consensus         2 ~I~lvG~~nvGKSsLin~l~-~~~~~~-----------~~~~g~T---~~~--~~~~~~~----~~ivDtpG~~~~~~~~   60 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLT-GKKVRR-----------GKRPGVT---RKI--IEIEWKN----HKIIDMPGFGFMMGLP   60 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH-SCCCSS-----------SSSTTCT---TSC--EEEEETT----EEEEECCCBSCCTTSC
T ss_pred             EEEEECCCCCCHHHHHHHHh-CCCcee-----------eCCCCEe---ecc--ccccccc----ceecccCCceeccccc
Confidence            58999999999999999983 322211           1111211   121  1122333    578999995211    


Q ss_pred             -----------chhhhhcccCceEEEEEEeCCCCCChh---------hH-HHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         138 -----------CTIIRSYSRGAQGILLVYDITNKWSFD---------GI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       138 -----------~~l~~~~~~~ad~iIlV~Dvt~~~Sf~---------~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                                 .......++.+|++++|+|.+......         .. .++++.+..  .++|+++|+||+|+....+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~--~~~p~iiv~NK~D~~~~~~  138 (184)
T d2cxxa1          61 KEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE--LDIPTIVAVNKLDKIKNVQ  138 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH--TTCCEEEEEECGGGCSCHH
T ss_pred             cccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH--cCCCEEEEEeeeehhhhHH
Confidence                       111223457899999999987532111         11 122333333  3589999999999864332


Q ss_pred             cCHHHHHHHHHhcC-------CcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         197 VTTREAEMYAIKNQ-------MAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       197 v~~ee~~~~a~~~~-------~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .   ....+.+..+       ..++++||++|.||+++++.|.+.+.+
T Consensus       139 ~---~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         139 E---VINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             H---HHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             H---HHHHHHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            2   1222222222       258999999999999999999988754

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.70  E-value=6.3e-17  Score=147.26  Aligned_cols=115  Identities=17%  Similarity=0.262  Sum_probs=80.4

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEE-CCeEEEEEEEeCCCCcccc-h
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILL-DGKRVKLQLWDTSGQGRFC-T  139 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i-~~~~v~l~i~Dt~G~e~~~-~  139 (432)
                      +|+++|++|||||||+++| .++.+...          .++++       .....+.+ ++..+.+.+||++|++.+. .
T Consensus         2 ~V~ivG~~~~GKTsLl~~l-~~~~~~~~----------~~t~~-------~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~   63 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRL-LTGQYRDT----------QTSIT-------DSSAIYKVNNNRGNSLTLIDLPGHESLRFQ   63 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHH-HHSCCCCB----------CCCCS-------CEEEEEECSSTTCCEEEEEECCCCHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH-HcCCCCcc----------cCCee-------EEEEEEEEeeeeeeeeeeeeccccccccch
Confidence            6899999999999999998 33333211          12332       11122222 4456789999999999875 5


Q ss_pred             hhhhcccCceEEEEEEeCCCCCCh-hhHHHHHHHHH-h---hCCCCcEEEEEECccCCCC
Q psy3450         140 IIRSYSRGAQGILLVYDITNKWSF-DGIDRWLKEVE-E---HAPGVPKVLVGNRLHLAFN  194 (432)
Q Consensus       140 l~~~~~~~ad~iIlV~Dvt~~~Sf-~~l~~~l~~i~-~---~~~~iPiILVgNK~DL~~~  194 (432)
                      .+..+++.++++++|||+++..++ .+..+|+..+. .   ...++|++||+||+|+...
T Consensus        64 ~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          64 LLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             hhhhhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence            677888999999999999987654 44444444432 2   2256899999999999753

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.67  E-value=4.1e-17  Score=145.76  Aligned_cols=155  Identities=18%  Similarity=0.162  Sum_probs=95.9

Q ss_pred             EEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcc----c
Q psy3450          62 KFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGR----F  137 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~----~  137 (432)
                      +|+|+|.+|||||||+|+|.........+ .              .+|.+.......+.+. ..+.+|||||..+    .
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~-~--------------~~T~~~~~~~~~~~~~-~~~~~~DtpG~~~~~~~~   66 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADY-H--------------FTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQG   66 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESST-T--------------SSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCT
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecC-C--------------CceEeeeeceeEecCC-cEEEEecCCCcccCchHH
Confidence            68999999999999999983322211100 0              0111222222333221 2468999999532    1


Q ss_pred             chhhh---hcccCceEEEEEEeCCCCCChhhHHHHH--HHHHhh-C---CCCcEEEEEECccCCCCcccCHHHHHHHHHh
Q psy3450         138 CTIIR---SYSRGAQGILLVYDITNKWSFDGIDRWL--KEVEEH-A---PGVPKVLVGNRLHLAFNRTVTTREAEMYAIK  208 (432)
Q Consensus       138 ~~l~~---~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l--~~i~~~-~---~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~  208 (432)
                      ..+..   ..+..++.++++++....+.......+.  ...... .   .++|+++|+||+|+.+..    +..+.+.+.
T Consensus        67 ~~~~~~~l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~  142 (185)
T d1lnza2          67 VGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEK  142 (185)
T ss_dssp             TTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHH
Confidence            22222   2345688998888877665544332222  212221 1   368999999999996532    233444444


Q ss_pred             c--CCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         209 N--QMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       209 ~--~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      .  +.+++.+||++|.||+++++.|.+.+.
T Consensus       143 ~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~  172 (185)
T d1lnza2         143 LTDDYPVFPISAVTREGLRELLFEVANQLE  172 (185)
T ss_dssp             CCSCCCBCCCSSCCSSTTHHHHHHHHHHHT
T ss_pred             hccCCcEEEEECCCCCCHHHHHHHHHHhhh
Confidence            4  578999999999999999999998873

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.62  E-value=1.1e-15  Score=141.86  Aligned_cols=165  Identities=19%  Similarity=0.177  Sum_probs=99.9

Q ss_pred             EEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCcccc--------ccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          63 FLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDD--------MLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~--------tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      |+|+|.+++|||||+++|......... . +..+    ...+....        +... .....++....++.|+||||+
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~-~-~~~~----~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~iDtPGh   80 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASRE-A-GGIT----QHIGATEIPMDVIEGICGDF-LKKFSIRETLPGLFFIDTPGH   80 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC------CC----CBTTEEEEEHHHHHHHSCGG-GGGCGGGGTCCEEEEECCCTT
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchhee-c-Ccee----eecccccccccccccccccc-ccceeecccccccccccccce
Confidence            999999999999999998332111100 0 0000    00000000        0000 000012233456799999999


Q ss_pred             cccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCH---------------
Q psy3450         135 GRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTT---------------  199 (432)
Q Consensus       135 e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~---------------  199 (432)
                      +.|.......+..+|++|+|+|+.+.-.-+. .+.+..+...  ++|+|+|.||+|+........               
T Consensus        81 ~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~~--~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v  157 (227)
T d1g7sa4          81 EAFTTLRKRGGALADLAILIVDINEGFKPQT-QEALNILRMY--RTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQV  157 (227)
T ss_dssp             SCCTTSBCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHHT--TCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHH
T ss_pred             ecccccchhcccccceEEEEEecccCcccch-hHHHHHhhcC--CCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHH
Confidence            9998887788899999999999987644433 3333444433  589999999999864321110               


Q ss_pred             -----HHH----HHHHHhc--------------CCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         200 -----REA----EMYAIKN--------------QMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       200 -----ee~----~~~a~~~--------------~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                           +..    ..+.+..              ..+++.+||++|.|++++++.|.....+
T Consensus       158 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~  218 (227)
T d1g7sa4         158 QQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (227)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence                 000    1111110              1368999999999999999998877644

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.61  E-value=6.9e-15  Score=129.72  Aligned_cols=157  Identities=14%  Similarity=0.064  Sum_probs=98.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +.-.|+++|.+|||||||+|+|+..+.......         ..     ++..........+.  ..+..||++|.....
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~---------~~-----t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~   67 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSRK---------AQ-----TTRHRIVGIHTEGA--YQAIYVDTPGLHMEE   67 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCCC---------SS-----CCSSCEEEEEEETT--EEEEEESSSSCCHHH
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCCceeeccC---------CC-----ceEEEEEeeeecCC--ceeEeecCCCceecc
Confidence            344699999999999999999843322111000         00     00122222223333  345678988864221


Q ss_pred             ---------hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhc
Q psy3450         139 ---------TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKN  209 (432)
Q Consensus       139 ---------~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~  209 (432)
                               .....+...+++++++.|..+..  .....+...+.+  ...|+++|.||+|....+....+..+.+..++
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~--~~~~~~~~~l~~--~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~  143 (179)
T d1egaa1          68 KRAINRLMNKAASSSIGDVELVIFVVEGTRWT--PDDEMVLNKLRE--GKAPVILAVNKVDNVQEKADLLPHLQFLASQM  143 (179)
T ss_dssp             HHHHHHHHTCCTTSCCCCEEEEEEEEETTCCC--HHHHHHHHHHHS--SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTS
T ss_pred             hhhhhhhhhhccccchhhcceeEEEEecCccc--hhHHHHHHHhhh--ccCceeeeeeeeeccchhhhhhhHhhhhhhhc
Confidence                     11222346788888899876543  333344444443  34789999999998765444445555566666


Q ss_pred             C-CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         210 Q-MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       210 ~-~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      + .+++++||++|.|++++++.|.+.+
T Consensus       144 ~~~~~~~vSA~~g~gi~~L~~~i~~~l  170 (179)
T d1egaa1         144 NFLDIVPISAETGLNVDTIAAIVRKHL  170 (179)
T ss_dssp             CCSEEEECCTTTTTTHHHHHHHHHTTC
T ss_pred             CCCCEEEEeCcCCCCHHHHHHHHHHhC
Confidence            6 4899999999999999999998766

>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=99.61  E-value=5.1e-15  Score=133.12  Aligned_cols=156  Identities=14%  Similarity=0.173  Sum_probs=92.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      +...+|+|+|.+|||||||+|+|+.........          ...+   .+.+...  .....   .+.+.|+++....
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~----------~~~~---~t~~~~~--~~~~~---~~~~~d~~~~~~~   82 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINRKNLARTS----------SKPG---KTQTLNF--YIIND---ELHFVDVPGYGFA   82 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC--------------------------CCEEE--EEETT---TEEEEECCCBCCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCCCceEEee----------cccc---eeeeccc--ccccc---cceEEEEEeeccc
Confidence            344589999999999999999984332221111          1111   0111111  11222   2345566553211


Q ss_pred             ----------ch---hhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHH
Q psy3450         138 ----------CT---IIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEM  204 (432)
Q Consensus       138 ----------~~---l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~  204 (432)
                                ..   .....+..+|++++|+|++++..- .-.++++.++..  ++|+++|+||+|+..+.+. .+....
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~vi~viD~~~~~~~-~~~~~~~~l~~~--~~piivv~NK~D~~~~~~~-~~~~~~  158 (195)
T d1svia_          83 KVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSN-DDVQMYEFLKYY--GIPVIVIATKADKIPKGKW-DKHAKV  158 (195)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHHHT--TCCEEEEEECGGGSCGGGH-HHHHHH
T ss_pred             cccccccchhhhHHhhhhccccchhhhhhhhhccccccc-cccccccccccc--cCcceechhhccccCHHHH-HHHHHH
Confidence                      11   111234678999999999876432 224566666554  4799999999998643332 222233


Q ss_pred             HHHh----cCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         205 YAIK----NQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       205 ~a~~----~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      +.+.    .+.+++.+||++|.|+++++++|.+.+
T Consensus       159 ~~~~l~~~~~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         159 VRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             HHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHhcccCCCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            3332    345899999999999999999998876

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.61  E-value=6.8e-15  Score=132.88  Aligned_cols=167  Identities=13%  Similarity=0.117  Sum_probs=104.2

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEE-------------------E
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTI-------------------L  118 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i-------------------~  118 (432)
                      ...++|+++|..++|||||+++|.... ....  .    .....++.  .. ..+.....                   .
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g~~-~~~~--~----~~~~~g~t--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTGVW-TDTH--S----EELRRGIT--IK-IGFADAEIRRCPNCGRYSTSPVCPYCGH   72 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCC-CC----C----GGGGSCSS--SC-CEEEEEEEEECTTTCCEESSSBCTTTCC
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHhhh-hhhh--H----HHHHcCcc--cc-cchhhhhhhccchhhhccceeeeeeeee
Confidence            456899999999999999999983211 1000  0    00000000  00 00000000                   0


Q ss_pred             ECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc-
Q psy3450         119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV-  197 (432)
Q Consensus       119 i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v-  197 (432)
                      ......++.++||||++.|......-+..+|++++|.|+.+........+.+..+.... ..++|++.||+|+.+.... 
T Consensus        73 ~~~~~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~-~~~iiv~inK~D~~d~~~~~  151 (195)
T d1kk1a3          73 ETEFVRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG-QKNIIIAQNKIELVDKEKAL  151 (195)
T ss_dssp             BCEEEEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT-CCCEEEEEECGGGSCHHHHH
T ss_pred             eecCceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc-CccceeeeecccchhhHHHH
Confidence            11234568999999999998777777889999999999987643333344444444432 2468889999999753221 


Q ss_pred             -CHHHHHHHHHhcC---CcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         198 -TTREAEMYAIKNQ---MAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       198 -~~ee~~~~a~~~~---~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                       ..++..++....+   ++++++||++|.||++|++.+.+.+
T Consensus       152 ~~~~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         152 ENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence             1223344444432   5899999999999999999987754

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.55  E-value=3.7e-14  Score=129.09  Aligned_cols=111  Identities=13%  Similarity=0.164  Sum_probs=76.9

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC--HHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT--TRE  201 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~--~ee  201 (432)
                      ..+.+.|+||+..|....-.-+..+|++|+|+|+.+.-.-...++.+..+... .-.|+||+.||+|+.+..+..  .++
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~i~~iIV~vNK~Dl~~~~~~~~~~~~  164 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GVKNLIIVQNKVDVVSKEEALSQYRQ  164 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-TCCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc-CCceeeeccccCCCccchHHHHHHHH
Confidence            46899999999999776667778899999999998753222223333333333 224889999999996532211  112


Q ss_pred             HHHHHHhc---CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         202 AEMYAIKN---QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       202 ~~~~a~~~---~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ...+....   +++++++||++|.||+++++.+...+
T Consensus       165 ~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         165 IKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            23333332   36899999999999999999988764

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.53  E-value=9.8e-15  Score=132.58  Aligned_cols=168  Identities=11%  Similarity=0.082  Sum_probs=104.2

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhc------CCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCC
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYL------ESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTS  132 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~------~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~  132 (432)
                      +.++|+++|..++|||||+++|..      ...+...............++     |++..  .+.+......+.++|||
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgi-----Ti~~~--~~~~~~~~~~~~~iDtP   74 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGI-----TINAA--HVEYSTAARHYAHTDCP   74 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTE-----EEECE--EEEEECSSCEEEEEECS
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCc-----cCCcc--eEEEEeceeeEEeecCc
Confidence            357999999999999999999821      001100000000000111111     12322  33333444567999999


Q ss_pred             CCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc---CHHHHHHHHHhc
Q psy3450         133 GQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV---TTREAEMYAIKN  209 (432)
Q Consensus       133 G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v---~~ee~~~~a~~~  209 (432)
                      |+..|......-+..+|++|||+|+.+...-+. .+.+..+.... ..|+|++.||+|+..+.+.   -..+...+....
T Consensus        75 Gh~~f~~~~~~~~~~aD~allVVda~~G~~~QT-~~~~~~a~~~~-~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~  152 (196)
T d1d2ea3          75 GHADYVKNMITGTAPLDGCILVVAANDGPMPQT-REHLLLARQIG-VEHVVVYVNKADAVQDSEMVELVELEIRELLTEF  152 (196)
T ss_dssp             SHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHH-HHHHHHHHHTT-CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHhhcCeEEEEEEcCCCCchhH-HHHHHHHHHhc-CCcEEEEEecccccccHHHHHHHHHHHHHHHHHh
Confidence            999987777777899999999999988654332 33344444432 2578999999998653221   112344444444


Q ss_pred             C-----CcEEEEcCCCC----------CCHHHHHHHHHHHH
Q psy3450         210 Q-----MAFFEVSPLCD----------FNIRESFTELSRRA  235 (432)
Q Consensus       210 ~-----~~~~evSAktg----------~nI~elf~~L~~~i  235 (432)
                      +     ++++.+||++|          .++.++++.+.+.+
T Consensus       153 ~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         153 GYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             TSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             CCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHhhC
Confidence            3     57999999998          58888888776543

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.46  E-value=3.7e-14  Score=127.91  Aligned_cols=113  Identities=15%  Similarity=0.237  Sum_probs=77.0

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccchh
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFCTI  140 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~~l  140 (432)
                      ..|+|+|++|||||||+|+| .++.+..             +.     +.+.....+  +.....+.+||++|++.+...
T Consensus         4 p~V~lvG~~n~GKTSLln~l-~~~~~~~-------------~t-----t~~~~~~~~--~~~~~~~~l~D~~g~~~~~~~   62 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLL-TTDSVRP-------------TV-----VSQEPLSAA--DYDGSGVTLVDFPGHVKLRYK   62 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHH-HHSSCCC-------------BC-----CCSSCEEET--TGGGSSCEEEECCCCGGGTHH
T ss_pred             CEEEEECCCCCCHHHHHHHH-hCCCCCC-------------eE-----EecceEEEE--EeCCeEEEEEecccccchhhH
Confidence            47999999999999999998 3332210             11     012222222  233345789999999987666


Q ss_pred             hhhc----ccCceEEEEEEeCC-CCCChhhHHHHHHHHH----hhC-CCCcEEEEEECccCCCC
Q psy3450         141 IRSY----SRGAQGILLVYDIT-NKWSFDGIDRWLKEVE----EHA-PGVPKVLVGNRLHLAFN  194 (432)
Q Consensus       141 ~~~~----~~~ad~iIlV~Dvt-~~~Sf~~l~~~l~~i~----~~~-~~iPiILVgNK~DL~~~  194 (432)
                      +..+    ...++.+++++|.. +..+++++..|+..+.    ... .++|+++|+||+|+...
T Consensus        63 ~~~~~~~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~  126 (209)
T d1nrjb_          63 LSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTA  126 (209)
T ss_dssp             HHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTC
T ss_pred             HHHHHHHHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeeccccc
Confidence            5554    35568888888876 4677888877765543    222 57999999999998653

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.43  E-value=1.3e-13  Score=125.80  Aligned_cols=154  Identities=12%  Similarity=0.068  Sum_probs=94.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCc----CccccCCCccccccceeEEEEEECCeEEEEEEEeCCC
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSE----SPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSG  133 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~----~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G  133 (432)
                      +.++|+++|..++|||||+++|+.. +...   ..+...    ....+.......|++.....+..++.  ++.|+||||
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~---~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~--~i~iiDtPG   76 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAEN---PNVEVKDYGDIDKAPEERARGITINTAHVEYETAKR--HYSHVDCPG   76 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSC---TTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSC--EEEEEECCC
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhcc---CCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCe--EEEEEeCCC
Confidence            3589999999999999999998311 0000   000000    00000000011234555556666664  568999999


Q ss_pred             CcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCccc---CHHHHHHHHHhc
Q psy3450         134 QGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNRTV---TTREAEMYAIKN  209 (432)
Q Consensus       134 ~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r~v---~~ee~~~~a~~~  209 (432)
                      +..|......-++.+|++|||+|+.+....+..+.| ..+...  ++| +|++.||+|+.+..+.   ..++++.+....
T Consensus        77 h~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~~--gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~  153 (204)
T d2c78a3          77 HADYIKNMITGAAQMDGAILVVSAADGPMPQTREHI-LLARQV--GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQY  153 (204)
T ss_dssp             SGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH-HHHHHT--TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHT
T ss_pred             chhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH-HHHHHc--CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhc
Confidence            999988777788999999999999987666554444 333333  355 7778999998653221   112334444443


Q ss_pred             C-----CcEEEEcCCC
Q psy3450         210 Q-----MAFFEVSPLC  220 (432)
Q Consensus       210 ~-----~~~~evSAkt  220 (432)
                      +     ++++..||..
T Consensus       154 ~~~~~~i~~i~~sa~~  169 (204)
T d2c78a3         154 EFPGDEVPVIRGSALL  169 (204)
T ss_dssp             TSCTTTSCEEECCHHH
T ss_pred             CCCcccceeeeeechh
Confidence            3     4688888753

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.41  E-value=1.3e-12  Score=114.74  Aligned_cols=163  Identities=11%  Similarity=0.009  Sum_probs=83.6

Q ss_pred             ccccceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCC
Q psy3450          55 KQYDYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQ  134 (432)
Q Consensus        55 ~~~~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~  134 (432)
                      ...+..+||+++|.+|||||||+|++.. .+....         . ...+   ++...........+ ...+..++..+.
T Consensus        11 ~p~~~~~~I~lvG~~NvGKSSL~n~L~~-~~~~~~---------~-~~~~---~~~~~~~~~~~~~~-~~~~~~~~~~~~   75 (188)
T d1puia_          11 LPSDTGIEVAFAGRSNAGKSSALNTLTN-QKSLAR---------T-SKTP---GRTQLINLFEVADG-KRLVDLPGYGYA   75 (188)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCC-C--------------------------CCEEEEEEETT-EEEEECCCCC--
T ss_pred             CCCccCCEEEEECCCCCCHHHHHHHHhC-CCceEe---------e-cccc---cceeeccceecccc-cceeeeeccccc
Confidence            3456789999999999999999999722 221110         0 0000   00111111111222 222222222222


Q ss_pred             cccch-------h---hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccC--HHHH
Q psy3450         135 GRFCT-------I---IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVT--TREA  202 (432)
Q Consensus       135 e~~~~-------l---~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~--~ee~  202 (432)
                      .....       .   ........+.++.+.|....... ....++..+...  ..++++++||+|+.+.....  .++.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~v~~k~D~~~~~~~~~~~~~~  152 (188)
T d1puia_          76 EVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKD-LDQQMIEWAVDS--NIAVLVLLTKADKLASGARKAQLNMV  152 (188)
T ss_dssp             ----CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHHHT--TCCEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             chhhhhhhhhhhhhhhhhhhhhheeEEEEeecccccchh-HHHHHHHHhhhc--cccccchhhhhhccCHHHHHHHHHHH
Confidence            11100       1   11122445566666666554332 224444544443  47899999999986532211  1122


Q ss_pred             HHHHHhc--CCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         203 EMYAIKN--QMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       203 ~~~a~~~--~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      .+.....  ..+++.+||++|.||+++++.|.+.+
T Consensus       153 ~~~l~~~~~~~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         153 REAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             HHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHHHhhCCCCcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            2222222  24789999999999999999986543

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.37  E-value=1.9e-12  Score=119.52  Aligned_cols=162  Identities=17%  Similarity=0.126  Sum_probs=96.3

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhcC-CCCcccccCCCCcCccccCCCcc-------------------ccccceeEEE
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYLE-SRFPRFWLDGSSESPFCSGSGKY-------------------DDMLAYKTTT  116 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~~~~~~~~~~~~~ig~~-------------------~~tid~~~~~  116 (432)
                      ....++|+++|..++|||||+.+|+.. +.+..........  .....|..                   ..+++.....
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~--~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~   83 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITR--DSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRY   83 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC--------------------CCC--CHHHHHHHHC-----CCCCCEEEE
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHH--HHHhcCccccceeeeeccccchhhhccCCCceeeEEE
Confidence            346789999999999999999998422 1111100000000  00000000                   0112333333


Q ss_pred             EEECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCc-EEEEEECccCCCCc
Q psy3450         117 ILLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVP-KVLVGNRLHLAFNR  195 (432)
Q Consensus       117 i~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iP-iILVgNK~DL~~~r  195 (432)
                      +..++  ..+.|+|+||++.|......-...+|++|+|+|+.+...-+.... +..+...  +++ +|++.||+|+.+..
T Consensus        84 ~~~~~--~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~-~~~~~~~--gv~~iiv~vNK~D~~~~~  158 (222)
T d1zunb3          84 FSTAK--RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRH-SYIASLL--GIKHIVVAINKMDLNGFD  158 (222)
T ss_dssp             EECSS--EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHH-HHHHHHT--TCCEEEEEEECTTTTTSC
T ss_pred             Eeccc--eEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHH-HHHHHHc--CCCEEEEEEEcccccccc
Confidence            33344  457999999999997776777789999999999987644333222 2222222  344 78999999997533


Q ss_pred             ccCH----HHHHHHHHhcC-----CcEEEEcCCCCCCHH
Q psy3450         196 TVTT----REAEMYAIKNQ-----MAFFEVSPLCDFNIR  225 (432)
Q Consensus       196 ~v~~----ee~~~~a~~~~-----~~~~evSAktg~nI~  225 (432)
                      +...    ++...++++.+     ++|+++||++|.||.
T Consensus       159 ~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         159 ERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             ceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCC
Confidence            2212    23445565554     368999999999983

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.20  E-value=1.3e-10  Score=109.75  Aligned_cols=126  Identities=20%  Similarity=0.318  Sum_probs=83.5

Q ss_pred             EEEEeCcccchhHHHHHhhhc-CCCCccc--ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          62 KFLLVGDSDVGKQEILSGLYL-ESRFPRF--WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L~~-~~~~~~~--~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      +|+++|..++|||||+.+++. .+.....  ..++.....+.+.......++......+.+++.  +++++||||+.+|.
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~--~~n~iDtPGh~dF~   81 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGH--RVFLLDAPGYGDFV   81 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTE--EEEEEECCCSGGGH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeeccccccccc--ceeEEccCchhhhh
Confidence            589999999999999999832 2221110  001111111111111112234555566677774  57899999999998


Q ss_pred             hhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         139 TIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       139 ~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                      ......++-+|++|+|+|+.+.-.-+....|. .+.+.  ++|.+++.||+|..
T Consensus        82 ~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~-~~~~~--~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          82 GEIRGALEAADAALVAVSAEAGVQVGTERAWT-VAERL--GLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHH-HHHHT--TCCEEEEEECGGGC
T ss_pred             hhhhhhhcccCceEEEeeccCCccchhHHHHH-hhhhc--cccccccccccccc
Confidence            88888899999999999999876655555553 33433  48999999999963

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.15  E-value=3.4e-10  Score=106.14  Aligned_cols=127  Identities=14%  Similarity=0.039  Sum_probs=76.1

Q ss_pred             cceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          58 DYLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        58 ~~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      ...++|+++|.+|||||||+|.++....+......           +   +|.+........++.  ++.+|||||....
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~-----------~---~T~~~~~~~~~~~g~--~i~viDTPGl~~~   93 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQ-----------S---EGPRPVMVSRSRAGF--TLNIIDTPGLIEG   93 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSS-----------C---CCSSCEEEEEEETTE--EEEEEECCCSEET
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCC-----------C---cceeEEEEEEEeccE--EEEEEeeecccCC
Confidence            35689999999999999999998655554321111           1   111333444556664  5799999996422


Q ss_pred             ch-------hhhh--cccCceEEEEEEeCCCCCChhhHHHHHHHHHhhC-C--CCcEEEEEECccCCCCcccCHH
Q psy3450         138 CT-------IIRS--YSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHA-P--GVPKVLVGNRLHLAFNRTVTTR  200 (432)
Q Consensus       138 ~~-------l~~~--~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~-~--~iPiILVgNK~DL~~~r~v~~e  200 (432)
                      ..       ....  .....++++||++++...--......+..+.... +  -.++|||.||+|...+.....+
T Consensus        94 ~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~~e  168 (257)
T d1h65a_          94 GYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYD  168 (257)
T ss_dssp             TEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCHH
T ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCcHH
Confidence            11       1111  1245789999988875421122233444444332 1  2479999999998665444433

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.13  E-value=1.3e-10  Score=115.98  Aligned_cols=161  Identities=11%  Similarity=0.079  Sum_probs=89.7

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCcccc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRFC  138 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~~  138 (432)
                      ..++|+|+|.+|||||||+|.|+........          ....|...+|.+...  +...+ .-.+.+|||||.....
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~----------~~~~g~~~tT~~~~~--~~~~~-~~~~~l~DtPG~~~~~  121 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEG----------AAKTGVVEVTMERHP--YKHPN-IPNVVFWDLPGIGSTN  121 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTT----------SCCCCC----CCCEE--EECSS-CTTEEEEECCCGGGSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCc----------cCCCCCCCCceeeee--eeccC-CCeEEEEeCCCccccc
Confidence            4689999999999999999998432221110          001111111112211  11111 2236799999975432


Q ss_pred             hhh-----hhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCC-------CcccCHHH----H
Q psy3450         139 TII-----RSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAF-------NRTVTTRE----A  202 (432)
Q Consensus       139 ~l~-----~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~-------~r~v~~ee----~  202 (432)
                      ...     ...+..+|.+|++.|..  -+-.+ ..++..+.+.  +.|+++|.||+|...       .+....+.    .
T Consensus       122 ~~~~~~~~~~~~~~~d~~l~~~~~~--~~~~d-~~l~~~l~~~--~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~i  196 (400)
T d1tq4a_         122 FPPDTYLEKMKFYEYDFFIIISATR--FKKND-IDIAKAISMM--KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDI  196 (400)
T ss_dssp             CCHHHHHHHTTGGGCSEEEEEESSC--CCHHH-HHHHHHHHHT--TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHH
T ss_pred             ccHHHHHHHhhhhcceEEEEecCCC--CCHHH-HHHHHHHHHc--CCCEEEEEeCcccccchhhhcccccccHHHHHHHH
Confidence            221     22346788888887743  22222 3455555554  589999999999621       11112221    1


Q ss_pred             H----HHHHhcCC---cEEEEcCCC--CCCHHHHHHHHHHHHhh
Q psy3450         203 E----MYAIKNQM---AFFEVSPLC--DFNIRESFTELSRRALQ  237 (432)
Q Consensus       203 ~----~~a~~~~~---~~~evSAkt--g~nI~elf~~L~~~i~~  237 (432)
                      +    ...+..+.   ++|.+|..+  ..++.++.+.+.+.+-.
T Consensus       197 r~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         197 RLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             HHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             HHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHH
Confidence            1    12222332   688888764  45899999998887744

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.13  E-value=4.2e-11  Score=111.85  Aligned_cols=162  Identities=14%  Similarity=0.203  Sum_probs=82.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhc-CCCCccc--------------------ccCCCCcCccccCCCccccccceeEEEE
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYL-ESRFPRF--------------------WLDGSSESPFCSGSGKYDDMLAYKTTTI  117 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~-~~~~~~~--------------------~~~~~~~~~~~~~ig~~~~tid~~~~~i  117 (432)
                      ..++|+++|..++|||||+.+|+. .+.+...                    +...........+     .+++.....+
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg-----~ti~~~~~~~   97 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKG-----KTVEVGRAYF   97 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC---------------------------------CCEE
T ss_pred             CceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccC-----cccccccccc
Confidence            457999999999999999999822 1111100                    0000000000000     1122222223


Q ss_pred             EECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCC---Ch---hhHHHHHHHHHhhCCCC-cEEEEEECcc
Q psy3450         118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKW---SF---DGIDRWLKEVEEHAPGV-PKVLVGNRLH  190 (432)
Q Consensus       118 ~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~---Sf---~~l~~~l~~i~~~~~~i-PiILVgNK~D  190 (432)
                      ..++  ..+.+.||||+..|......-...+|++|+|+|+.+..   ++   ....+.+..+...  ++ +++++.||+|
T Consensus        98 ~~~~--~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~--~i~~iiv~iNKmD  173 (245)
T d1r5ba3          98 ETEH--RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ--GINHLVVVINKMD  173 (245)
T ss_dssp             ECSS--EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT--TCSSEEEEEECTT
T ss_pred             cccc--ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc--CCCeEEEEEEcCC
Confidence            3333  46799999999999887777788999999999998641   11   1222223323322  34 4889999999


Q ss_pred             CCCCc--ccCHH----HHHHHHHhc-------CCcEEEEcCCCCCCHHHHHH
Q psy3450         191 LAFNR--TVTTR----EAEMYAIKN-------QMAFFEVSPLCDFNIRESFT  229 (432)
Q Consensus       191 L~~~r--~v~~e----e~~~~a~~~-------~~~~~evSAktg~nI~elf~  229 (432)
                      +....  +...+    +...+.++.       .++++++||++|.||.++++
T Consensus       174 ~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         174 EPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             STTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             CCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            85321  11112    222232222       24799999999999966443

>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=99.12  E-value=7e-11  Score=109.92  Aligned_cols=158  Identities=13%  Similarity=0.097  Sum_probs=97.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcC-CCCcc--------------------cccCCCCcCccccCCCccccccceeEEEE
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLE-SRFPR--------------------FWLDGSSESPFCSGSGKYDDMLAYKTTTI  117 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~-~~~~~--------------------~~~~~~~~~~~~~~ig~~~~tid~~~~~i  117 (432)
                      ..++|+++|..++|||||+.+|+.. +....                    .+.-.........++     |++.....+
T Consensus         5 ~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGi-----Ti~~~~~~~   79 (239)
T d1f60a3           5 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGI-----TIDIALWKF   79 (239)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTC-----CCSCSCEEE
T ss_pred             CccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhccee-----ccccceeEe
Confidence            3479999999999999999998321 11100                    000000000111122     234445555


Q ss_pred             EECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCC-------hhhHHHHHHHHHhhCCCCc-EEEEEECc
Q psy3450         118 LLDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS-------FDGIDRWLKEVEEHAPGVP-KVLVGNRL  189 (432)
Q Consensus       118 ~i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~S-------f~~l~~~l~~i~~~~~~iP-iILVgNK~  189 (432)
                      ..++  .++.|.||||+..|......-...+|++|||+|+....-       -+....| ......  ++| +|++.||+
T Consensus        80 ~~~~--~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~~~--gv~~iiv~iNKm  154 (239)
T d1f60a3          80 ETPK--YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAFTL--GVRQLIVAVNKM  154 (239)
T ss_dssp             ECSS--EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHHHT--TCCEEEEEEECG
T ss_pred             ccCC--EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH-HHHHHc--CCCeEEEEEECC
Confidence            5555  567999999999998877778899999999999875320       1122223 222222  355 78899999


Q ss_pred             cCCCCcccCH----HHHHHHHHhcC-----CcEEEEcCCCCCCHHH
Q psy3450         190 HLAFNRTVTT----REAEMYAIKNQ-----MAFFEVSPLCDFNIRE  226 (432)
Q Consensus       190 DL~~~r~v~~----ee~~~~a~~~~-----~~~~evSAktg~nI~e  226 (432)
                      |+.+..+...    ++...+....+     ++++.+||..|.|+-+
T Consensus       155 D~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         155 DSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            9865332222    23444555444     5789999999998644

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.11  E-value=3.3e-11  Score=110.88  Aligned_cols=158  Identities=13%  Similarity=0.127  Sum_probs=90.6

Q ss_pred             eEEEEEeCcccchhHHHHHhhhcC-CCCcccc--------------------cCCCCcCccccCCCccccccceeEEEEE
Q psy3450          60 LLKFLLVGDSDVGKQEILSGLYLE-SRFPRFW--------------------LDGSSESPFCSGSGKYDDMLAYKTTTIL  118 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L~~~-~~~~~~~--------------------~~~~~~~~~~~~ig~~~~tid~~~~~i~  118 (432)
                      .++|+++|..+.|||||+.+|+.. +.+....                    ...........+     .+++.....+ 
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg-----~ti~~~~~~~-   76 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERG-----VTINLTFMRF-   76 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC----------------CEE-
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCC-----ccccceEEEE-
Confidence            579999999999999999987321 1100000                    000000000000     1112222222 


Q ss_pred             ECCeEEEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCC------hhhHHHHHHHHHhhCCCCcEEEEEECccCC
Q psy3450         119 LDGKRVKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWS------FDGIDRWLKEVEEHAPGVPKVLVGNRLHLA  192 (432)
Q Consensus       119 i~~~~v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~S------f~~l~~~l~~i~~~~~~iPiILVgNK~DL~  192 (432)
                       +.....+.|+||||++.|......-++-+|++|+|+|+.+...      .....+-+...... ...++|++.||+|+.
T Consensus        77 -~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~-~~~~iIv~iNK~D~~  154 (224)
T d1jnya3          77 -ETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM-GLDQLIVAVNKMDLT  154 (224)
T ss_dssp             -ECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT-TCTTCEEEEECGGGS
T ss_pred             -ecCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh-CCCceEEEEEcccCC
Confidence             3334668999999999998888888899999999999987421      11122222222222 234688899999986


Q ss_pred             CC--cccCHH----HHHHHHHhcC-----CcEEEEcCCCCCCHH
Q psy3450         193 FN--RTVTTR----EAEMYAIKNQ-----MAFFEVSPLCDFNIR  225 (432)
Q Consensus       193 ~~--r~v~~e----e~~~~a~~~~-----~~~~evSAktg~nI~  225 (432)
                      ..  .+...+    +...+...++     ++++++||..|.||.
T Consensus       155 ~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         155 EPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             SSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             CccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence            32  111112    2333444433     478999999999884

>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=99.02  E-value=1.7e-09  Score=102.22  Aligned_cols=145  Identities=14%  Similarity=0.197  Sum_probs=90.1

Q ss_pred             EEEEEeCcccchhHHHHHhhhcC-CCCccc--ccCCCCcCccccCCCccccccceeEEEEEECCeEEEEEEEeCCCCccc
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLE-SRFPRF--WLDGSSESPFCSGSGKYDDMLAYKTTTILLDGKRVKLQLWDTSGQGRF  137 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~-~~~~~~--~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~~v~l~i~Dt~G~e~~  137 (432)
                      -+|+++|..++|||||+.+++.. +.....  -.++.....+.+..-....++......+.+++  .+++|+||||...|
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~--~~~n~iDtPG~~dF   84 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKD--HRINIIDAPGHVDF   84 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETT--EEEEEECCCSSSSC
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCC--eEEEEecCCchhhh
Confidence            36999999999999999998332 211110  00111111111111111223445556666676  45799999999999


Q ss_pred             chhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHH-HHHHHHhcCCcE
Q psy3450         138 CTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTRE-AEMYAIKNQMAF  213 (432)
Q Consensus       138 ~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee-~~~~a~~~~~~~  213 (432)
                      .......++-+|++|+|+|..+.-.-....-| +..++.  ++|.+++.||+|...   ...++ ..++-+.++...
T Consensus        85 ~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~~~--~lP~i~fINKmDr~~---ad~~~~l~ei~~~l~~~~  155 (276)
T d2bv3a2          85 TIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAEKY--KVPRIAFANKMDKTG---ADLWLVIRTMQERLGARP  155 (276)
T ss_dssp             STTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHHTT--TCCEEEEEECTTSTT---CCHHHHHHHHHHTTCCCE
T ss_pred             HHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHHHc--CCCEEEEEecccccc---cccchhHHHHHHHhCCCe
Confidence            88888888999999999999987655554555 444443  599999999999743   23333 334444555443

>d2izva1 a.271.1.1 (A:386-429) Suppressor of cytokine signaling 4, SOCS-4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SOCS box-like
superfamily: SOCS box-like
family: SOCS box-like
domain: Suppressor of cytokine signaling 4, SOCS-4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.95  E-value=5.3e-11  Score=79.67  Aligned_cols=37  Identities=41%  Similarity=0.613  Sum_probs=35.3

Q ss_pred             hhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhh
Q psy3450         317 ISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  353 (432)
                      .|||.+||++|..||+..+|++||||+.||++||+|-
T Consensus         2 fSLQhLCR~~I~~~t~~d~I~~LPLP~~Lk~yLkeyh   38 (44)
T d2izva1           2 FSLQHICRTVICNCTTYDGIDALPIPSSMKLYLKEYH   38 (44)
T ss_dssp             CCHHHHHHHHHHHHSCHHHHHTSSSCHHHHHHHTSSE
T ss_pred             cCHHHHHHHHHHHcCCcCCcccCCCCHHHHHHHHhcc
Confidence            4899999999999999999999999999999999984

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.95  E-value=2.1e-09  Score=104.66  Aligned_cols=128  Identities=15%  Similarity=0.165  Sum_probs=79.9

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcC-ccccCCCccccccceeEEEEEE--------------CCeEEE
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSES-PFCSGSGKYDDMLAYKTTTILL--------------DGKRVK  125 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~-~~~~~ig~~~~tid~~~~~i~i--------------~~~~v~  125 (432)
                      -+|+|+|..+.|||||+.+|+...........+.... ...+..-....|+......+..              +++.+.
T Consensus        18 RNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~~   97 (341)
T d1n0ua2          18 RNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFL   97 (341)
T ss_dssp             EEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEE
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccceE
Confidence            3599999999999999999832111100000000000 0000000000112222222222              345788


Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      ++|+||||+..|.......++-+|++|+|+|+.+.-..+...-|.....   .++|+++|.||+|.
T Consensus        98 inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~---~~~p~i~viNKiDr  160 (341)
T d1n0ua2          98 INLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG---ERIKPVVVINKVDR  160 (341)
T ss_dssp             EEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH---TTCEEEEEEECHHH
T ss_pred             EEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH---cCCCeEEEEECccc
Confidence            9999999999999888888899999999999998876665555544333   34899999999996

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=98.86  E-value=4e-09  Score=96.10  Aligned_cols=112  Identities=10%  Similarity=-0.075  Sum_probs=65.3

Q ss_pred             EEEEEEeCCCCcccchhhhh---c--ccCceEEEEEEeCCCCCChhhH-HHHHHH-HHhhCCCCcEEEEEECccCCCCcc
Q psy3450         124 VKLQLWDTSGQGRFCTIIRS---Y--SRGAQGILLVYDITNKWSFDGI-DRWLKE-VEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~---~--~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~-i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      ..+.+.|++|+..+......   .  ....+.++++.|+.....-... ..++.. .....-..|.++|.||+|+....+
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~~~~  174 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEEE  174 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHHH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccccccHHH
Confidence            34789999999765332221   1  1345688999997644332222 111111 111112479999999999865321


Q ss_pred             cCH--------HH------------------HHHHHHh--cCCcEEEEcCCCCCCHHHHHHHHHHHH
Q psy3450         197 VTT--------RE------------------AEMYAIK--NQMAFFEVSPLCDFNIRESFTELSRRA  235 (432)
Q Consensus       197 v~~--------ee------------------~~~~a~~--~~~~~~evSAktg~nI~elf~~L~~~i  235 (432)
                      ...        +.                  .....+.  ..++++++||++|+|++++++.|.+..
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         175 KERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            100        00                  0001111  246899999999999999999987764

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.61  E-value=4.8e-08  Score=94.28  Aligned_cols=104  Identities=14%  Similarity=0.111  Sum_probs=62.5

Q ss_pred             EEEEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH
Q psy3450         124 VKLQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE  203 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~  203 (432)
                      +.+.|+.|.|.-.-..   ....-+|.+++|......+..+.+   ...+.+    ++=++|.||+|+.+..........
T Consensus       144 ~d~iiiETVG~gq~e~---~~~~~~D~~v~v~~p~~GD~iQ~~---k~gilE----~aDi~vvNKaD~~~~~~~~~~~~~  213 (323)
T d2qm8a1         144 FDVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDELQGI---KKGIFE----LADMIAVNKADDGDGERRASAAAS  213 (323)
T ss_dssp             CCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC------C---CTTHHH----HCSEEEEECCSTTCCHHHHHHHHH
T ss_pred             CCeEEEeehhhhhhhh---hhhcccceEEEEeeccchhhhhhh---hhhHhh----hhheeeEeccccccchHHHHHHHH
Confidence            4567788877532211   233569999999988766443322   222222    244889999998653332222211


Q ss_pred             HHHHh----------cCCcEEEEcCCCCCCHHHHHHHHHHHHhh
Q psy3450         204 MYAIK----------NQMAFFEVSPLCDFNIRESFTELSRRALQ  237 (432)
Q Consensus       204 ~~a~~----------~~~~~~evSAktg~nI~elf~~L~~~i~~  237 (432)
                      .+...          +..+++.+||++|.|++++++.|.+....
T Consensus       214 ~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~  257 (323)
T d2qm8a1         214 EYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSK  257 (323)
T ss_dssp             HHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHH
Confidence            22221          33579999999999999999999877643

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.57  E-value=1.5e-07  Score=89.43  Aligned_cols=86  Identities=16%  Similarity=0.169  Sum_probs=53.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhcCCC-CcccccCCCCcCccccCCCccccccceeEEEEEECCe---------------
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYLESR-FPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDGK---------------  122 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~~~~-~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~~---------------  122 (432)
                      ..+||.+||.||||||||+|.+..... -..+|.               .+|++...-.+.+.+.               
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anyp---------------ftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~   73 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYP---------------YATIDPEEAKVAVPDERFDWLCEAYKPKSRV   73 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCS---------------SCCCCTTEEEEEECCHHHHHHHHHHCCSEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCC---------------ccCccCCeEEEeccccchhhhhhcccCCcee
Confidence            348999999999999999999843322 111111               1222333333344331               


Q ss_pred             EEEEEEEeCCCCcc----cchhhhh---cccCceEEEEEEeCCC
Q psy3450         123 RVKLQLWDTSGQGR----FCTIIRS---YSRGAQGILLVYDITN  159 (432)
Q Consensus       123 ~v~l~i~Dt~G~e~----~~~l~~~---~~~~ad~iIlV~Dvt~  159 (432)
                      ...+++.|.||.-.    -..+-+.   .++.+|++|+|+|+.+
T Consensus        74 ~~~i~~~DvaGLv~gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          74 PAFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CEEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccceeeeccccccccccccccHHHHHHHhhccceeEEEEeccC
Confidence            24689999998532    2223333   4589999999999865

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.56  E-value=1.1e-07  Score=89.49  Aligned_cols=83  Identities=17%  Similarity=0.149  Sum_probs=49.3

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCCccccccceeEEEEEECC------------eE---EE
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSGKYDDMLAYKTTTILLDG------------KR---VK  125 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig~~~~tid~~~~~i~i~~------------~~---v~  125 (432)
                      +||-+||-||||||||+|++...+.-...|...+.    .|-.|           .+.+.+            ++   ..
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti----~pn~g-----------vv~v~d~r~~~l~~~~~~~~~~~a~   67 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTI----EPNTG-----------VVPMPDPRLDALAEIVKPERILPTT   67 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCC----CCCSS-----------EEECCCHHHHHHHHHHCCSEEECCE
T ss_pred             ceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCC----CCceE-----------EEecccHhHHHHHHhcCCCceeeee
Confidence            69999999999999999998433221111111111    11222           222222            11   35


Q ss_pred             EEEEeCCCCccc----chhhhhc---ccCceEEEEEEeCC
Q psy3450         126 LQLWDTSGQGRF----CTIIRSY---SRGAQGILLVYDIT  158 (432)
Q Consensus       126 l~i~Dt~G~e~~----~~l~~~~---~~~ad~iIlV~Dvt  158 (432)
                      +.++|+||.-.-    ..+.+.|   ++++|++|+|+|+.
T Consensus        68 i~~~Di~GLi~ga~~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          68 MEFVDIAGLVAGASKGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             EEEEECCSCCTTHHHHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             EEEEEccccCCCcccCCCccHHHHHHHHhccceEEEeecc
Confidence            889999996432    3344444   58999999999874

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.52  E-value=5.6e-08  Score=93.93  Aligned_cols=101  Identities=17%  Similarity=0.075  Sum_probs=57.9

Q ss_pred             EEEEeCCCCcccchhhhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc--CHHHHH
Q psy3450         126 LQLWDTSGQGRFCTIIRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV--TTREAE  203 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v--~~ee~~  203 (432)
                      +.|++|.|.-.-.   ..+...+|.+++|.+....+..+.++.-+   .+.    +=++|.||+|+......  ...+..
T Consensus       149 ~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~gi---~e~----aDi~VvNKaD~~~~~~~~~~~~~~~  218 (327)
T d2p67a1         149 VVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKKGL---MEV----ADLIVINKDDGDNHTNVAIARHMYE  218 (327)
T ss_dssp             EEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCHHH---HHH----CSEEEECCCCTTCHHHHHHHHHHHH
T ss_pred             eEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhchhh---hcc----ccEEEEEeecccchHHHHHHHHHHH
Confidence            5666666642211   13456799999998765544443333322   222    34788899998642211  111222


Q ss_pred             HHHH-------hcCCcEEEEcCCCCCCHHHHHHHHHHHHh
Q psy3450         204 MYAI-------KNQMAFFEVSPLCDFNIRESFTELSRRAL  236 (432)
Q Consensus       204 ~~a~-------~~~~~~~evSAktg~nI~elf~~L~~~i~  236 (432)
                      ....       .+..+++.|||++|.||+++++.|.+...
T Consensus       219 ~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         219 SALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             HHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            2222       12347999999999999999999987653

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.43  E-value=1.3e-07  Score=90.49  Aligned_cols=97  Identities=18%  Similarity=0.071  Sum_probs=43.8

Q ss_pred             EEEEEeCcccchhHHHHHhhhcCCCCcccccCCCCcCccccCCC--ccccccc-------eeEEEEEECCeEEEEEEEeC
Q psy3450          61 LKFLLVGDSDVGKQEILSGLYLESRFPRFWLDGSSESPFCSGSG--KYDDMLA-------YKTTTILLDGKRVKLQLWDT  131 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L~~~~~~~~~~~~~~~~~~~~~~ig--~~~~tid-------~~~~~i~i~~~~v~l~i~Dt  131 (432)
                      +||.++|.||||||||+|.+...+.-..+|...+.++  ..++.  ..+...+       ..............++++|+
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~p--n~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~   78 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEA--NVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDV   78 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------C--CEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEEC
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccC--ccceeeCCCCchhhhhhhccCccccccccccccccEEEEEC
Confidence            4899999999999999999844332222221111110  00100  0000000       00000001123467899999


Q ss_pred             CCCccc----chhhhh---cccCceEEEEEEeCCC
Q psy3450         132 SGQGRF----CTIIRS---YSRGAQGILLVYDITN  159 (432)
Q Consensus       132 ~G~e~~----~~l~~~---~~~~ad~iIlV~Dvt~  159 (432)
                      ||.-..    ..+...   .++++|++++|+|+.+
T Consensus        79 pGli~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          79 AGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             C---------------CCCSSTTCSEEEEEEETTC
T ss_pred             CCcccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            996322    222333   3578999999999864

>d2c9wa1 a.271.1.1 (A:149-198) Suppressor of cytokine signaling 2, SOCS-2 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: SOCS box-like
superfamily: SOCS box-like
family: SOCS box-like
domain: Suppressor of cytokine signaling 2, SOCS-2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=1.9e-07  Score=64.11  Aligned_cols=41  Identities=44%  Similarity=0.483  Sum_probs=36.3

Q ss_pred             ccchhhhhHhhhhhhhhhcccceeeccCCCChHHHHHhhhhhh
Q psy3450         311 LLSFSVISLQELCCRAIVARTTVYAINQLPLPNLIKSHLKSYA  353 (432)
Q Consensus       311 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  353 (432)
                      |++-+|-|||-+|+.+|-.+++  +|++||||+.|+.+|+.|-
T Consensus         7 Pl~~~~pSLQHLCR~~In~~~d--~i~~LPLP~~Lk~YL~eY~   47 (50)
T d2c9wa1           7 PLYTSAPSLQHLCRLTINKCTG--AIWGLPLPTRLKDYLEEYK   47 (50)
T ss_dssp             BCCSSCCCHHHHHHHHHHHHCS--CGGGSSSCHHHHHHHHTCC
T ss_pred             CccCCCCcHHHHHHHHHHhccC--CcccCCCCHHHHHHHHHcC
Confidence            4566788999999999988875  9999999999999999884

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.17  E-value=2e-06  Score=80.98  Aligned_cols=72  Identities=21%  Similarity=0.194  Sum_probs=46.4

Q ss_pred             EEEEEeCCCCccc-------------chhhhhcccCce-EEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         125 KLQLWDTSGQGRF-------------CTIIRSYSRGAQ-GILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       125 ~l~i~Dt~G~e~~-------------~~l~~~~~~~ad-~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      .+.|+|+||....             ..+...|+...+ ++++|.+.+...+-.....|.+.+...  ..++++|.||+|
T Consensus       126 ~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~~--~~r~i~Vltk~D  203 (299)
T d2akab1         126 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQ--GQRTIGVITKLD  203 (299)
T ss_dssp             SEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTT--CSSEEEEEECGG
T ss_pred             CeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCcC--CCceeeEEeccc
Confidence            3789999995321             233455666666 555666776665555556666655433  358999999999


Q ss_pred             CCCCcccC
Q psy3450         191 LAFNRTVT  198 (432)
Q Consensus       191 L~~~r~v~  198 (432)
                      +.++....
T Consensus       204 ~~~~~~~~  211 (299)
T d2akab1         204 LMDEGTDA  211 (299)
T ss_dssp             GSCTTCCC
T ss_pred             cccchhhH
Confidence            87654433

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.14  E-value=3.7e-06  Score=79.46  Aligned_cols=69  Identities=19%  Similarity=0.241  Sum_probs=44.7

Q ss_pred             EEEEEeCCCCcc-------------cchhhhhcccCceEEEEEE-eCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECcc
Q psy3450         125 KLQLWDTSGQGR-------------FCTIIRSYSRGAQGILLVY-DITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLH  190 (432)
Q Consensus       125 ~l~i~Dt~G~e~-------------~~~l~~~~~~~ad~iIlV~-Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~D  190 (432)
                      .+.|+||||...             ...+...|+..++.+|+++ +......-.....+...+...  ...+++|.||+|
T Consensus       132 ~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~~~--~~r~i~Vitk~D  209 (306)
T d1jwyb_         132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPE--GKRTIGVITKLD  209 (306)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSS--CSSEEEEEECTT
T ss_pred             CceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhCcC--CCeEEEEEeccc
Confidence            478999999632             1245567888899877766 444333333445555555432  358999999999


Q ss_pred             CCCCc
Q psy3450         191 LAFNR  195 (432)
Q Consensus       191 L~~~r  195 (432)
                      ..+..
T Consensus       210 ~~~~~  214 (306)
T d1jwyb_         210 LMDKG  214 (306)
T ss_dssp             SSCSS
T ss_pred             cccch
Confidence            86543

>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=97.74  E-value=4e-05  Score=69.42  Aligned_cols=84  Identities=19%  Similarity=0.157  Sum_probs=60.8

Q ss_pred             cccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHH--hcCCcEEEEcCCC
Q psy3450         144 YSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAI--KNQMAFFEVSPLC  220 (432)
Q Consensus       144 ~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~--~~~~~~~evSAkt  220 (432)
                      ...+.|.+++|+++.+|+ +..-+++|+-.....  ++|.+||.||+||.++.+  .+....+.+  ..+.+++.+||++
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~--~i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v~~vSa~~   82 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN--ELETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPIVKTSAKT   82 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT--TCEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCEEECCTTT
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc--CCCEEEEEeCcccCCHHH--HHHHHHhhcccccceeEEEecccc
Confidence            457889999999988864 455567777666554  589999999999964321  122233333  2346899999999


Q ss_pred             CCCHHHHHHHH
Q psy3450         221 DFNIRESFTEL  231 (432)
Q Consensus       221 g~nI~elf~~L  231 (432)
                      +.+++++.+.+
T Consensus        83 ~~g~~~L~~~l   93 (225)
T d1u0la2          83 GMGIEELKEYL   93 (225)
T ss_dssp             CTTHHHHHHHH
T ss_pred             chhHhhHHHHh
Confidence            99999988776

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=97.68  E-value=4.6e-05  Score=70.85  Aligned_cols=90  Identities=8%  Similarity=0.038  Sum_probs=63.6

Q ss_pred             hhhcccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHHHHHHhcCCcEEEEcCCC
Q psy3450         141 IRSYSRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAEMYAIKNQMAFFEVSPLC  220 (432)
Q Consensus       141 ~~~~~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~~~a~~~~~~~~evSAkt  220 (432)
                      ....++.+|+||+|.|+.++.+..+  .++.++.   .+.|+|+|.||+||.+.. . .++..++.+..+..++.+||++
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~---~~Kp~IlVlNK~DLv~~~-~-~~~w~~~f~~~~~~~i~isa~~   81 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL---KNKPRIMLLNKADKADAA-V-TQQWKEHFENQGIRSLSINSVN   81 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC---SSSCEEEEEECGGGSCHH-H-HHHHHHHHHTTTCCEEECCTTT
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH---cCCCeEEEEECccCCchH-H-HHHHHHHHHhcCCccceeeccc
Confidence            3457889999999999999877653  2233322   357999999999996432 1 1222333345567899999999


Q ss_pred             CCCHHHHHHHHHHHHhh
Q psy3450         221 DFNIRESFTELSRRALQ  237 (432)
Q Consensus       221 g~nI~elf~~L~~~i~~  237 (432)
                      +.++.++...+.+.+.+
T Consensus        82 ~~~~~~~~~~~~~~l~~   98 (273)
T d1puja_          82 GQGLNQIVPASKEILQE   98 (273)
T ss_dssp             CTTGGGHHHHHHHHHHH
T ss_pred             CCCccccchhhhhhhhh
Confidence            99998888777666543

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=97.43  E-value=2.6e-05  Score=72.65  Aligned_cols=26  Identities=23%  Similarity=0.401  Sum_probs=22.4

Q ss_pred             ccceEEEEEeCcccchhHHHHHhhhc
Q psy3450          57 YDYLLKFLLVGDSDVGKQEILSGLYL   82 (432)
Q Consensus        57 ~~~~iKVvvvG~~gvGKSSLln~L~~   82 (432)
                      ....++|+|+|.||||||||+|++..
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~  134 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAK  134 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCceEEEEEecCccchhhhhhhhhc
Confidence            34568999999999999999999833

>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=97.31  E-value=5.8e-05  Score=64.42  Aligned_cols=49  Identities=29%  Similarity=0.539  Sum_probs=36.2

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV   66 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv   66 (432)
                      +|||+|||+++|+.|+|||+++.++..      .++.+...+....+...+.+..
T Consensus         1 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~------~~~~~~~~~~~~~~~~~~~~~~   49 (169)
T d3raba_           1 NFDYMFKILIIGNSSVGKTSFLFRYAD------DSFTPAFVSTVGIDFKVKTIYR   49 (169)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHH------SCCCSSCCCCCSEEEEEEEEEE
T ss_pred             CCCeEEEEEEECCCCcCHHHHHHHHHc------CCCCcccccccccceeeEEEEe
Confidence            589999999999999999999999986      5555555555554444444333

>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=97.30  E-value=5.2e-05  Score=68.84  Aligned_cols=85  Identities=13%  Similarity=0.107  Sum_probs=61.6

Q ss_pred             cccCceEEEEEEeCCCCC-ChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCcccCHHHHH---HHHHhcCCcEEEEcCC
Q psy3450         144 YSRGAQGILLVYDITNKW-SFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTVTTREAE---MYAIKNQMAFFEVSPL  219 (432)
Q Consensus       144 ~~~~ad~iIlV~Dvt~~~-Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v~~ee~~---~~a~~~~~~~~evSAk  219 (432)
                      ...+.|.+++|+++.+|+ ++..+++++-....  .+++.+||.||+||.++.+ ..+...   +.....+++++.+||+
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~--~~i~pvIvlnK~DL~~~~~-~~~~~~~~~~~y~~~g~~v~~~Sa~   83 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA--NDIQPIICITKMDLIEDQD-TEDTIQAYAEDYRNIGYDVYLTSSK   83 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT--TTCEEEEEEECGGGCCCHH-HHHHHHHHHHHHHHHTCCEEECCHH
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHHH--cCCCEEEEEecccccccHH-HHHHHHHHHHHHhhccccceeeecC
Confidence            346899999999998764 55666777665554  4689999999999965322 112222   2334568999999999


Q ss_pred             CCCCHHHHHHHH
Q psy3450         220 CDFNIRESFTEL  231 (432)
Q Consensus       220 tg~nI~elf~~L  231 (432)
                      ++.|++++.+++
T Consensus        84 ~~~gl~~L~~~l   95 (231)
T d1t9ha2          84 DQDSLADIIPHF   95 (231)
T ss_dssp             HHTTCTTTGGGG
T ss_pred             ChhHHHHHHHhh
Confidence            999998887665

>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=97.23  E-value=8.6e-05  Score=63.02  Aligned_cols=45  Identities=20%  Similarity=0.456  Sum_probs=33.2

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEE
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKF   63 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKV   63 (432)
                      |||+|||+++|++++|||+++.++..      ..+.+...+....+...+.
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~------~~~~~~~~~~~~~~~~~~~   45 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTE------KKFMADCPHTIGVEFGTRI   45 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHH------SCCCSSCTTSCCCCEEEEE
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHh------CCCCCcccccccccceeEE
Confidence            68999999999999999999999987      5555544444444433333

>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=97.15  E-value=0.00011  Score=62.66  Aligned_cols=47  Identities=26%  Similarity=0.523  Sum_probs=34.4

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEE
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFL   64 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVv   64 (432)
                      +||++|||+++|+.++|||+++.++..      ..+.+...+....+...+.+
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l~~------~~f~~~~~~~~~~~~~~~~~   47 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRFTQ------GLFPPGQGATIGVDFMIKTV   47 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHH------SSCCTTCCCCCSEEEEEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHHh------CCCCCcccccccceEEEEEE
Confidence            589999999999999999999999886      55544444444444433333

>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=97.01  E-value=0.00017  Score=61.67  Aligned_cols=40  Identities=38%  Similarity=0.599  Sum_probs=29.4

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccccc
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYD   58 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~   58 (432)
                      +||+|||+++|++++|||+++.++..      ..+.....+.....
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~~~------~~~~~~~~~~~~~~   40 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRFTR------NEFNLESKSTIGVE   40 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHH------SCCCC---CCCSCE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHh------CCCCCcccccccce
Confidence            69999999999999999999999876      55544444444333

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.97  E-value=0.00024  Score=64.09  Aligned_cols=19  Identities=32%  Similarity=0.461  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      ..+++|.+|||||||+|+|
T Consensus        97 t~~~~G~SGVGKSTLiN~L  115 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAI  115 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHhh
Confidence            5789999999999999998

>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=96.96  E-value=0.00023  Score=62.05  Aligned_cols=50  Identities=30%  Similarity=0.466  Sum_probs=37.1

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      ++|++|||+++|+.++|||+++.++..      ..+...+.++.+.....+.+.++
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~------~~~~~~~~~t~~~~~~~~~i~~~   51 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSD------DTYTNDYISTIGVDFKIKTVELD   51 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHH------CCCCTTCCCSSCCCEEEEEEEET
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhh------CCCCCCcCCccceeEEEEEEEEe
Confidence            689999999999999999999999986      55555555555544444444443

>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=96.95  E-value=0.0002  Score=60.97  Aligned_cols=38  Identities=29%  Similarity=0.509  Sum_probs=30.2

Q ss_pred             ccceeeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      |||+|||+++|+.++|||+++.++..      ..+.+.+.++..
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~------~~~~~~~~~t~~   39 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIE------KKFKDDSNHTIG   39 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHH------SSCCTTCCCCSE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHh------CCCCcccccccc
Confidence            89999999999999999999999876      455444444433

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.94  E-value=0.0005  Score=61.19  Aligned_cols=94  Identities=13%  Similarity=0.020  Sum_probs=53.6

Q ss_pred             EEEEEEeCCCCcccchh----hhhcc--------cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         124 VKLQLWDTSGQGRFCTI----IRSYS--------RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l----~~~~~--------~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      ..+.|+||+|...+...    ...+.        ...+-++||.|.+...  +.+...........   +-=++.+|.|-
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~--~~~~~~~~~~~~~~---~~~lI~TKlDe  163 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ--NGLEQAKKFHEAVG---LTGVIVTKLDG  163 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCT--HHHHHHHHHHHHHC---CSEEEEECTTS
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCc--hHHHHHHHhhhccC---CceEEEeccCC
Confidence            46799999996433221    11111        1346788999987653  33333333333332   23567899996


Q ss_pred             CCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHHH
Q psy3450         192 AFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRESF  228 (432)
Q Consensus       192 ~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~elf  228 (432)
                      ..    ..-.+..++...+.|+..++  +|++.+++.
T Consensus       164 t~----~~G~~l~~~~~~~~Pi~~i~--~Gq~p~Dl~  194 (207)
T d1okkd2         164 TA----KGGVLIPIVRTLKVPIKFVG--VGEGPDDLQ  194 (207)
T ss_dssp             SC----CCTTHHHHHHHHCCCEEEEE--CSSSTTCEE
T ss_pred             CC----CccHHHHHHHHHCCCEEEEe--CCCChHhCc
Confidence            42    22335566777888887777  466655443

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.85  E-value=0.00017  Score=62.15  Aligned_cols=48  Identities=38%  Similarity=0.562  Sum_probs=35.7

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEE
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLL   65 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvv   65 (432)
                      +||+++||+++|+.++|||+++.++..      ..+.+...++...++..+.+.
T Consensus         1 ~~d~~~Ki~ivG~~~vGKTsLi~~l~~------~~~~~~~~~~~~~~~~~~~i~   48 (186)
T d2f7sa1           1 DYDYLIKLLALGDSGVGKTTFLYRYTD------NKFNPKFITTVGIDFREKRVV   48 (186)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHC------SCCCCEEEEEEEEEEEEEEEE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhc------CCCCCccCCcccceeeEEEEE
Confidence            589999999999999999999999876      555555555554444444333

>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=96.82  E-value=0.00023  Score=60.76  Aligned_cols=49  Identities=31%  Similarity=0.531  Sum_probs=22.1

Q ss_pred             cccceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV   66 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv   66 (432)
                      -+|++|||+++|++++|||+++.++..      ..+.+...++...+...+.+-+
T Consensus         2 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~------~~~~~~~~~t~~~~~~~~~~~~   50 (173)
T d2fu5c1           2 TYDYLFKLLLIGDSGVGKTCVLFRFSE------DAFNSTFISTIGIDFKIRTIEL   50 (173)
T ss_dssp             CCSEEEEEEEECCCCC----------------------CHHHHHCEEEEEEEEEE
T ss_pred             cccEEEEEEEECCCCcCHHHHHHHHHh------CCCCCccCccccceEEEEEEEE
Confidence            379999999999999999999999986      3443333444444444444433

>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=96.79  E-value=0.00033  Score=59.23  Aligned_cols=47  Identities=28%  Similarity=0.361  Sum_probs=38.4

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      |.|||+++|+.|+|||+++.|+..      +.+.+.+.++...+...+....+
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~------~~f~~~~~~t~~~~~~~~~~~~~   48 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCE------NKFNDKHITTLGASFLTKKLNIG   48 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHH------CCCCSSCCCCCSCEEEEEEEESS
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHh------CCCCcccccccccchheeeeccC
Confidence            789999999999999999999987      67777667777666666666655

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.72  E-value=0.0004  Score=62.08  Aligned_cols=93  Identities=14%  Similarity=0.041  Sum_probs=54.8

Q ss_pred             EEEEEEeCCCCcccchh----hhhcc---c-----CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         124 VKLQLWDTSGQGRFCTI----IRSYS---R-----GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l----~~~~~---~-----~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      +.+.|+||+|...+...    ...+.   +     ..+-++||.|.+..  .+.+...........   +-=++.+|.|-
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~~---~~~lI~TKlDe  168 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQAKIFKEAVN---VTGIILTKLDG  168 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHHHHHHHHHSC---CCEEEEECGGG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccC--cchhhhhhhhccccC---CceEEEecccC
Confidence            45799999996433221    11111   1     13668899998643  333444433333332   33577899996


Q ss_pred             CCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         192 AFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       192 ~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                      ..    ..-.+...+...+.|+..++  +|.+++++
T Consensus       169 ~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl  198 (213)
T d1vmaa2         169 TA----KGGITLAIARELGIPIKFIG--VGEKAEDL  198 (213)
T ss_dssp             CS----CTTHHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             CC----cccHHHHHHHHHCCCEEEEe--CCCCcccC
Confidence            32    23355667778888888887  67777553

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.0014  Score=58.37  Aligned_cols=92  Identities=10%  Similarity=0.052  Sum_probs=54.5

Q ss_pred             EEEEEEeCCCCcccch-h---hhh---ccc-----CceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccC
Q psy3450         124 VKLQLWDTSGQGRFCT-I---IRS---YSR-----GAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHL  191 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~-l---~~~---~~~-----~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL  191 (432)
                      +.+.|+||+|...... +   ...   ..+     ..+-++||.|.+..  .+.+...........   +-=++.+|.|-
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~~---~~~lIlTKlDe  166 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG--QNAVSQAKLFHEAVG---LTGITLTKLDG  166 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGT--HHHHHHHHHHHHHSC---CCEEEEECCTT
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccC--cchHHHHhhhhhccC---CceEEEeecCC
Confidence            4579999999532211 1   111   122     24578899998754  333343333333321   33577899996


Q ss_pred             CCCcccCHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         192 AFNRTVTTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       192 ~~~r~v~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                      ..    ..-.+...+...+.|+..++  +|++|++
T Consensus       167 ~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         167 TA----KGGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             CT----TTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CC----CccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            32    23455667778889888887  7877755

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.0062  Score=54.18  Aligned_cols=93  Identities=11%  Similarity=0.085  Sum_probs=48.6

Q ss_pred             EEEEeCCCCcccchhhhhc--------ccCceEEEEEEeCCCCCChhhH-HHHHHHHHhhCCCCcEEEEEECccCCCCcc
Q psy3450         126 LQLWDTSGQGRFCTIIRSY--------SRGAQGILLVYDITNKWSFDGI-DRWLKEVEEHAPGVPKVLVGNRLHLAFNRT  196 (432)
Q Consensus       126 l~i~Dt~G~e~~~~l~~~~--------~~~ad~iIlV~Dvt~~~Sf~~l-~~~l~~i~~~~~~iPiILVgNK~DL~~~r~  196 (432)
                      ..++.+.|......+...+        .-..+++|.|+|+.+....-.- ..+..++..     .=+||.||+|+..+  
T Consensus        92 ~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~-----AD~ivlNK~Dl~~~--  164 (222)
T d1nija1          92 RLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGY-----ADRILLTKTDVAGE--  164 (222)
T ss_dssp             EEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHT-----CSEEEEECTTTCSC--
T ss_pred             eeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHHh-----CCcccccccccccH--
Confidence            3566677754333322211        1235888999998764211111 112233322     22678999999643  


Q ss_pred             cCHHHHHHHHHhcC--CcEEEEcCCCCCCHHHHH
Q psy3450         197 VTTREAEMYAIKNQ--MAFFEVSPLCDFNIRESF  228 (432)
Q Consensus       197 v~~ee~~~~a~~~~--~~~~evSAktg~nI~elf  228 (432)
                        .+..++..+..+  +++++++ .-...++.+|
T Consensus       165 --~~~~~~~l~~lNP~a~Ii~~~-~g~v~~~~ll  195 (222)
T d1nija1         165 --AEKLHERLARINARAPVYTVT-HGDIDLGLLF  195 (222)
T ss_dssp             --THHHHHHHHHHCSSSCEEECC-SSCCCGGGGS
T ss_pred             --HHHHHHHHHHHhCCCeEEEee-CCccCHHHhh
Confidence              244555566554  5777655 2234555554

>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=96.57  E-value=0.00068  Score=61.22  Aligned_cols=19  Identities=32%  Similarity=0.635  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      ..+++|.+|||||||+|+|
T Consensus        99 ~~vl~G~SGVGKSSLiN~L  117 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAI  117 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHhh
Confidence            4679999999999999998

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.52  E-value=0.0014  Score=58.43  Aligned_cols=93  Identities=12%  Similarity=0.050  Sum_probs=56.1

Q ss_pred             EEEEEEeCCCCcccch--h----hhhcc--cCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCc
Q psy3450         124 VKLQLWDTSGQGRFCT--I----IRSYS--RGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNR  195 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~--l----~~~~~--~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r  195 (432)
                      ..+.++||+|...+..  .    ...+.  -..+-+++|.|++...  +.+..........  + +-=++.+|.|..   
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~--~~~~~~~~~~~~~--~-~~~lI~TKlDet---  166 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ--KAYDLASKFNQAS--K-IGTIIITKMDGT---  166 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG--GHHHHHHHHHHHC--T-TEEEEEECTTSC---
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCc--chHHHHhhhhccc--C-cceEEEecccCC---
Confidence            4679999999643321  1    11111  2346788898887542  3333333333322  1 234679999963   


Q ss_pred             ccCHHHHHHHHHhcCCcEEEEcCCCCCCHHHH
Q psy3450         196 TVTTREAEMYAIKNQMAFFEVSPLCDFNIRES  227 (432)
Q Consensus       196 ~v~~ee~~~~a~~~~~~~~evSAktg~nI~el  227 (432)
                       ...-.+..++...+.|+..++  +|.+|+++
T Consensus       167 -~~~G~~l~~~~~~~lPi~~it--~Gq~v~DL  195 (211)
T d1j8yf2         167 -AKGGGALSAVAATGATIKFIG--TGEKIDEL  195 (211)
T ss_dssp             -SCHHHHHHHHHTTTCCEEEEE--CSSSTTCE
T ss_pred             -CcccHHHHHHHHHCcCEEEEe--CCCCcccC
Confidence             235566778888899988887  68777553

>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=96.33  E-value=0.00099  Score=57.34  Aligned_cols=36  Identities=28%  Similarity=0.322  Sum_probs=29.1

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      .++||+++|++|+|||+++.|+..      ..+.+.+.++..
T Consensus         8 ~~~Ki~lvG~~~vGKTsLi~r~~~------~~f~~~~~~Ti~   43 (185)
T d2atxa1           8 LMLKCVVVGDGAVGKTCLLMSYAN------DAFPEEYVPTVF   43 (185)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHH------SSCCCSCCCSSC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHhh------CCCCCcCCCcee
Confidence            679999999999999999999987      555555555544

>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=96.33  E-value=0.00097  Score=56.61  Aligned_cols=43  Identities=26%  Similarity=0.520  Sum_probs=29.0

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEE
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKF   63 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKV   63 (432)
                      |+|||+++|++++|||+++.++..      ..+.+.+.+........+.
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~------~~~~~~~~~~~~~~~~~~~   44 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTD------KRFQPVHDLTIGVEFGARM   44 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHH------SCCCC-----CCSSEEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhc------CCCCCCcccceeeccceee
Confidence            889999999999999999999876      5555444444444433333

>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=96.32  E-value=0.0011  Score=56.02  Aligned_cols=27  Identities=48%  Similarity=0.692  Sum_probs=25.2

Q ss_pred             cccceeeEEEEecCCCcccceechhhh
Q psy3450          12 QYDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        12 ~~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      -||++|||+++|+.++|||+++.++..
T Consensus         2 ~~d~~fKi~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           2 FYDVAFKVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999999999876

>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=96.15  E-value=0.0012  Score=55.82  Aligned_cols=42  Identities=26%  Similarity=0.279  Sum_probs=31.8

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEE
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLK   62 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iK   62 (432)
                      .+|||+++|++++|||+++.++..      ..+.+.+.++...++..+
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~------~~f~~~~~~T~~~~~~~~   44 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMY------DEFVEDYEPTKADSYRKK   44 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH------SCCCSCCCTTCCEEEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHh------CCCCcccCCccccccccc
Confidence            368999999999999999999986      566555555555444433

>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=96.12  E-value=0.0013  Score=55.82  Aligned_cols=46  Identities=26%  Similarity=0.377  Sum_probs=31.0

Q ss_pred             cceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEE
Q psy3450          14 DYLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLL   65 (432)
Q Consensus        14 d~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvv   65 (432)
                      +.+|||+++|++++|||+++.++..      ..+.+.+.++.......+...
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~------~~~~~~~~~t~~~~~~~~~~~   49 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVT------NKFDTQLFHTIGVEFLNKDLE   49 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHH------SCCCC----CCSEEEEEEEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHh------CCCCCccccceeeeeeeeeee
Confidence            5789999999999999999999987      555555555444443333333

>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=96.11  E-value=0.0017  Score=54.36  Aligned_cols=45  Identities=18%  Similarity=0.234  Sum_probs=32.9

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEE
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLL   65 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvv   65 (432)
                      .+|||+++|+.|+|||+++.++..      ..+.+...++.......+...
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~------~~~~~~~~~~~~~~~~~~~~~   45 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCA------GRFPDRTEATIGVDFRERAVD   45 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHH------SSCCSSCCCCCSCCEEEEEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHh------CCCCCccCcccccccceeeee
Confidence            378999999999999999999987      666555555554444444433

>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=95.98  E-value=0.0013  Score=55.42  Aligned_cols=20  Identities=25%  Similarity=0.699  Sum_probs=18.8

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +||+|+|++|+|||||++.+
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i   20 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKI   20 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHH
Confidence            58999999999999999987

>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=95.96  E-value=0.0018  Score=54.39  Aligned_cols=46  Identities=30%  Similarity=0.468  Sum_probs=31.1

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      |+||+++|++++|||+++.++..      ..+.+...++...+...+.+-++
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~------~~~~~~~~~t~~~~~~~~~i~~~   47 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVE------DKFNPSFITTIGIDFKIKTVDIN   47 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH------CCCCC-------CCEEEEEEESS
T ss_pred             EEEEEEECCCCcCHHHHHHHHHh------CCCCCccCCccceeEEEEEEEEC
Confidence            78999999999999999999876      55556556666666665555554

>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=95.91  E-value=0.0017  Score=54.74  Aligned_cols=41  Identities=15%  Similarity=0.173  Sum_probs=31.9

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEE
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKF   63 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKV   63 (432)
                      +||+++|++|+|||+++.++..      ..+.+.+.++.+.++..++
T Consensus         3 iKi~lvG~~~vGKTsli~r~~~------~~f~~~~~pTi~~~~~~~~   43 (168)
T d2atva1           3 VKLAIFGRAGVGKSALVVRFLT------KRFIWEYDPTLESTYRHQA   43 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH------SCCCSCCCTTCCEEEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHh------CCCCCccCCceeccccccc
Confidence            5999999999999999999987      6666666666655544343

>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=95.83  E-value=0.0018  Score=54.21  Aligned_cols=21  Identities=19%  Similarity=0.370  Sum_probs=19.1

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .=+|+|.|++|+|||||+++|
T Consensus         7 ~K~I~i~G~~GsGKTTla~~L   27 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKL   27 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            347999999999999999998

>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=95.78  E-value=0.0023  Score=53.94  Aligned_cols=34  Identities=15%  Similarity=0.197  Sum_probs=27.2

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      |||+++|++++|||+++.++..      ..+.+.+.++..
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~------~~f~~~~~~t~~   39 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQ------SYFVTDYDPTIE   39 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH------SCCCSSCCTTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh------CCCCcccCcccc
Confidence            7999999999999999999987      555555555444

>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=95.75  E-value=0.0024  Score=53.34  Aligned_cols=38  Identities=18%  Similarity=0.439  Sum_probs=28.5

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccce
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYL   60 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~   60 (432)
                      |||+++|+.|+|||+++.|+..      ..+.+.+.++......
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~------~~~~~~~~~~~~~~~~   38 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMY------DSFDNTYQATIGIDFL   38 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH------SCCCSSCCCCCSEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHh------CCCCCccccceeeecc
Confidence            6999999999999999999986      5555554444443333

>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=95.69  E-value=0.002  Score=54.19  Aligned_cols=39  Identities=15%  Similarity=0.168  Sum_probs=30.4

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccce
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYL   60 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~   60 (432)
                      -|||+++|+.|+|||+++.|+..      ..+.+.+.++....+.
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~------~~f~~~~~~t~~~~~~   41 (167)
T d1c1ya_           3 EYKLVVLGSGGVGKSALTVQFVQ------GIFVEKYDPTIEDSYR   41 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH------CCCCCSCCCCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHc------CCCCCccCCccccccc
Confidence            37999999999999999999987      6666665555554443

>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=95.66  E-value=0.0024  Score=53.60  Aligned_cols=40  Identities=18%  Similarity=0.169  Sum_probs=29.9

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEE
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLK   62 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iK   62 (432)
                      |||+++|+.++|||+++.++..      ..+.+.+.++.+..+..+
T Consensus         4 ~Ki~viG~~~vGKTsli~~l~~------~~~~~~~~~~~~~~~~~~   43 (166)
T d1ctqa_           4 YKLVVVGAGGVGKSALTIQLIQ------NHFVDEYDPTIEDSYRKQ   43 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH------CCCCCSCCCCSEEEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHh------CCCCCccCCccceeeccc
Confidence            6999999999999999999987      555555555554444333

>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=95.63  E-value=0.0029  Score=53.05  Aligned_cols=45  Identities=24%  Similarity=0.341  Sum_probs=32.6

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      +||+++|+.++|||+++.|+..      ..+.+.+.++............+
T Consensus         5 ~Ki~lvG~~~vGKTsli~rl~~------~~f~~~~~~t~~~~~~~~~~~~~   49 (167)
T d1z0ja1           5 LKVCLLGDTGVGKSSIMWRFVE------DSFDPNINPTIGASFMTKTVQYQ   49 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH------SCCCTTCCCCCSEEEEEEEEEET
T ss_pred             eEEEEECCCCcCHHHHHHHHHh------CCCCccccccccccccccccccc
Confidence            6999999999999999999987      66666555555544444444333

>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=95.62  E-value=0.0028  Score=53.25  Aligned_cols=45  Identities=18%  Similarity=0.308  Sum_probs=33.9

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      +||+++|+.++|||+++.++..      +.+.+.+.++.+.++..+.+..+
T Consensus         4 iKi~vvG~~~vGKTsLi~~~~~------~~f~~~~~~t~~~~~~~~~i~~~   48 (170)
T d1ek0a_           4 IKLVLLGEAAVGKSSIVLRFVS------NDFAENKEPTIGAAFLTQRVTIN   48 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH------SCCCTTCCCCSSEEEEEEEEEET
T ss_pred             EEEEEECCCCcCHHHHHHHHHh------CCCCccccccccceeeccccccc
Confidence            6999999999999999999987      66666666666555544444443

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.60  E-value=0.0079  Score=53.07  Aligned_cols=92  Identities=16%  Similarity=0.090  Sum_probs=49.6

Q ss_pred             EEEEEEeCCCCcccchh-h---hhc--ccCceEEEEEEeCCCCCChhhHHHHHHHHHhhCCCCcEEEEEECccCCCCccc
Q psy3450         124 VKLQLWDTSGQGRFCTI-I---RSY--SRGAQGILLVYDITNKWSFDGIDRWLKEVEEHAPGVPKVLVGNRLHLAFNRTV  197 (432)
Q Consensus       124 v~l~i~Dt~G~e~~~~l-~---~~~--~~~ad~iIlV~Dvt~~~Sf~~l~~~l~~i~~~~~~iPiILVgNK~DL~~~r~v  197 (432)
                      ..+.++||+|...+... .   ..+  ..+.+-+++|.|.+...  +.+ .....+.+..+  +-=++.+|.|-..    
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~--~~~-~~~~~f~~~~~--~~~~I~TKlDe~~----  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQ--EAL-SVARAFDEKVG--VTGLVLTKLDGDA----  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTH--HHH-HHHHHHHHHTC--CCEEEEECGGGCS----
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccch--hHH-HHHHHHHhhCC--CCeeEEeecCccc----
Confidence            45799999996433221 1   111  23457889999987652  222 22333322211  2237789999532    


Q ss_pred             CHHHHHHHHHhcCCcEEEEcCCCCCCHHH
Q psy3450         198 TTREAEMYAIKNQMAFFEVSPLCDFNIRE  226 (432)
Q Consensus       198 ~~ee~~~~a~~~~~~~~evSAktg~nI~e  226 (432)
                      ..-.+..++...+.|+..++  .|++.++
T Consensus       164 ~~G~~l~~~~~~~~Pi~~i~--~Gq~ped  190 (207)
T d1ls1a2         164 RGGAALSARHVTGKPIYFAG--VSEKPEG  190 (207)
T ss_dssp             SCHHHHHHHHHHCCCEEEEC--------C
T ss_pred             cchHHHHHHHHHCCCEEEEe--CCCChhh
Confidence            23456677778888877775  3444443

>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=95.53  E-value=0.0025  Score=53.91  Aligned_cols=43  Identities=19%  Similarity=0.174  Sum_probs=28.7

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEE
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFL   64 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVv   64 (432)
                      .||++++|+.++|||+++.++..      +.+...+.++.+.+...+.+
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~------~~f~~~~~~Ti~~~~~~~~~   45 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLT------GEFEKKYVATLGVEVHPLVF   45 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----------CCEEEETTEEEEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHh------CCCCcccccceecccccccc
Confidence            47999999999999999999987      55555555555544443433

>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=95.48  E-value=0.0036  Score=53.35  Aligned_cols=41  Identities=32%  Similarity=0.481  Sum_probs=31.0

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEE
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLK   62 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iK   62 (432)
                      |+||+++|+.++|||+++.++..      ..+.+.+.++.+.+...+
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~------~~f~~~~~~t~~~~~~~~   42 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVN------KKFSNQYKATIGADFLTK   42 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH------SCCCSSCCCCCSEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHh------CCCCCCcCCccceeeeee
Confidence            78999999999999999999987      555555555554444333

>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=95.38  E-value=0.0036  Score=52.42  Aligned_cols=34  Identities=15%  Similarity=0.193  Sum_probs=27.1

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      |||+++|+.|+|||+++.|+..      +.+.+.+.++..
T Consensus         4 ~Ki~lvG~~~vGKTsLi~r~~~------~~f~~~~~~t~~   37 (167)
T d1kaoa_           4 YKVVVLGSGGVGKSALTVQFVT------GTFIEKYDPTIE   37 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH------SCCCSCCCTTCC
T ss_pred             eEEEEECCCCcCHHHHHHHHHh------CCCCCccCCcee
Confidence            6999999999999999999987      555555544443

>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=95.28  E-value=0.0046  Score=51.97  Aligned_cols=37  Identities=27%  Similarity=0.408  Sum_probs=26.8

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccccc
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYD   58 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~   58 (432)
                      ++||+++|+.++|||+++.++..      ..+.+.+.++....
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~------~~~~~~~~~t~~~~   38 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVN------DKYSQQYKATIGAD   38 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHH------SCCCTTC---CCCS
T ss_pred             eEEEEEECCCCcCHHHHHHHHHc------CCCCCccCcccccc
Confidence            68999999999999999999876      55555444444433

>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=95.28  E-value=0.0043  Score=52.88  Aligned_cols=42  Identities=24%  Similarity=0.278  Sum_probs=31.5

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEE
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKF   63 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKV   63 (432)
                      -+||+++|++|+|||+++.++..      ..+.+.+.++.......++
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~------~~f~~~~~~ti~~~~~~~~   46 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTT------NAFPGEYIPTVFDNYSANV   46 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH------SSCCSSCCCCSCCEEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHh------CCCCcccccceeeceeeee
Confidence            47999999999999999999987      6666665655554333333

>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=95.18  E-value=0.0043  Score=52.07  Aligned_cols=34  Identities=12%  Similarity=0.201  Sum_probs=26.9

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      |||+++|++|+|||+++.++..      ..+.+.+.++.+
T Consensus         3 ~Ki~viG~~~vGKTsLi~r~~~------~~f~~~~~~T~~   36 (171)
T d2erxa1           3 YRVAVFGAGGVGKSSLVLRFVK------GTFRESYIPTVE   36 (171)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT------CCCCSSCCCCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHh------CCCCCccCccee
Confidence            5999999999999999999987      555555455444

>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=95.17  E-value=0.0034  Score=52.10  Aligned_cols=21  Identities=38%  Similarity=0.531  Sum_probs=19.0

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..||+|+|++|+||||+.+.|
T Consensus         4 ~~~I~i~G~pGsGKTTia~~L   24 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKEL   24 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            358999999999999999987

>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=95.16  E-value=0.0044  Score=51.63  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=20.1

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..++|+|.|++||||||+.+.|
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~L   25 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMI   25 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHH
Confidence            4579999999999999999987

>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=95.06  E-value=0.0059  Score=51.26  Aligned_cols=37  Identities=19%  Similarity=0.284  Sum_probs=28.6

Q ss_pred             eeeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccccc
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYD   58 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~   58 (432)
                      .|||+++|+.|+|||+++.++..      ..+.+...++....
T Consensus         6 ~~Ki~vvG~~~vGKTsLi~~l~~------~~f~~~~~~t~~~~   42 (170)
T d1r2qa_           6 QFKLVLLGESAVGKSSLVLRFVK------GQFHEFQESTIGAA   42 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH------SCCCTTCCCCSSEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHh------CCCCcccccccccc
Confidence            58999999999999999999987      55555555444433

>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=95.02  E-value=0.007  Score=50.45  Aligned_cols=40  Identities=23%  Similarity=0.341  Sum_probs=29.8

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEE
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLK   62 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iK   62 (432)
                      +||+++|++++|||+++.++..      ..+.+.+.++...+...+
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~------~~~~~~~~~ti~~~~~~~   42 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCK------GIFTKDYKKTIGVDFLER   42 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH------CCCCCCSSCCCSSSEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHh------CCCCccccccccccccee
Confidence            6999999999999999999886      555555555555444333

>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=94.99  E-value=0.0055  Score=51.56  Aligned_cols=34  Identities=24%  Similarity=0.308  Sum_probs=27.3

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      |||+++|++++|||+++.++..      ..+.+.+.++..
T Consensus         5 ~Ki~lvG~~~vGKTsll~~~~~------~~~~~~~~~t~~   38 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALTIQFFQ------KIFVPDYDPTIE   38 (169)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH------SSCCTTCCTTCC
T ss_pred             EEEEEECCCCcCHHHHHHHHHh------CCCCcccCccee
Confidence            7999999999999999999987      555555555444

>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=94.77  E-value=0.0061  Score=52.32  Aligned_cols=34  Identities=26%  Similarity=0.347  Sum_probs=27.7

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      +||+++|+.|+|||+++.|+..      ..+.+.+.++..
T Consensus         4 iKvvllG~~~vGKTSli~r~~~------~~f~~~~~~t~~   37 (191)
T d2ngra_           4 IKCVVVGDGAVGKTCLLISYTT------NKFPSEYVPTVF   37 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH------SCCCSSCCCCSE
T ss_pred             eEEEEECCCCcCHHHHHHHHHh------CCCCCCcCCcee
Confidence            6999999999999999999987      666555555554

>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=94.77  E-value=0.0057  Score=50.57  Aligned_cols=18  Identities=28%  Similarity=0.372  Sum_probs=17.1

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      ++|+|.+|+|||||++++
T Consensus         5 i~itG~~GSGKTTL~~~L   22 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKL   22 (170)
T ss_dssp             EEEECCTTSCHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHH
Confidence            789999999999999998

>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=94.76  E-value=0.0083  Score=50.54  Aligned_cols=46  Identities=20%  Similarity=0.150  Sum_probs=31.6

Q ss_pred             ceeeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEeC
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLVG   67 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvvG   67 (432)
                      ..+||+++|+.++|||+++.++..      ..+.+.+.++.. +...+.+.++
T Consensus         5 ~~~Kv~lvG~~~vGKTsLi~r~~~------~~f~~~~~~t~~-~~~~~~~~~~   50 (173)
T d2fn4a1           5 ETHKLVVVGGGGVGKSALTIQFIQ------SYFVSDYDPTIE-DSYTKICSVD   50 (173)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHH------SSCCSSCCTTCC-EEEEEEEEET
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHh------CCCCcccccccc-cceeeEeccC
Confidence            558999999999999999999886      555555444432 2233444443

>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=94.73  E-value=0.0075  Score=50.96  Aligned_cols=44  Identities=32%  Similarity=0.488  Sum_probs=30.9

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccceEEEEEe
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDYLLKFLLV   66 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~~iKVvvv   66 (432)
                      +||+++|+.++|||+++.++..      .++.+...+........+.+-+
T Consensus         8 iKi~vvG~~~vGKTsli~~l~~------~~~~~~~~~~~~~~~~~~~~~~   51 (177)
T d1x3sa1           8 LKILIIGESGVGKSSLLLRFTD------DTFDPELAATIGVDFKVKTISV   51 (177)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH------SCCCTTCCCCCSEEEEEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHHh------CCCCCccccceeecceeEEEEE
Confidence            8999999999999999999876      5555544444444444444333

>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=94.65  E-value=0.008  Score=50.16  Aligned_cols=37  Identities=14%  Similarity=0.155  Sum_probs=29.0

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQYDY   59 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~~~~   59 (432)
                      +||+++|++|+|||+++.++..      ..+.+.+.++...++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~------~~f~~~~~~t~~~~~   41 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE------GQFVDSYDPTIENTF   41 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH------SCCCSCCCSSCCEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHHh------CCCCcccCcceeccc
Confidence            6999999999999999999976      556555555555444

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.52  E-value=0.0073  Score=50.87  Aligned_cols=20  Identities=20%  Similarity=0.396  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +||+|+|+||+||||+.+.|
T Consensus         1 m~I~i~G~pGSGKsT~a~~L   20 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKI   20 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999886

>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=94.38  E-value=0.0081  Score=48.91  Aligned_cols=18  Identities=22%  Similarity=0.327  Sum_probs=16.6

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |++.|.+|+|||||+++|
T Consensus         5 Iii~G~pGsGKTTla~~L   22 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREF   22 (152)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            678999999999999987

>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=94.33  E-value=0.011  Score=49.71  Aligned_cols=24  Identities=21%  Similarity=0.432  Sum_probs=22.1

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ..|||+++|+.++|||+++.++..
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHh
Confidence            579999999999999999999865

>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=94.26  E-value=0.0089  Score=49.19  Aligned_cols=18  Identities=28%  Similarity=0.595  Sum_probs=16.8

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|.|++|+||||++++|
T Consensus         5 I~i~G~~GsGKTTva~~L   22 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRL   22 (176)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            788999999999999987

>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=94.23  E-value=0.01  Score=50.00  Aligned_cols=34  Identities=24%  Similarity=0.210  Sum_probs=26.9

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCcccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQKQ   56 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~~   56 (432)
                      .||+++|++|+|||+++.++..      ..+.+.+.++..
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~------~~f~~~~~~t~~   36 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSK------DQFPEVYVPTVF   36 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH------SCCCSSCCCCSE
T ss_pred             EEEEEECCCCcCHHHHHHHHHh------CCCCCCcCCcee
Confidence            5999999999999999999887      555555554443

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=94.18  E-value=0.0096  Score=50.51  Aligned_cols=20  Identities=20%  Similarity=0.386  Sum_probs=18.6

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +||+|+|+||+||||+...|
T Consensus         1 M~I~i~G~pGSGKsT~a~~L   20 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRI   20 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            48999999999999999987

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=94.14  E-value=0.01  Score=50.62  Aligned_cols=21  Identities=24%  Similarity=0.332  Sum_probs=19.4

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .+||+++|+||+||||+...|
T Consensus         3 ~~riil~G~pGSGKsT~a~~L   23 (190)
T d1ak2a1           3 GVRAVLLGPPGAGKGTQAPKL   23 (190)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHH
Confidence            469999999999999999987

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.13  E-value=0.01  Score=50.29  Aligned_cols=20  Identities=30%  Similarity=0.491  Sum_probs=18.7

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +||+|+|+||+||||+.+.|
T Consensus         1 m~I~i~G~pGsGKsT~a~~L   20 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKL   20 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            48999999999999999987

>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=94.03  E-value=0.0093  Score=48.42  Aligned_cols=19  Identities=37%  Similarity=0.496  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+++|++||||||+.+.|
T Consensus         4 ~I~l~G~~GsGKSTvak~L   22 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQL   22 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            4899999999999999987

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.99  E-value=0.023  Score=52.16  Aligned_cols=24  Identities=21%  Similarity=0.216  Sum_probs=20.0

Q ss_pred             ceEEEEEeCcccchhHHHHHhhhc
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGLYL   82 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L~~   82 (432)
                      +..=|.|+|+.++|||+|+|.++.
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~   54 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAG   54 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTT
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcC
Confidence            345677999999999999999843

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=93.88  E-value=0.0089  Score=51.05  Aligned_cols=21  Identities=24%  Similarity=0.302  Sum_probs=19.2

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      +++|+|+|++|+||||+.+.|
T Consensus         3 Pm~I~i~GppGsGKsT~a~~L   23 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELI   23 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999987

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=93.87  E-value=0.013  Score=50.45  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=20.3

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..++|+|+|+||+||||+...|
T Consensus         5 r~mrIiliG~PGSGKtT~a~~L   26 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRI   26 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHH
T ss_pred             cceeEEEECCCCCCHHHHHHHH
Confidence            4679999999999999999987

>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=93.82  E-value=0.013  Score=49.73  Aligned_cols=33  Identities=24%  Similarity=0.261  Sum_probs=26.6

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQK   55 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~   55 (432)
                      .||+++|+.|+|||+++.++..      ..+.+.+.++.
T Consensus         3 ~KivliG~~~vGKTsli~r~~~------~~f~~~~~~t~   35 (179)
T d1m7ba_           3 CKIVVVGDSQCGKTALLHVFAK------DCFPENYVPTV   35 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH------SCCCSSCCCCS
T ss_pred             eEEEEECCCCcCHHHHHHHHHh------CCCCCccCCce
Confidence            5999999999999999999987      66655555444

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.82  E-value=0.012  Score=49.81  Aligned_cols=21  Identities=24%  Similarity=0.490  Sum_probs=19.4

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .+||+|+|++|+||||+.+.|
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~L   22 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNL   22 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            368999999999999999987

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=93.81  E-value=0.01  Score=49.53  Aligned_cols=19  Identities=21%  Similarity=0.379  Sum_probs=16.9

Q ss_pred             EE-EEeCcccchhHHHHHhh
Q psy3450          62 KF-LLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KV-vvvG~~gvGKSSLln~L   80 (432)
                      || .|+|.+|+|||||++++
T Consensus         2 kii~I~G~~gSGKTTli~~l   21 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKW   21 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHH
Confidence            44 49999999999999997

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.78  E-value=0.012  Score=49.77  Aligned_cols=20  Identities=20%  Similarity=0.375  Sum_probs=18.5

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +||+|+|+||+||||+.+.|
T Consensus         1 m~I~i~G~pGSGKsT~~~~L   20 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFI   20 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            48999999999999999887

>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=93.70  E-value=0.013  Score=48.51  Aligned_cols=18  Identities=28%  Similarity=0.532  Sum_probs=17.0

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|.|++|+|||||+..+
T Consensus         4 v~ItG~~GtGKTtl~~~i   21 (189)
T d2i3ba1           4 VFLTGPPGVGKTTLIHKA   21 (189)
T ss_dssp             EEEESCCSSCHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHH
Confidence            789999999999999987

>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=93.54  E-value=0.014  Score=49.96  Aligned_cols=20  Identities=30%  Similarity=0.307  Sum_probs=17.9

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      .=|+++|.||+|||||.++|
T Consensus         3 ~li~l~GlpgsGKSTla~~L   22 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKL   22 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            34789999999999999987

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=93.43  E-value=0.018  Score=49.11  Aligned_cols=21  Identities=14%  Similarity=0.232  Sum_probs=18.6

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      +.-|+|+|+||+||||+.++|
T Consensus         6 p~iI~i~G~pGSGKsT~a~~L   26 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANI   26 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHH
Confidence            356789999999999999987

>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=93.21  E-value=0.017  Score=49.34  Aligned_cols=18  Identities=33%  Similarity=0.602  Sum_probs=17.1

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|+|++||||+||+++|
T Consensus         4 Ivl~GpsG~GK~tl~~~L   21 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKL   21 (186)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            789999999999999987

>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=93.14  E-value=0.011  Score=50.38  Aligned_cols=22  Identities=36%  Similarity=0.678  Sum_probs=20.7

Q ss_pred             eeeEEEEecCCCcccceechhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYK   37 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~   37 (432)
                      ++||+++|++|+|||+++.|+.
T Consensus         2 ~iKivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            6899999999999999999993

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.07  E-value=0.015  Score=48.43  Aligned_cols=19  Identities=42%  Similarity=0.431  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +|+++|.+||||||+.+.+
T Consensus         3 ~IvliG~~G~GKSTig~~L   21 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRL   21 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHH
Confidence            6899999999999998876

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=93.06  E-value=0.018  Score=48.17  Aligned_cols=20  Identities=30%  Similarity=0.499  Sum_probs=16.8

Q ss_pred             EEEE-EeCcccchhHHHHHhh
Q psy3450          61 LKFL-LVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVv-vvG~~gvGKSSLln~L   80 (432)
                      +||+ |.|.+||||||+++.|
T Consensus         1 mkiivi~G~~GsGKTT~~~~L   21 (194)
T d1nksa_           1 MKIGIVTGIPGVGKSTVLAKV   21 (194)
T ss_dssp             CEEEEEEECTTSCHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            3665 5699999999999987

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.02  E-value=0.022  Score=48.43  Aligned_cols=20  Identities=20%  Similarity=0.393  Sum_probs=18.6

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +.|+|+|+||+||||+..++
T Consensus         2 ~iI~i~GppGSGKsT~a~~L   21 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARI   21 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            68999999999999999887

>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=93.00  E-value=0.019  Score=47.62  Aligned_cols=18  Identities=17%  Similarity=0.161  Sum_probs=16.2

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|.|.+|+||||+++.|
T Consensus         4 I~i~G~~GsGKsT~~~~L   21 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLA   21 (190)
T ss_dssp             EEEECCTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            677799999999999987

>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=92.91  E-value=0.02  Score=48.47  Aligned_cols=18  Identities=39%  Similarity=0.606  Sum_probs=16.6

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|+|++||||+||++.|
T Consensus         5 ivl~GpsG~GK~tl~~~L   22 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCL   22 (182)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            678899999999999987

>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=92.82  E-value=0.021  Score=48.33  Aligned_cols=21  Identities=19%  Similarity=0.180  Sum_probs=18.6

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..=|+++|.+|+||||+++++
T Consensus        14 p~liil~G~pGsGKST~a~~l   34 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEH   34 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            346889999999999999997

>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=92.71  E-value=0.018  Score=48.54  Aligned_cols=22  Identities=36%  Similarity=0.694  Sum_probs=20.5

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|+.|+|||+++.|+..
T Consensus         3 ~KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           3 VKLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhh
Confidence            5999999999999999999875

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {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: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.70  E-value=0.13  Score=45.01  Aligned_cols=19  Identities=32%  Similarity=0.471  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|++|+|||+++..+
T Consensus        35 ~lll~Gp~G~GKTt~~~~l   53 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMAL   53 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            4899999999999999886

>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=92.57  E-value=0.024  Score=46.69  Aligned_cols=18  Identities=33%  Similarity=0.604  Sum_probs=16.2

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      ++|+|.+|+||||+.+.|
T Consensus         9 ivl~G~~GsGKsT~a~~L   26 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEV   26 (171)
T ss_dssp             EEEECSTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            557899999999999987

>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=92.52  E-value=0.048  Score=48.59  Aligned_cols=19  Identities=26%  Similarity=0.385  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|++|+|||||++.+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i   51 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNII   51 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCcchhhHhc
Confidence            4789999999999999976

>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=92.52  E-value=0.017  Score=48.93  Aligned_cols=22  Identities=32%  Similarity=0.694  Sum_probs=20.9

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|+.++|||+++.|+..
T Consensus         3 ~Kiv~lG~~~vGKTsll~r~~~   24 (200)
T d2bcjq2           3 LKLLLLGTGESGKSTFIKQMRI   24 (200)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhC
Confidence            6999999999999999999976

>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=92.41  E-value=0.026  Score=48.10  Aligned_cols=19  Identities=32%  Similarity=0.621  Sum_probs=17.5

Q ss_pred             EEEeCcccchhHHHHHhhh
Q psy3450          63 FLLVGDSDVGKQEILSGLY   81 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~   81 (432)
                      |+|+|++|+||+||+++|.
T Consensus         6 ivl~Gpsg~GK~tl~~~L~   24 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLI   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999999973

>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=92.32  E-value=0.029  Score=45.44  Aligned_cols=22  Identities=41%  Similarity=0.629  Sum_probs=20.5

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|++++|||+++.++..
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~   22 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKL   22 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            4999999999999999999876

>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=92.28  E-value=0.025  Score=47.18  Aligned_cols=23  Identities=30%  Similarity=0.459  Sum_probs=21.1

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .|||+++|+.|+|||+++.++..
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHT
T ss_pred             CeEEEEECCCCcCHHHHHHHHhC
Confidence            48999999999999999999875

>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=92.24  E-value=0.028  Score=48.22  Aligned_cols=18  Identities=39%  Similarity=0.610  Sum_probs=17.0

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|+|++||||+||+++|
T Consensus         3 Ivl~GPsGsGK~tl~~~L   20 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKL   20 (190)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            789999999999999987

>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=91.99  E-value=0.03  Score=48.86  Aligned_cols=20  Identities=20%  Similarity=0.489  Sum_probs=17.7

Q ss_pred             EEEeCcccchhHHHHHhhhc
Q psy3450          63 FLLVGDSDVGKQEILSGLYL   82 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L~~   82 (432)
                      |+|+|++||||+||+++|+.
T Consensus         5 ivi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67899999999999999843

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=91.95  E-value=0.057  Score=47.79  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=18.5

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      +.-|++.|+||+|||+|+..+
T Consensus        32 P~~ilL~GpPGtGKT~la~~l   52 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAI   52 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            335889999999999999987

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=91.94  E-value=0.029  Score=46.28  Aligned_cols=18  Identities=39%  Similarity=0.610  Sum_probs=16.3

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |++.|++|+||||+.+.|
T Consensus         7 I~l~G~~GsGKSTia~~L   24 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEAL   24 (176)
T ss_dssp             EEEEECTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            668899999999999987

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=91.92  E-value=0.035  Score=48.32  Aligned_cols=19  Identities=42%  Similarity=0.798  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++||++|||||+++..+
T Consensus        45 n~lLvG~pGVGKTalv~~L   63 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGL   63 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHH
Confidence            6899999999999999887

>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=91.89  E-value=0.02  Score=50.39  Aligned_cols=26  Identities=27%  Similarity=0.579  Sum_probs=23.1

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      |.+.+||+++|+.|+|||+++.++..
T Consensus         3 ~k~~~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           3 YRATHRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             HHHSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             chhcCEEEEECCCCCCHHHHHHHHhc
Confidence            45678999999999999999999865

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=91.87  E-value=0.033  Score=45.73  Aligned_cols=18  Identities=39%  Similarity=0.591  Sum_probs=15.5

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|.|.+|+||||+.+.|
T Consensus         6 I~l~G~~GsGKsTva~~L   23 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCL   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            445599999999999987

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=91.83  E-value=0.03  Score=46.57  Aligned_cols=19  Identities=21%  Similarity=0.427  Sum_probs=17.2

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +|+++|.+|+||||+.+.+
T Consensus         2 ~I~liG~~GsGKsTi~k~L   20 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARAL   20 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHH
Confidence            4889999999999999887

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=91.83  E-value=0.034  Score=45.72  Aligned_cols=20  Identities=30%  Similarity=0.509  Sum_probs=17.7

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      +-|.++|.+|+||||+.+.|
T Consensus         7 ~~I~l~G~~GsGKTTia~~L   26 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARAL   26 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            56789999999999999876

>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=91.70  E-value=0.075  Score=47.58  Aligned_cols=19  Identities=21%  Similarity=0.480  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|++|+|||||++.+
T Consensus        33 ~~~iiG~sGsGKSTLl~~i   51 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCV   51 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4789999999999999986

>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=91.64  E-value=0.061  Score=48.18  Aligned_cols=18  Identities=28%  Similarity=0.484  Sum_probs=16.6

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      ++++|+.|+|||||++.+
T Consensus        27 ~~liGpnGaGKSTll~~i   44 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELI   44 (240)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCChHHHHHHHH
Confidence            578999999999999987

>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=91.50  E-value=0.063  Score=47.79  Aligned_cols=19  Identities=26%  Similarity=0.518  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|++|+|||||++.+
T Consensus        28 ~~~liGpsGaGKSTll~~l   46 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELI   46 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            3789999999999999987

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.40  E-value=0.055  Score=46.01  Aligned_cols=20  Identities=20%  Similarity=0.310  Sum_probs=17.9

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      --|+|+|+||+||||+...|
T Consensus         9 ~iI~i~GppGSGKsT~a~~L   28 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKL   28 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            35889999999999999987

>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=91.33  E-value=0.043  Score=49.29  Aligned_cols=19  Identities=26%  Similarity=0.328  Sum_probs=18.0

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +|+|+|++|+|||||++.+
T Consensus        31 ~vaIvG~sGsGKSTLl~ll   49 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLI   49 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            6999999999999999986

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=91.27  E-value=0.043  Score=50.09  Aligned_cols=19  Identities=58%  Similarity=0.821  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++||++|||||+|+..|
T Consensus        41 n~lLVG~~GvGKTalv~~l   59 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGL   59 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             CcEEECCCCCcHHHHHHHH
Confidence            6899999999999999987

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.23  E-value=0.036  Score=46.61  Aligned_cols=20  Identities=30%  Similarity=0.348  Sum_probs=17.7

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      .-|.++|.+|+||||+.+.|
T Consensus        20 ~vI~L~G~pGSGKTTiAk~L   39 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMAL   39 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHH
Confidence            45778899999999999987

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

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: Erwinia chrysanthemi [TaxId: 556]

Probab=91.05  E-value=0.046  Score=45.60  Aligned_cols=18  Identities=22%  Similarity=0.412  Sum_probs=16.7

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+++|.+|+||||+.+.+
T Consensus         5 Iil~G~~GsGKSTia~~L   22 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGREL   22 (170)
T ss_dssp             EEEESCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            678999999999999987

>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=91.01  E-value=0.1  Score=46.61  Aligned_cols=19  Identities=32%  Similarity=0.480  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|++|+|||||++.+
T Consensus        31 ~~~liG~sGaGKSTll~~i   49 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMI   49 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            4789999999999999986

>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=91.01  E-value=0.088  Score=47.18  Aligned_cols=19  Identities=26%  Similarity=0.524  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+.++|++|+|||||++.+
T Consensus        33 ~~~iiG~sGsGKSTll~~i   51 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRII   51 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            5899999999999999986

>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=90.76  E-value=0.048  Score=47.92  Aligned_cols=19  Identities=26%  Similarity=0.518  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|+||+|||++++.+
T Consensus        37 ~~Ll~GPpG~GKTtla~~l   55 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVI   55 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            5889999999999999987

>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=90.72  E-value=0.053  Score=48.67  Aligned_cols=19  Identities=37%  Similarity=0.394  Sum_probs=18.0

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +++|+|++|+|||||++.+
T Consensus        30 ~vaivG~sGsGKSTLl~ll   48 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLL   48 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            7899999999999999986

>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=90.72  E-value=0.053  Score=48.94  Aligned_cols=19  Identities=32%  Similarity=0.364  Sum_probs=18.0

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +++|+|++|+|||||++.+
T Consensus        42 ~vaivG~sGsGKSTLl~li   60 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALL   60 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            6899999999999999986

>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=90.70  E-value=0.04  Score=44.80  Aligned_cols=22  Identities=27%  Similarity=0.554  Sum_probs=20.8

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|++++|||+++.++..
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~   27 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQV   27 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhC
Confidence            6999999999999999999876

>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=90.61  E-value=0.049  Score=49.19  Aligned_cols=19  Identities=42%  Similarity=0.480  Sum_probs=18.0

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +++|+|++|+|||||++.+
T Consensus        43 ~iaivG~sGsGKSTLl~ll   61 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLI   61 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            6999999999999999986

>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=90.58  E-value=0.044  Score=45.24  Aligned_cols=33  Identities=15%  Similarity=0.109  Sum_probs=25.4

Q ss_pred             eeEEEEecCCCcccceechhhhHHHHHhhhcCccccccc
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKLELTAWLMETKPVVATQK   55 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~~l~~~~~~~~~~~~~~~   55 (432)
                      +||+++|.+++|||+++.++..      ..+.+.+.++.
T Consensus         3 ~ki~i~G~~~~GKTsLl~~l~~------~~~~~~~~~T~   35 (164)
T d1zd9a1           3 MELTLVGLQYSGKTTFVNVIAS------GQFNEDMIPTV   35 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH------SCCCCSCCCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHc------CCCCCcccccc
Confidence            5999999999999999999876      55544444433

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

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: Pig (Sus scrofa) [TaxId: 9823]

Probab=90.58  E-value=0.047  Score=46.48  Aligned_cols=18  Identities=22%  Similarity=0.401  Sum_probs=16.9

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|+|+||+||||+..+|
T Consensus        11 I~l~G~pGSGKsT~a~~L   28 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKI   28 (194)
T ss_dssp             EEEEECTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            778999999999999987

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.55  E-value=0.052  Score=48.45  Aligned_cols=19  Identities=32%  Similarity=0.492  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -++++|++|+|||||++.+
T Consensus        28 i~~liGpsGsGKSTLl~~i   46 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMI   46 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            4789999999999999986

>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=90.40  E-value=0.055  Score=47.01  Aligned_cols=19  Identities=21%  Similarity=0.417  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .++++|+.|+|||||++.+
T Consensus        29 i~~l~G~NGsGKSTLl~~i   47 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTI   47 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            3789999999999999986

>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=90.35  E-value=0.065  Score=45.12  Aligned_cols=22  Identities=23%  Similarity=0.536  Sum_probs=21.0

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +|++++|++++|||+++.++..
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~   27 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLT   27 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            7999999999999999999987

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=90.28  E-value=0.057  Score=47.31  Aligned_cols=19  Identities=26%  Similarity=0.464  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|+||+|||++++.+
T Consensus        37 ~~L~~GPpGtGKT~lA~~l   55 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHII   55 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHH
Confidence            5899999999999999987

>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=90.13  E-value=0.11  Score=46.28  Aligned_cols=19  Identities=32%  Similarity=0.524  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|+.|+|||||++.+
T Consensus        34 i~~liGpnGaGKSTl~~~i   52 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAI   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            3789999999999999987

>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=89.93  E-value=0.056  Score=48.88  Aligned_cols=19  Identities=26%  Similarity=0.384  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +++|+|++|+|||||++.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll   64 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLI   64 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTT
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            7999999999999999975

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=89.89  E-value=0.057  Score=47.49  Aligned_cols=19  Identities=26%  Similarity=0.240  Sum_probs=17.1

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|+|.|++|+|||+|++++
T Consensus        31 ~i~i~G~~G~GKTsLl~~~   49 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIG   49 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHH
Confidence            3678899999999999987

>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=89.79  E-value=0.063  Score=49.23  Aligned_cols=19  Identities=21%  Similarity=0.417  Sum_probs=17.8

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +++|+|+.|+|||||++.+
T Consensus        64 ~vaivG~nGsGKSTLl~~i   82 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLI   82 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            5899999999999999986

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=89.59  E-value=0.069  Score=47.82  Aligned_cols=19  Identities=32%  Similarity=0.469  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|++|+|||||++.+
T Consensus        34 ~~~liGpsGaGKSTLl~~i   52 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMI   52 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHH
Confidence            4789999999999999986

>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=89.44  E-value=0.09  Score=43.91  Aligned_cols=21  Identities=29%  Similarity=0.260  Sum_probs=18.8

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .+=|.|-|++|+|||||.++|
T Consensus        22 ~~iIgI~G~~GSGKSTla~~L   42 (198)
T d1rz3a_          22 RLVLGIDGLSRSGKTTLANQL   42 (198)
T ss_dssp             SEEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            455889999999999999987

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=89.37  E-value=0.079  Score=45.65  Aligned_cols=21  Identities=14%  Similarity=0.309  Sum_probs=18.6

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .++|+|-|++||||||+...|
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~L   23 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKII   23 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            367888899999999999987

>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=89.28  E-value=0.066  Score=44.14  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=21.7

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ...||+++|++|+|||+++.++..
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            457999999999999999999876

>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=89.21  E-value=0.15  Score=46.01  Aligned_cols=19  Identities=26%  Similarity=0.475  Sum_probs=17.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|++|+|||||++.+
T Consensus        30 i~~iiG~sGsGKSTLl~~i   48 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCI   48 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            4789999999999999987

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=89.21  E-value=0.076  Score=46.62  Aligned_cols=20  Identities=30%  Similarity=0.391  Sum_probs=18.0

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.++|.|++|+|||++++.+
T Consensus        44 ~~lll~GppGtGKT~l~~~l   63 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKL   63 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHH
Confidence            36899999999999999986

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=89.18  E-value=0.074  Score=49.17  Aligned_cols=20  Identities=40%  Similarity=0.659  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      --|+++|+||||||.|.+.+
T Consensus        50 ~~iLl~GPpG~GKT~lAkal   69 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRL   69 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHH
Confidence            35889999999999999987

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {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: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=89.06  E-value=0.11  Score=46.49  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=19.6

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      +.-.|++.|++|+|||+|++.+
T Consensus        39 p~~~vLL~GppGtGKT~la~al   60 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKI   60 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHH
Confidence            4557999999999999999987

>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=88.68  E-value=0.056  Score=43.42  Aligned_cols=21  Identities=33%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             eEEEEecCCCcccceechhhh
Q psy3450          18 KFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        18 Ki~liGd~gvGKssll~r~~~   38 (432)
                      ||+++|++++|||+++.++..
T Consensus         2 KI~liG~~nvGKSSLln~l~~   22 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKN   22 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            899999999999999999876

>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=88.67  E-value=0.17  Score=45.49  Aligned_cols=18  Identities=22%  Similarity=0.547  Sum_probs=17.0

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      +.++|+.|+|||||++.+
T Consensus        33 ~~liG~nGaGKSTLl~~i   50 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVI   50 (254)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHH
Confidence            689999999999999987

>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=88.55  E-value=0.084  Score=43.51  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=20.7

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|+.|+|||+++.++..
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            7999999999999999999876

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=88.39  E-value=0.076  Score=46.92  Aligned_cols=18  Identities=17%  Similarity=0.281  Sum_probs=15.7

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      +.+.|+||+|||++++.+
T Consensus        49 l~l~GppGtGKT~l~~~l   66 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFT   66 (287)
T ss_dssp             EECTTCCSSSHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHH
Confidence            456699999999999987

>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=88.33  E-value=0.083  Score=46.90  Aligned_cols=19  Identities=32%  Similarity=0.562  Sum_probs=17.5

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|+.|+|||||++.+
T Consensus        27 i~~iiG~nGaGKSTLl~~l   45 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARM   45 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHH
Confidence            3789999999999999987

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon 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: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=88.01  E-value=0.1  Score=45.35  Aligned_cols=19  Identities=32%  Similarity=0.503  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|++|+|||++++.+
T Consensus        47 ~lll~Gp~G~GKTtla~~i   65 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALAL   65 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHH
Confidence            4899999999999999986

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {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: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.96  E-value=0.1  Score=45.78  Aligned_cols=20  Identities=20%  Similarity=0.255  Sum_probs=18.1

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.+++.|++|+|||+++..+
T Consensus        53 ~~lll~GPpG~GKTt~a~~l   72 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLV   72 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHH
Confidence            35889999999999999987

>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=87.87  E-value=0.078  Score=43.89  Aligned_cols=26  Identities=27%  Similarity=0.397  Sum_probs=22.9

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      ++.-+||+++|++++|||+++.++..
T Consensus        13 ~~~~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          13 PDQEVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhc
Confidence            44568999999999999999999876

>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=87.86  E-value=0.15  Score=43.04  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.5

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..+=|+|-|..||||||+++.|
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L   29 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHF   29 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHH
Confidence            4467899999999999999987

>d1egaa2 d.52.3.1 (A:183-295) GTPase Era C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Alpha-lytic protease prodomain-like
superfamily: Prokaryotic type KH domain (KH-domain type II)
family: Prokaryotic type KH domain (KH-domain type II)
domain: GTPase Era C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.44  E-value=0.018  Score=45.69  Aligned_cols=25  Identities=12%  Similarity=-0.071  Sum_probs=23.3

Q ss_pred             eccccCCccccccccccccchhhhh
Q psy3450         294 FAGLVRPSVDVNKNKYNLLSFSVIS  318 (432)
Q Consensus       294 ~~~~~~~~~~~~~~~~~~~~~~~~~  318 (432)
                      .+|++|++++.++++|+||+..|..
T Consensus        12 i~EiIRE~il~~l~~EiPY~~~v~i   36 (113)
T d1egaa2          12 ASEIIREKLMRFLGAELPYSVTVEI   36 (113)
T ss_dssp             HHHHHHHHHHHHHGGGCCTTEEEEE
T ss_pred             HHHHHHHHHHHhcccccCeEEEEEE
Confidence            7899999999999999999999954

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.23  E-value=0.15  Score=43.78  Aligned_cols=21  Identities=14%  Similarity=0.264  Sum_probs=18.7

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ++-|.|-|.+|+|||||.+.|
T Consensus         2 P~iIgI~G~~gSGKSTla~~L   22 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKI   22 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            466889999999999999987

>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=87.04  E-value=0.078  Score=43.46  Aligned_cols=22  Identities=32%  Similarity=0.620  Sum_probs=20.4

Q ss_pred             eeEEEEecCCCcccceechhhh
Q psy3450          17 LKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        17 ~Ki~liGd~gvGKssll~r~~~   38 (432)
                      +||+++|+.++|||+++.++..
T Consensus         3 ~ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           3 LRLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHcC
Confidence            6999999999999999999865

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=86.72  E-value=0.13  Score=45.74  Aligned_cols=19  Identities=32%  Similarity=0.454  Sum_probs=17.3

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -+.++|+.|+|||||++.+
T Consensus        30 i~glvG~nGaGKSTLl~~l   48 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRII   48 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999987

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=86.28  E-value=0.15  Score=43.48  Aligned_cols=18  Identities=22%  Similarity=0.396  Sum_probs=15.8

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|.|+||+||+|+...+
T Consensus         6 I~I~GppGSGKgT~ak~L   23 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAM   23 (225)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            566699999999999987

>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=86.19  E-value=0.093  Score=43.52  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=21.1

Q ss_pred             eeeEEEEecCCCcccceechhhh
Q psy3450          16 LLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        16 l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      -+||+++|++++|||+++.++..
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            37999999999999999999875

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {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: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=86.16  E-value=0.097  Score=50.15  Aligned_cols=19  Identities=42%  Similarity=0.798  Sum_probs=16.6

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      ++++||++|||||+|+..|
T Consensus        45 n~llvG~~GvGKtaiv~~l   63 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGL   63 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHH
Confidence            4689999999999999765

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {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: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=86.08  E-value=0.15  Score=45.52  Aligned_cols=20  Identities=35%  Similarity=0.534  Sum_probs=18.3

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      -.|++.|++|+|||+|++.+
T Consensus        43 ~giLl~GppGtGKT~la~ai   62 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAV   62 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHH
Confidence            35899999999999999997

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {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: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.63  E-value=0.17  Score=43.82  Aligned_cols=19  Identities=21%  Similarity=0.448  Sum_probs=17.1

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|++|+||||+++.+
T Consensus        38 ~~ll~Gp~G~GKTt~a~~l   56 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCL   56 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHH
Confidence            3789999999999999876

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {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: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.35  E-value=0.17  Score=43.67  Aligned_cols=18  Identities=28%  Similarity=0.510  Sum_probs=16.8

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      +++.|++|+|||++++.+
T Consensus        36 lll~Gp~G~GKTtl~~~i   53 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILAL   53 (237)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHH
Confidence            789999999999999886

>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=85.29  E-value=1.2  Score=37.30  Aligned_cols=21  Identities=29%  Similarity=0.349  Sum_probs=19.5

Q ss_pred             eEEEEecCCCcccceechhhh
Q psy3450          18 KFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        18 Ki~liGd~gvGKssll~r~~~   38 (432)
                      +|+++|..++|||+++.++..
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            689999999999999999876

>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=85.27  E-value=0.083  Score=43.76  Aligned_cols=17  Identities=24%  Similarity=0.495  Sum_probs=15.9

Q ss_pred             EEeCcccchhHHHHHhh
Q psy3450          64 LLVGDSDVGKQEILSGL   80 (432)
Q Consensus        64 vvvG~~gvGKSSLln~L   80 (432)
                      +|+|+.|+|||||+..+
T Consensus        28 vi~G~NGsGKStil~Ai   44 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAF   44 (222)
T ss_dssp             HHHSCCSHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHH
Confidence            68899999999999998

>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=84.97  E-value=0.12  Score=43.23  Aligned_cols=24  Identities=29%  Similarity=0.470  Sum_probs=21.5

Q ss_pred             ceeeEEEEecCCCcccceechhhh
Q psy3450          15 YLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        15 ~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .-+||+++|++++|||+++.++..
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            347999999999999999999865

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

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: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=84.96  E-value=0.15  Score=47.12  Aligned_cols=19  Identities=32%  Similarity=0.550  Sum_probs=17.7

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+++|++|+|||+|++++
T Consensus        30 ~vLl~G~pG~GKT~lar~~   48 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRAL   48 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHH
Confidence            5899999999999999986

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=84.88  E-value=0.16  Score=49.45  Aligned_cols=19  Identities=42%  Similarity=0.730  Sum_probs=18.3

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      +|+++|++|||||-|+++|
T Consensus        51 NILliGPTGvGKTlLAr~L   69 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRL   69 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHH
Confidence            7999999999999999998

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic 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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.87  E-value=0.19  Score=41.75  Aligned_cols=18  Identities=28%  Similarity=0.386  Sum_probs=16.6

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      +.|.|++|+|||+|+..|
T Consensus        26 ~~i~G~~GsGKT~l~l~l   43 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTL   43 (242)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHH
Confidence            678999999999999987

>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=84.74  E-value=0.13  Score=47.97  Aligned_cols=20  Identities=15%  Similarity=0.431  Sum_probs=18.4

Q ss_pred             EEEEEeCcccchhHHHHHhh
Q psy3450          61 LKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        61 iKVvvvG~~gvGKSSLln~L   80 (432)
                      ..|+|.|++|+|||||++.|
T Consensus       167 ~nili~G~tgSGKTT~l~al  186 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSI  186 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHH
T ss_pred             CCEEEEeeccccchHHHHHH
Confidence            35899999999999999998

>d1gsia_ c.37.1.1 (A:) Thymidylate 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: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=84.63  E-value=0.21  Score=42.32  Aligned_cols=19  Identities=21%  Similarity=0.386  Sum_probs=17.2

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      -|+|-|..||||||+++.|
T Consensus         2 lI~ieG~dGsGKST~~~~L   20 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKL   20 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4889999999999999987

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {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: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.54  E-value=0.2  Score=43.17  Aligned_cols=19  Identities=26%  Similarity=0.520  Sum_probs=17.4

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .+++.|++|+|||+++..+
T Consensus        37 ~lLl~Gp~G~GKttl~~~l   55 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVAL   55 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHH
Confidence            4789999999999999987

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=84.54  E-value=0.2  Score=45.04  Aligned_cols=21  Identities=24%  Similarity=0.370  Sum_probs=18.7

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .-.+++.|+||+|||++++.+
T Consensus        45 ~~~iLL~GppGtGKT~la~~i   65 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAKAI   65 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHHHH
T ss_pred             CCeEEeeCCCCCCccHHHHHH
Confidence            346899999999999999987

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.54  E-value=0.27  Score=43.93  Aligned_cols=21  Identities=29%  Similarity=0.328  Sum_probs=18.8

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .-.|++.|+||+|||+|++.+
T Consensus        38 ~~giLL~GppGtGKT~l~~al   58 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAV   58 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH
T ss_pred             CceeEEecCCCCCchHHHHHH
Confidence            346999999999999999987

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {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: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=82.22  E-value=0.29  Score=42.35  Aligned_cols=22  Identities=32%  Similarity=0.296  Sum_probs=18.8

Q ss_pred             ceEEEEEeCcccchhHHHHHhh
Q psy3450          59 YLLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        59 ~~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ...=|.+.|.+|+|||||.+.|
T Consensus        23 kg~vIwltGlsGsGKTTia~~L   44 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVEL   44 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            3445889999999999999987

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=82.17  E-value=0.31  Score=40.78  Aligned_cols=21  Identities=19%  Similarity=0.262  Sum_probs=18.6

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      ++=|.|.|.+|+||||+++.|
T Consensus         3 p~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            466889999999999999976

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic 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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.00  E-value=0.27  Score=42.17  Aligned_cols=19  Identities=26%  Similarity=0.333  Sum_probs=17.1

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      =++|.|++|+|||+|+.++
T Consensus        36 ~~li~G~pGsGKT~l~lq~   54 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTL   54 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            3678899999999999987

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.96  E-value=0.26  Score=42.48  Aligned_cols=19  Identities=26%  Similarity=0.403  Sum_probs=17.1

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      .|+|-|..||||||+++.|
T Consensus         4 ~I~ieG~dGsGKST~~~~L   22 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNIL   22 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4788899999999999986

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.66  E-value=0.29  Score=43.89  Aligned_cols=21  Identities=19%  Similarity=0.289  Sum_probs=18.7

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .--|++.|++|+|||+|++.+
T Consensus        41 ~~giLL~Gp~GtGKT~l~~al   61 (265)
T d1r7ra3          41 SKGVLFYGPPGCGKTLLAKAI   61 (265)
T ss_dssp             CCEEEEBCCTTSSHHHHHHHH
T ss_pred             CCeEEEECCCCCcchhHHHHH
Confidence            345999999999999999997

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon 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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=80.68  E-value=0.31  Score=42.15  Aligned_cols=19  Identities=21%  Similarity=0.286  Sum_probs=17.1

Q ss_pred             EEEEeCcccchhHHHHHhh
Q psy3450          62 KFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        62 KVvvvG~~gvGKSSLln~L   80 (432)
                      =++|.|++|+|||+|..+|
T Consensus        38 ~~li~G~pGsGKT~~~lq~   56 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTL   56 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHH
Confidence            4678899999999999987

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=80.52  E-value=0.32  Score=41.49  Aligned_cols=18  Identities=17%  Similarity=0.239  Sum_probs=16.2

Q ss_pred             EEEeCcccchhHHHHHhh
Q psy3450          63 FLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        63 VvvvG~~gvGKSSLln~L   80 (432)
                      |+|-|..|+||||+++.|
T Consensus         5 IviEG~dGsGKsT~~~~L   22 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVV   22 (210)
T ss_dssp             EEEEECTTSCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            677799999999999987

>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=80.31  E-value=0.21  Score=40.99  Aligned_cols=26  Identities=23%  Similarity=0.291  Sum_probs=22.5

Q ss_pred             ccceeeEEEEecCCCcccceechhhh
Q psy3450          13 YDYLLKFLLVGDSDVGKQEILSGYKL   38 (432)
Q Consensus        13 ~d~l~Ki~liGd~gvGKssll~r~~~   38 (432)
                      .|..+||+++|..++|||+++++...
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhC
Confidence            35568999999999999999988754

>d1um8a_ c.37.1.20 (A:) ClpX {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: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=80.27  E-value=0.35  Score=45.67  Aligned_cols=21  Identities=29%  Similarity=0.423  Sum_probs=18.7

Q ss_pred             eEEEEEeCcccchhHHHHHhh
Q psy3450          60 LLKFLLVGDSDVGKQEILSGL   80 (432)
Q Consensus        60 ~iKVvvvG~~gvGKSSLln~L   80 (432)
                      .-.++++|++|||||-|.++|
T Consensus        68 ~~niLfiGPTGvGKTElAk~L   88 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTL   88 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHH
T ss_pred             CcceeeeCCCCccHHHHHHHH
Confidence            346999999999999999987